Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 115 of 198
Found at i:36690994 original size:69 final size:69
Alignment explanation
Indices: 36690916--36691287 Score: 268
Period size: 69 Copynumber: 5.4 Consensus size: 69
36690906 AAAAGCGAAG
* *** *
36690916 CTCCCAACTGTCATGCTAAGGCTCGTAGGCGAAGAGTTGCAACCTCTTGCACAGATAGTGAGAGC
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
*
36690981 AAAC
66 AAAA
* * * * *
36690985 CTCCTAACTGT--TGTTAAGGCTCGCAAGCGAAGAGTCGCAGCCTCCAACACAGTTAGTGAGAGC
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
*
36691048 AAAG
66 AAAA
* * * * * * * *
36691052 CTCCCAGCTGTCGTCCTCAGGTTCGCAGGCGAAAAG--CCAAAGCCTCCAACACAGTTAGCGAGA
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGC-AA-CCTCCAACACAGTTAGTGAGA
36691115 GCAAAA
64 GCAAAA
* * * * **
36691121 CTCCCAGCTGTCATGCTAAGGCTCGCAGGCAAAGAGTTGCAGCCTCCAACACAATTAGCAAGAGC
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
*
36691186 AAAG
66 AAAA
* * ** * * * * * * ** * * *
36691190 CTACCAATTGTTGTGTTAAGACTTGCAAGTGAAAAGTCACAACCTCCAAAAAAGTTAGCGAGAG-
1 CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
36691254 AAAA
66 AAAA
* * * *
36691258 GCTCCTAGCTGTCGTACTAAGGCTCGCAGG
1 -CTCCCAACTGTCATGCTAAGGCTCGCAGG
36691288 TGAAAAATCA
Statistics
Matches: 232, Mismatches: 64, Indels: 14
0.75 0.21 0.05
Matches are distributed among these distances:
67 56 0.24
68 4 0.02
69 170 0.73
70 1 0.00
71 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (69 bp):
CTCCCAACTGTCATGCTAAGGCTCGCAGGCGAAGAGTTGCAACCTCCAACACAGTTAGTGAGAGC
AAAA
Found at i:36691185 original size:138 final size:137
Alignment explanation
Indices: 36690965--36691287 Score: 339
Period size: 138 Copynumber: 2.4 Consensus size: 137
36690955 CAACCTCTTG
* * * * * * *
36690965 CACAGATAGTGAGAGCAAACCTCCTAACTGT-TGTTAAGGCTCGCAAGCGAAGAGTCGCAGCCTC
1 CACAGTTAGCGAGAGCAAAACTCCTAGCTGTCTGCTAAGGCTCGCAGGCAAAGAGTCGCAGCCTC
* ** * * * * *
36691029 CAACACAGTTAGTGAGAGCAAAGCTCCCAGCTGTCGTCCTCAG-GTTCGCAGGCGAAAAGCCA-A
66 CAACACAATTAGCAAGAGCAAAGCTACCAACTGTCGTCCTAAGACTT-GCAAGCGAAAAGCCACA
36691092 AGCCTCCAA
130 A-CCTCCAA
* *
36691101 CACAGTTAGCGAGAGCAAAACTCCCAGCTGTCATGCTAAGGCTCGCAGGCAAAGAGTTGCAGCCT
1 CACAGTTAGCGAGAGCAAAACTCCTAGCTGTC-TGCTAAGGCTCGCAGGCAAAGAGTCGCAGCCT
* * ** * *
36691166 CCAACACAATTAGCAAGAGCAAAGCTACCAATTGTTGTGTTAAGACTTGCAAGTGAAAAGTCACA
65 CCAACACAATTAGCAAGAGCAAAGCTACCAACTGTCGTCCTAAGACTTGCAAGCGAAAAGCCACA
36691231 ACCTCCAA
130 ACCTCCAA
* * *
36691239 AAAAGTTAGCGAGAG-AAAAGCTCCTAGCTGTCGTACTAAGGCTCGCAGG
1 CACAGTTAGCGAGAGCAAAA-CTCCTAGCTGTC-TGCTAAGGCTCGCAGG
36691288 TGAAAAATCA
Statistics
Matches: 154, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
136 26 0.17
137 4 0.03
138 120 0.78
139 4 0.03
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.18
Consensus pattern (137 bp):
CACAGTTAGCGAGAGCAAAACTCCTAGCTGTCTGCTAAGGCTCGCAGGCAAAGAGTCGCAGCCTC
CAACACAATTAGCAAGAGCAAAGCTACCAACTGTCGTCCTAAGACTTGCAAGCGAAAAGCCACAA
CCTCCAA
Found at i:36691343 original size:14 final size:14
Alignment explanation
Indices: 36691324--36691356 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
36691314 AATCTCCTAG
36691324 CTACCACATTGAAA
1 CTACCACATTGAAA
36691338 CTACCACATTGAAA
1 CTACCACATTGAAA
36691352 CTACC
1 CTACC
36691357 GGATGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.21
Consensus pattern (14 bp):
CTACCACATTGAAA
Found at i:36695876 original size:29 final size:29
Alignment explanation
Indices: 36695834--36695895 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
36695824 TTGTTGACCT
* * *
36695834 CACATGGTCGTGTGTTTGGCAGTGTGAGC
1 CACATGGTCGTGTGGTTAGCAGTGCGAGC
*
36695863 CACATGGGT-GTGTGGTTAGCTGTGCGAGC
1 CACAT-GGTCGTGTGGTTAGCAGTGCGAGC
36695892 CACA
1 CACA
36695896 CGTGTATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.16, C:0.19, G:0.37, T:0.27
Consensus pattern (29 bp):
CACATGGTCGTGTGGTTAGCAGTGCGAGC
Found at i:36699307 original size:25 final size:25
Alignment explanation
Indices: 36699278--36699328 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
36699268 AAGAATTTAA
36699278 AATTTTATTTTTAAATTTTAAGAAT
1 AATTTTATTTTTAAATTTTAAGAAT
**
36699303 AATTTTATTTTTATTTTTTAAGAAT
1 AATTTTATTTTTAAATTTTAAGAAT
36699328 A
1 A
36699329 CTAACAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
AATTTTATTTTTAAATTTTAAGAAT
Found at i:36699792 original size:19 final size:21
Alignment explanation
Indices: 36699745--36699796 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
36699735 GTATCCACCG
36699745 GAAGAG-AGAAAGAAAAGAGA
1 GAAGAGAAGAAAGAAAAGAGA
36699765 GAAAGGAGAAGAAA-AAAAGA-A
1 G-AA-GAGAAGAAAGAAAAGAGA
36699786 GAAGAGAAGAA
1 GAAGAGAAGAA
36699797 GAAGNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.28
20 3 0.10
21 4 0.14
22 9 0.31
23 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
GAAGAGAAGAAAGAAAAGAGA
Found at i:36699800 original size:14 final size:14
Alignment explanation
Indices: 36699745--36699792 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
36699735 GTATCCACCG
36699745 GAAGAGAGAAAGAA
1 GAAGAGAGAAAGAA
*
36699759 -AAGAGAGAAAGGA
1 GAAGAGAGAAAGAA
* *
36699772 GAAGAAAAAAAGAA
1 GAAGAGAGAAAGAA
36699786 GAAGAGA
1 GAAGAGA
36699793 AGAAGAAGNN
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAGAGAGAAAGAA
Found at i:36701284 original size:6 final size:6
Alignment explanation
Indices: 36701273--36701298 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36701263 GCATCATGCA
36701273 CCAGAG CCAGAG CCAGAG CCAGAG CC
1 CCAGAG CCAGAG CCAGAG CCAGAG CC
36701299 GGAGTCGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.31, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:36701498 original size:33 final size:33
Alignment explanation
Indices: 36701461--36701559 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
36701451 GTCATCCTAA
36701461 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
1 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
* * *
36701494 CTCGTATCCACCTTAGTACTTCGCTCCTTCTGG
1 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
* * * *
36701527 CCCGTATCCACCGCCGTACTCCACTCCTTCCGG
1 CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
36701560 TTCAAGTTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.44, G:0.15, T:0.28
Consensus pattern (33 bp):
CTCGTATCCACCTCAGTACTCCGCTCCTTCCGG
Found at i:36701888 original size:27 final size:27
Alignment explanation
Indices: 36701850--36701945 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
36701840 ACCTCTGAGT
* *
36701850 TAGGCACAACTAGTTGCGCCTGTCAGA
1 TAGGCTCAACTAGTCGCGCCTGTCAGA
*
36701877 TAGGCTCAACTAGTCGTGCCTGTCAGA
1 TAGGCTCAACTAGTCGCGCCTGTCAGA
*
36701904 TAGGCTCAACTAGTCGCGCCTCTCAGA
1 TAGGCTCAACTAGTCGCGCCTGTCAGA
36701931 TAGGCTCAACTAGTC
1 TAGGCTCAACTAGTC
36701946 CCTGTATTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (27 bp):
TAGGCTCAACTAGTCGCGCCTGTCAGA
Found at i:36709274 original size:27 final size:27
Alignment explanation
Indices: 36709243--36709295 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
36709233 CGGGGGAATG
36709243 GGTCTAATGAACCAAGTGTATTACCTT
1 GGTCTAATGAACCAAGTGTATTACCTT
* * *
36709270 GGTCTGATGCACCAAGTGTGTTACCT
1 GGTCTAATGAACCAAGTGTATTACCT
36709296 CCTCCAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (27 bp):
GGTCTAATGAACCAAGTGTATTACCTT
Found at i:36710761 original size:45 final size:46
Alignment explanation
Indices: 36710707--36710817 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
36710697 ATCACTTGTC
*
36710707 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
36710752 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
36710798 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
36710818 CACTTATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 21 0.33
46 42 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:36710800 original size:46 final size:45
Alignment explanation
Indices: 36710694--36710964 Score: 216
Period size: 37 Copynumber: 6.6 Consensus size: 45
36710684 CATATGACCT
* *
36710694 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
36710737 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
36710783 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
36710820 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
36710857 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* ** *
36710894 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
36710940 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTATCACTTGATCAGA
36710965 AGTACTCAAA
Statistics
Matches: 206, Mismatches: 9, Indels: 23
0.87 0.04 0.10
Matches are distributed among these distances:
37 101 0.49
39 2 0.01
40 3 0.01
41 1 0.00
42 1 0.00
43 10 0.05
44 5 0.02
45 21 0.10
46 62 0.30
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:36710821 original size:37 final size:37
Alignment explanation
Indices: 36710779--36710926 Score: 260
Period size: 37 Copynumber: 4.0 Consensus size: 37
36710769 AGCTGAAGCT
* **
36710779 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
36710816 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
36710853 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
36710890 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
36710927 GCTAAAACTA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:36718461 original size:45 final size:46
Alignment explanation
Indices: 36718407--36718517 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
36718397 ATCACTTGTC
*
36718407 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
36718452 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
36718498 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
36718518 CACTTATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 21 0.33
46 42 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:36718500 original size:46 final size:45
Alignment explanation
Indices: 36718394--36718664 Score: 216
Period size: 37 Copynumber: 6.6 Consensus size: 45
36718384 CATATGACCT
* *
36718394 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
36718437 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
36718483 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
36718520 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
36718557 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* ** *
36718594 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
36718640 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTATCACTTGATCAGA
36718665 AGTACTCAAA
Statistics
Matches: 206, Mismatches: 9, Indels: 23
0.87 0.04 0.10
Matches are distributed among these distances:
37 101 0.49
39 2 0.01
40 3 0.01
41 1 0.00
42 1 0.00
43 10 0.05
44 5 0.02
45 21 0.10
46 62 0.30
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:36718521 original size:37 final size:37
Alignment explanation
Indices: 36718479--36718626 Score: 260
Period size: 37 Copynumber: 4.0 Consensus size: 37
36718469 AGCTGAAGCT
* **
36718479 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
36718516 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
36718553 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
36718590 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
36718627 GCTAAAACTA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:36725620 original size:28 final size:28
Alignment explanation
Indices: 36725572--36725658 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
36725562 ATGTAAGATG
* *
36725572 AATATATAAAAAATTTCAATAAATAAAA
1 AATATATAAAATATTTAAATAAATAAAA
*
36725600 AATATATAAAAT-TATTAAAT-ATTAAAA
1 AATATATAAAATAT-TTAAATAAATAAAA
*
36725627 TAATA-ATATAAATATTTAAA-AAATTAAA
1 -AATATATA-AAATATTTAAATAAATAAAA
36725655 AATA
1 AATA
36725659 GTATGAGTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 14 0.29
28 34 0.69
29 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (28 bp):
AATATATAAAATATTTAAATAAATAAAA
Found at i:36725652 original size:29 final size:27
Alignment explanation
Indices: 36725595--36725656 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
36725585 TTTCAATAAA
* *
36725595 TAAAAAATATATAAAATTATTAAATAT
1 TAAAAAATATATAAAATTATAAAAAAT
36725622 TAAAATAATAATATAAATATT-TAAAAAAT
1 TAAAA-AAT-ATATAAA-ATTATAAAAAAT
36725651 TAAAAA
1 TAAAAA
36725657 TAGTATGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.17
28 4 0.13
29 18 0.60
30 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAAAAATATATAAAATTATAAAAAAT
Found at i:36744388 original size:23 final size:22
Alignment explanation
Indices: 36744343--36744388 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
36744333 AATTTCAAGT
36744343 AAATATTCAATTCAATTCCACAC
1 AAATATTCAATTCAATT-CACAC
36744366 AAATATTCATTATTCAATT-ACAC
1 AAATATTCA--ATTCAATTCACAC
36744389 TTAATCGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 13 0.62
25 8 0.38
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATTCAATTCAATTCACAC
Found at i:36744675 original size:51 final size:51
Alignment explanation
Indices: 36744556--36744654 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
36744546 GTGACCATCA
* * *
36744556 CTATCCGATACACGTAGTAGCCTGCACATAATACTACACACGTGATCAAAG
1 CTATCCGGTACACATAGTAGCCTGCACATAATACTACACACGTGACCAAAG
*
36744607 CTATCCGGTACGCATAGTAGCCTGCACATAATACTACACACGTGACCA
1 CTATCCGGTACACATAGTAGCCTGCACATAATACTACACACGTGACCA
36744655 TCACTTTCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.21
Consensus pattern (51 bp):
CTATCCGGTACACATAGTAGCCTGCACATAATACTACACACGTGACCAAAG
Found at i:36748942 original size:18 final size:16
Alignment explanation
Indices: 36748919--36748953 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
36748909 AATGGCTTTG
36748919 AAAAGTATATTATAAAAT
1 AAAAGT-TATTA-AAAAT
36748937 AAAAGTTATTAAAAAT
1 AAAAGTTATTAAAAAT
36748953 A
1 A
36748954 TGTTATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAGTTATTAAAAAT
Found at i:36750342 original size:17 final size:17
Alignment explanation
Indices: 36750322--36750354 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36750312 GATTTTGTTT
36750322 TATTTAGTTT-TTTTATA
1 TATTTA-TTTATTTTATA
36750339 TATTTATTTATTTTAT
1 TATTTATTTATTTTAT
36750355 TTTTTGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TATTTATTTATTTTATA
Found at i:36753645 original size:16 final size:16
Alignment explanation
Indices: 36753624--36753678 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
36753614 GTTTGGTTTA
*
36753624 CTGTAATGGAATAAGG
1 CTGTAATAGAATAAGG
* *
36753640 CTGTAATTGAATAAAG
1 CTGTAATAGAATAAGG
*
36753656 TTGTAATAGAAT-AGAG
1 CTGTAATAGAATAAG-G
36753672 CTGTAAT
1 CTGTAAT
36753679 CAGTAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (16 bp):
CTGTAATAGAATAAGG
Found at i:36754023 original size:61 final size:58
Alignment explanation
Indices: 36753887--36754023 Score: 134
Period size: 57 Copynumber: 2.3 Consensus size: 58
36753877 TAATGAAAAT
* * * * *
36753887 AAAAATAAAAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATACAATTTA
1 AAAAAT-ATAATATATAATTTAATAACATTTTAACAAAATTATTATTAAATACAATTTA
* * * *
36753946 ATAAA-ATAATTTATAATTTAATAACATTCTTAATAAAATTATTATTAAAATATGAA-TTA
1 AAAAATATAATATATAATTTAATAACATT-TTAACAAAATTATTATT-AAATA-CAATTTA
36754005 AAAAATCATAATATATAAT
1 AAAAAT-ATAATATATAAT
36754024 ATTATAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
57 18 0.29
58 15 0.24
59 16 0.26
60 2 0.03
61 11 0.18
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (58 bp):
AAAAATATAATATATAATTTAATAACATTTTAACAAAATTATTATTAAATACAATTTA
Found at i:36754032 original size:23 final size:21
Alignment explanation
Indices: 36754001--36754043 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36753991 TAAAATATGA
36754001 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
36754024 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
36754044 CCTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:36764075 original size:3 final size:3
Alignment explanation
Indices: 36764069--36764102 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
36764059 TGATGATGGC
* *
36764069 GGT GGT GAT GAT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
36764103 ATGCTCTTCC
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:0.06, C:0.00, G:0.62, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:36764076 original size:15 final size:15
Alignment explanation
Indices: 36764056--36764090 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
36764046 TTCCTCTCCA
36764056 TGGTGATGATGGCGG
1 TGGTGATGATGGCGG
*
36764071 TGGTGATGATGGTGG
1 TGGTGATGATGGCGG
36764086 TGGTG
1 TGGTG
36764091 GTGGTGGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.03, G:0.54, T:0.31
Consensus pattern (15 bp):
TGGTGATGATGGCGG
Found at i:36764077 original size:12 final size:12
Alignment explanation
Indices: 36764069--36764105 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
36764059 TGATGATGGC
*
36764069 GGTGGTGATGAT
1 GGTGGTGGTGAT
*
36764081 GGTGGTGGTGGT
1 GGTGGTGGTGAT
36764093 GGTGGTGGTGAT
1 GGTGGTGGTGAT
36764105 G
1 G
36764106 CTCTTCCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.08, C:0.00, G:0.59, T:0.32
Consensus pattern (12 bp):
GGTGGTGGTGAT
Found at i:36764154 original size:27 final size:27
Alignment explanation
Indices: 36764122--36764257 Score: 245
Period size: 27 Copynumber: 5.0 Consensus size: 27
36764112 CTCATGATCC
*
36764122 TCTTCATCATGGTGTTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
36764149 TCTTCATCATGGTGCTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
*
36764176 TCTTCATCATGGTGCTCCTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
36764203 TCTTCATCATGGTGCTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
*
36764230 TCTTCATCATGGTGTTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
36764257 T
1 T
36764258 GGTCTGGCTT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.11, C:0.21, G:0.29, T:0.39
Consensus pattern (27 bp):
TCTTCATCATGGTGCTCGTGGTCATGG
Found at i:36764160 original size:12 final size:12
Alignment explanation
Indices: 36764143--36764242 Score: 65
Period size: 12 Copynumber: 7.6 Consensus size: 12
36764133 GTGTTCGTGG
36764143 TCATGGTCTTCA
1 TCATGGTCTTCA
**
36764155 TCATGGTGCTCGTGG
1 TCATGGT-CT--TCA
36764170 TCATGGTCTTCA
1 TCATGGTCTTCA
**
36764182 TCATGGTGCTCCTGG
1 TCATGGT-CT--TCA
36764197 TCATGGTCTTCA
1 TCATGGTCTTCA
**
36764209 TCATGGTGCTCGTGG
1 TCATGGT-CT--TCA
36764224 TCATGGTCTTCA
1 TCATGGTCTTCA
36764236 TCATGGT
1 TCATGGT
36764243 GTTCGTGGTC
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
12 31 0.46
13 6 0.09
14 6 0.09
15 24 0.36
ACGTcount: A:0.12, C:0.23, G:0.27, T:0.38
Consensus pattern (12 bp):
TCATGGTCTTCA
Found at i:36767844 original size:48 final size:48
Alignment explanation
Indices: 36767776--36767947 Score: 227
Period size: 48 Copynumber: 3.6 Consensus size: 48
36767766 AACAGATTTC
* * * * * ** * *
36767776 TCGGTGGCCTACACACAGTCCGTACCACCTTTGTGTAATAACAGACTC
1 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
36767824 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
1 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
*
36767872 TTGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
1 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
* * *
36767920 TTGGTGGCCTGCACACAGTACGTGCCAC
1 TCGGTGGCCTGCACATAGTCCGTGCCAC
36767948 ATATGCGACC
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (48 bp):
TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
Found at i:36773325 original size:21 final size:21
Alignment explanation
Indices: 36773301--36773341 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36773291 TTTCATTCAC
36773301 CGTCATCATCACCATCATCAT
1 CGTCATCATCACCATCATCAT
* * *
36773322 CGTCGTCGTCATCATCATCA
1 CGTCATCATCACCATCATCA
36773342 CTTTCTCGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (21 bp):
CGTCATCATCACCATCATCAT
Found at i:36782181 original size:18 final size:18
Alignment explanation
Indices: 36782158--36782193 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
36782148 ATCTCTCTTT
36782158 ATTTTATAACAACATAGA
1 ATTTTATAACAACATAGA
36782176 ATTTTATAACAACATAGA
1 ATTTTATAACAACATAGA
36782194 CTTAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
ATTTTATAACAACATAGA
Found at i:36782339 original size:22 final size:23
Alignment explanation
Indices: 36782291--36782342 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
36782281 TGATTTAAAC
* *
36782291 AAATACTCATATTTATATAATTA
1 AAATATTCATAATTATATAATTA
36782314 AAATATTCATAATT-TATAA-TA
1 AAATATTCATAATTATATAATTA
36782335 TAAATATT
1 -AAATATT
36782343 TATTAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 12 0.46
23 12 0.46
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATTCATAATTATATAATTA
Found at i:36782548 original size:24 final size:24
Alignment explanation
Indices: 36782521--36782568 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
36782511 ACATGTATGT
*
36782521 TTAATAAAATTAAAAATTATAATA
1 TTAACAAAATTAAAAATTATAATA
*
36782545 TTAACAAAATTAAAATTTATAATA
1 TTAACAAAATTAAAAATTATAATA
36782569 CTTTATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAACAAAATTAAAAATTATAATA
Found at i:36783012 original size:22 final size:22
Alignment explanation
Indices: 36782961--36783014 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
36782951 AAAATGTTAT
*
36782961 TATTATATATAAAAATTTAATA
1 TATTAAATATAAAAATTTAATA
* *
36782983 AATAAAATATAAAAATATTAA-A
1 TATTAAATATAAAAAT-TTAATA
36783005 TATTAAATAT
1 TATTAAATAT
36783015 TAAATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTAAATATAAAAATTTAATA
Found at i:36787094 original size:18 final size:19
Alignment explanation
Indices: 36787073--36787112 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
36787063 TGATAGATGT
36787073 AAAAA-TGAAAGAAGAAAA
1 AAAAACTGAAAGAAGAAAA
36787091 AAAAACTGTGAAAGAAGAAAA
1 AAAAAC--TGAAAGAAGAAAA
36787112 A
1 A
36787113 GGAAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
21 14 0.74
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAACTGAAAGAAGAAAA
Found at i:36788032 original size:131 final size:132
Alignment explanation
Indices: 36787894--36788157 Score: 442
Period size: 131 Copynumber: 2.0 Consensus size: 132
36787884 TGTAATTTTC
*
36787894 AACCTACTCCACTGCTGCTCAGGGAGACAAGG-CTCGGTGGCTTAAATCTGCTTCCTACTATCCT
1 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCCT-GGTGGCTTAAATCTGCTTCCCACTATCCT
36787958 GGAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTT-GGGAGATAAGATCTGCTATC
65 GGAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATC
36788022 TTT
130 TTT
* *
36788025 AACCTACTCCGCTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCTTG
1 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCCTG
* * * *
36788090 GAAAGACAAGATTTGCTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCT
66 GAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCT
36788155 TT
131 TT
36788157 A
1 A
36788158 CTGATCATTT
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
131 99 0.80
132 25 0.20
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (132 bp):
AACCTACTCCACTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCCTG
GAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCT
TT
Found at i:36788145 original size:44 final size:43
Alignment explanation
Indices: 36787983--36788157 Score: 129
Period size: 44 Copynumber: 4.0 Consensus size: 43
36787973 GCCGTATTTG
* *
36787983 ATCTGCTCCACTACTGCTTGGGAGATAAGATCTGCTATCTTTA
1 ATCTGCTCCACTACTGCTTGGGAGACAAGATCTGCTGTCTTTA
* * * * * ** * * *
36788026 ACCTACTCCGCTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAA
1 ATCTGCTCCACTACTGCT-TGGGAGACAAGATCTGCTGTCTTTA
* * *
36788070 ATCTGCTTCCCACTA-T-CTTGGAAAGACAAGATTTGCTGTCTTTG
1 ATCTGC-T-CCACTACTGCTTGG-GAGACAAGATCTGCTGTCTTTA
* * *
36788114 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTA
1 ATCTGCTCCACTACTGCTT-GGGAGACAAGATCTGCTGTCTTTA
36788158 CTGATCATTT
Statistics
Matches: 94, Mismatches: 31, Indels: 13
0.68 0.22 0.09
Matches are distributed among these distances:
42 6 0.06
43 18 0.19
44 62 0.66
45 4 0.04
46 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTGGGAGACAAGATCTGCTGTCTTTA
Found at i:36801466 original size:22 final size:21
Alignment explanation
Indices: 36801426--36801472 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
36801416 ATGTAAAAAT
36801426 GAAAGAAGAAAAAAAAAACTGC
1 GAAAGAAGAAAAAAAAAACT-C
**
36801448 GAAAGAAGAAAAAGGAAACTC
1 GAAAGAAGAAAAAAAAAACTC
36801469 GAAA
1 GAAA
36801473 TCACCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.66, C:0.09, G:0.21, T:0.04
Consensus pattern (21 bp):
GAAAGAAGAAAAAAAAAACTC
Found at i:36806087 original size:8 final size:8
Alignment explanation
Indices: 36806074--36806106 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
36806064 ATTTAATATG
36806074 ATTAAATA
1 ATTAAATA
36806082 ATTAAATA
1 ATTAAATA
36806090 ATTAAATA
1 ATTAAATA
36806098 ATATAAATA
1 AT-TAAATA
36806107 GTACAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.75
9 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAATA
Found at i:36811258 original size:2 final size:2
Alignment explanation
Indices: 36811251--36811284 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
36811241 TATGTGTATT
36811251 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36811285 CTAATACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36811398 original size:30 final size:29
Alignment explanation
Indices: 36811359--36811419 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
36811349 ATACATGTAT
36811359 ATCTTTTTATATGTTCA-TAATT-TTTATTC
1 ATCTTTTTAT-TGTT-ATTAATTATTTATTC
*
36811388 ATCTTCTTTATTGTTATTATTTATTTATTC
1 ATCTT-TTTATTGTTATTAATTATTTATTC
36811418 AT
1 AT
36811420 GTGTTCATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.04
29 13 0.46
30 14 0.50
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (29 bp):
ATCTTTTTATTGTTATTAATTATTTATTC
Found at i:36816673 original size:31 final size:30
Alignment explanation
Indices: 36816638--36816697 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
36816628 AATTAGTAAC
*
36816638 AATAA-AATTATAGTTTAATTTTCTTAAAAAT
1 AATAATAATT-TAATTTAATTTT-TTAAAAAT
36816669 AATAATAATTTAATTTAATTTTTTAAAAA
1 AATAATAATTTAATTTAATTTTTTAAAAA
36816698 CTATAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.26
31 16 0.59
32 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATAATAATTTAATTTAATTTTTTAAAAAT
Found at i:36817377 original size:3 final size:3
Alignment explanation
Indices: 36817369--36817396 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36817359 CGATATATAT
36817369 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
36817397 AGGCATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:36817593 original size:153 final size:154
Alignment explanation
Indices: 36817363--36817677 Score: 544
Period size: 153 Copynumber: 2.1 Consensus size: 154
36817353 TACTCGCGAT
*
36817363 ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCACTCTCCTCCAAACCT
1 ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
*
36817428 TCCAGCAGTACTGCTGGGGGGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
66 TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
*
36817493 ACCAATTCCTTGTAAGCTTTAAAAA
131 ACCAATTCCTTCTAAGCTTT-AAAA
36817518 ATATATAT-AT-ATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
1 ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
* *
36817581 TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCTGGAAGCGTTTGAGGGAGATTGAGCA
66 TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
* *
36817646 ACCGATTCCTTCTAAGCTTTAATA
131 ACCAATTCCTTCTAAGCTTTAAAA
36817670 ATATATAT
1 ATATATAT
36817678 TCTTCTCTTG
Statistics
Matches: 153, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
152 11 0.07
153 132 0.86
154 2 0.01
155 8 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (154 bp):
ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
ACCAATTCCTTCTAAGCTTTAAAA
Found at i:36819135 original size:20 final size:19
Alignment explanation
Indices: 36819097--36819136 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
36819087 TTAATGTGGT
36819097 AATATAATAAAAATAAAAA
1 AATATAATAAAAATAAAAA
36819116 AATACTAATAGAAAATAAAAA
1 AATA-TAATA-AAAATAAAAA
36819137 TATAATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AATATAATAAAAATAAAAA
Found at i:36822889 original size:23 final size:23
Alignment explanation
Indices: 36822859--36822904 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36822849 GCTGAGCGCA
*
36822859 AACACCGACATATTATCGACATG
1 AACACCGACATATTATCAACATG
* *
36822882 AACACCGATATATTGTCAACATG
1 AACACCGACATATTATCAACATG
36822905 GGTCTTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (23 bp):
AACACCGACATATTATCAACATG
Found at i:36823556 original size:48 final size:48
Alignment explanation
Indices: 36823490--36823587 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 48
36823480 TATACCCATT
* *
36823490 AACACTCTAGCATTTCCTACTGTTCAGTCATCTCTTTTACCCCCAACA
1 AACACTCTAGCATTTCCTACTATTCAGTCATCTCCTTTACCCCCAACA
*
36823538 AACACTCTAGC-TTCTCCTACTATTCAGTCCTCTCCTTTACCCCCAACA
1 AACACTCTAGCATT-TCCTACTATTCAGTCATCTCCTTTACCCCCAACA
36823586 AA
1 AA
36823588 TACACATCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.26, C:0.38, G:0.05, T:0.32
Consensus pattern (48 bp):
AACACTCTAGCATTTCCTACTATTCAGTCATCTCCTTTACCCCCAACA
Found at i:36827963 original size:50 final size:50
Alignment explanation
Indices: 36827876--36828007 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
36827866 GGTAAAGAGA
* * * * **
36827876 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA-TGAGAGG
1 TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATTG-GAAC
* *
36827926 TCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGATATTGGAAC
1 TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATTGGAAC
* * *
36827976 TCCTATGTAAGACCATATCTGGGATATGGCAT
1 TCCCACGTAAGACCATATCTGGGACATGGCAT
36828008 TCGCAGTACA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
50 67 0.97
51 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATTGGAAC
Found at i:36834138 original size:12 final size:13
Alignment explanation
Indices: 36834121--36834153 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
36834111 TAATGGGGAT
36834121 GATGACAAAA-AA
1 GATGACAAAAGAA
36834133 GATGACAAAAGAA
1 GATGACAAAAGAA
*
36834146 GATCACAA
1 GATGACAA
36834154 GGATAACCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.09
Consensus pattern (13 bp):
GATGACAAAAGAA
Found at i:36834975 original size:13 final size:14
Alignment explanation
Indices: 36834957--36834985 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36834947 ATCAAATTAC
36834957 AAGAAT-ATTTAAT
1 AAGAATAATTTAAT
36834970 AAGAATAATTTAAT
1 AAGAATAATTTAAT
36834984 AA
1 AA
36834986 TCAAATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AAGAATAATTTAAT
Found at i:36835380 original size:14 final size:14
Alignment explanation
Indices: 36835363--36835389 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36835353 AAAGACAGAG
36835363 AATAAAGAACAAAT
1 AATAAAGAACAAAT
36835377 AATAAAGAACAAA
1 AATAAAGAACAAA
36835390 GAGAATGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.11
Consensus pattern (14 bp):
AATAAAGAACAAAT
Found at i:36846140 original size:35 final size:35
Alignment explanation
Indices: 36846088--36846229 Score: 167
Period size: 35 Copynumber: 4.1 Consensus size: 35
36846078 CATAACATGT
* *
36846088 CAATACTCATAAAAGCTAATCCAACCGAAACACGC
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
* * * * * **
36846123 CAGTGCTCACAATAGCTAATCCAATCGTAACACTT
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
* * *
36846158 CAATGCTCATAAGAGCTAATCCAACTGTAACACTC
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
*
36846193 TAATGCTCATAAGAGCTAATCCAACCGAAACACGC
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
36846228 CA
1 CA
36846230 GACAGAAAGT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (35 bp):
CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
Found at i:36849293 original size:24 final size:25
Alignment explanation
Indices: 36849243--36849298 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
36849233 AAATATGAAT
36849243 AAAAATCATAATACAAAATTAATTA
1 AAAAATCATAATACAAAATTAATTA
* ** *
36849268 AAAAATCTTAATACAATTTTAATAA
1 AAAAATCATAATACAAAATTAATTA
36849293 AAAAAT
1 AAAAAT
36849299 GAGAGTGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAATCATAATACAAAATTAATTA
Found at i:36849352 original size:11 final size:11
Alignment explanation
Indices: 36849323--36849397 Score: 62
Period size: 11 Copynumber: 6.8 Consensus size: 11
36849313 AGAATCAAGT
*
36849323 GAGAATTAAGA
1 GAGAATTGAGA
36849334 GAGAATTGAGA
1 GAGAATTGAGA
*
36849345 GAGGATTGAGA
1 GAGAATTGAGA
*
36849356 -ATGAATAGAGA
1 GA-GAATTGAGA
* *
36849367 GAGAGTTGAAA
1 GAGAATTGAGA
* *
36849378 GTGAATTGTGA
1 GAGAATTGAGA
*
36849389 GTGAATTGA
1 GAGAATTGA
36849398 AAAAGTGAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
10 1 0.02
11 48 0.96
12 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.23
Consensus pattern (11 bp):
GAGAATTGAGA
Found at i:36849765 original size:26 final size:24
Alignment explanation
Indices: 36849709--36849766 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 24
36849699 AATTTTAAAG
* *
36849709 TAAATAAATTATTATATAATTGAA
1 TAAATAAATTATGAAATAATTGAA
36849733 TAGAAATAAATTAATGAAATAATATGAA
1 T--AAATAAATT-ATGAAATAAT-TGAA
36849761 TAAATA
1 TAAATA
36849767 TAAACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 1 0.04
26 14 0.50
27 8 0.29
28 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (24 bp):
TAAATAAATTATGAAATAATTGAA
Found at i:36857467 original size:87 final size:86
Alignment explanation
Indices: 36857349--36857513 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 86
36857339 TGTACATGCA
* * *
36857349 TAAGGTTGAGTTCTGAGTCTTAATGAATTCATATCCCACG-GTTTGAGTGTTCTTATTGACACAG
1 TAAGGTTGAGTTCTGACTCTTAATGAATTCATATCCCA-GAGTTTGAGTGGTCCTATTGACACAG
*
36857413 ACTTGATGAATTCATCGACATG
65 ACCTGATGAATTCATCGACATG
* * * * * *
36857435 TAAGGTTGATTTTCTTACTCTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCCTATTGAGACAG
1 TAAGGTTGA-GTTCTGACTCTTAATGAATTCATATCCCAGAGTTTGAGTGGTCCTATTGACACAG
36857500 ACCTGATGAATTCA
65 ACCTGATGAATTCA
36857514 CCGAACATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 10 0.15
87 57 0.85
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (86 bp):
TAAGGTTGAGTTCTGACTCTTAATGAATTCATATCCCAGAGTTTGAGTGGTCCTATTGACACAGA
CCTGATGAATTCATCGACATG
Found at i:36865356 original size:18 final size:18
Alignment explanation
Indices: 36865309--36865353 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
36865299 AAAAATTATA
*
36865309 AAAAATTTTAAATTTTAG
1 AAAAATATTAAATTTTAG
*
36865327 AAAAATATTAAATTTTAAT
1 AAAAATATTAAATTTT-AG
36865346 AAAAATAT
1 AAAAATAT
36865354 AAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAAATATTAAATTTTAG
Found at i:36865430 original size:20 final size:20
Alignment explanation
Indices: 36865382--36865433 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
36865372 TTAGAAATTT
36865382 TTTTATAAAAA-CTGTAAAA
1 TTTTATAAAAATCTGTAAAA
** * *
36865401 AATTAAAAAAATTTGTAAAA
1 TTTTATAAAAATCTGTAAAA
36865421 TTTTATAAAAATC
1 TTTTATAAAAATC
36865434 ATAAAAAATT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
TTTTATAAAAATCTGTAAAA
Found at i:36866275 original size:2 final size:2
Alignment explanation
Indices: 36866270--36866377 Score: 216
Period size: 2 Copynumber: 54.0 Consensus size: 2
36866260 AGTTTGTGTG
36866270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36866312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36866354 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
36866378 ATTTACTAAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 106 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36866395 original size:18 final size:19
Alignment explanation
Indices: 36866372--36866437 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 19
36866362 TATATATATA
36866372 TATATAATTTACTAATTTTT
1 TATAT-ATTTACTAATTTTT
*
36866392 TATATTTTTTAC-AA-TTTT
1 TATA-TATTTACTAATTTTT
* *
36866410 TATATTTTTTCTAATTTTT
1 TATATATTTACTAATTTTT
*
36866429 AATA-ATTTA
1 TATATATTTA
36866438 ATTTTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 6 0.16
18 13 0.34
19 9 0.24
20 9 0.24
21 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATATTTACTAATTTTT
Found at i:36866434 original size:10 final size:10
Alignment explanation
Indices: 36866379--36866436 Score: 59
Period size: 9 Copynumber: 6.0 Consensus size: 10
36866369 ATATATATAA
36866379 TTTACTAATTT
1 TTTA-TAATTT
36866390 TTTAT-ATTT
1 TTTATAATTT
*
36866399 TTTACAA-TT
1 TTTATAATTT
36866408 TTTAT-ATTT
1 TTTATAATTT
*
36866417 TTTCTAATTT
1 TTTATAATTT
*
36866427 TTAATAATTT
1 TTTATAATTT
36866437 AATTTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.03
9 20 0.51
10 14 0.36
11 4 0.10
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATAATTT
Found at i:36876964 original size:12 final size:12
Alignment explanation
Indices: 36876947--36876971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36876937 AACGAGCAAC
36876947 ATAATATAAATG
1 ATAATATAAATG
36876959 ATAATATAAATG
1 ATAATATAAATG
36876971 A
1 A
36876972 AAGCACAAAT
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAATATAAATG
Found at i:36877361 original size:12 final size:12
Alignment explanation
Indices: 36877344--36877368 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36877334 AAAACAAATT
36877344 AATATATAAAAA
1 AATATATAAAAA
36877356 AATATATAAAAA
1 AATATATAAAAA
36877368 A
1 A
36877369 CTAAAATTAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:36878759 original size:21 final size:21
Alignment explanation
Indices: 36878709--36878773 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
36878699 ATAATTAAAA
*
36878709 TTTTT-AATATATAATATATATCT
1 TTTTTAAATA-ATTATAT-TAT-T
*
36878732 TTATTAAATAATTATATTATT
1 TTTTTAAATAATTATATTATT
36878753 TTTTTAAGA-AATTATATTATT
1 TTTTTAA-ATAATTATATTATT
36878774 AAATATTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 19 0.51
22 4 0.11
23 10 0.27
24 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTTAAATAATTATATTATT
Found at i:36879387 original size:15 final size:16
Alignment explanation
Indices: 36879367--36879400 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
36879357 TATTTTTCAA
36879367 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
36879382 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
36879398 AAA
1 AAA
36879401 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:36883713 original size:15 final size:15
Alignment explanation
Indices: 36883693--36883724 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36883683 CATTTCACTA
*
36883693 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
36883708 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
36883723 TT
1 TT
36883725 TGTATGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:36892051 original size:43 final size:42
Alignment explanation
Indices: 36891988--36892151 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 42
36891978 TACCGTAACA
* * *
36891988 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCTCATATCG
* * * *
36892030 ATGCCAATATCCCAGCCATGGTCATACACGAAATCACATATCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAATCTCATATCG
* * * *
36892073 ATGCCAATGTCCTAGCCATGGTCTTACACG-AATTCTCATAGCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAA-TCTCATATCG
* * * *
36892116 ACGCCATATCCTAGATATGGTCTTACATGTAATCTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCTC
36892152 GGTAACCCTA
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
42 31 0.30
43 71 0.70
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCTCATATCG
Found at i:36893987 original size:17 final size:17
Alignment explanation
Indices: 36893965--36893997 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36893955 TTAGTCACTA
36893965 TTAGGCGAATCCAAGTT
1 TTAGGCGAATCCAAGTT
36893982 TTAGGCGAATCCAAGT
1 TTAGGCGAATCCAAGT
36893998 CTCAGGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (17 bp):
TTAGGCGAATCCAAGTT
Found at i:36894004 original size:17 final size:17
Alignment explanation
Indices: 36893967--36894004 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36893957 AGTCACTATT
* *
36893967 AGGCGAATCCAAGTTTT
1 AGGCGAATCCAAGTCTC
36893984 AGGCGAATCCAAGTCTC
1 AGGCGAATCCAAGTCTC
36894001 AGGC
1 AGGC
36894005 ATTAGCAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (17 bp):
AGGCGAATCCAAGTCTC
Found at i:36899731 original size:2 final size:2
Alignment explanation
Indices: 36899724--36899760 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
36899714 TACTATAGTG
*
36899724 TA TA TA TA TA TA TA TA TA TA TA TGA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
36899761 AACTTTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:36900541 original size:31 final size:31
Alignment explanation
Indices: 36900506--36900569 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
36900496 AAAATTTCAA
*
36900506 AATTCAAAAAGTACGGAG-ACTAAAATTGATC
1 AATTCAAAAAGTA-GAAGAACTAAAATTGATC
*
36900537 AATTCAAAAAGTATAAGAACTAAAATTGATC
1 AATTCAAAAAGTAGAAGAACTAAAATTGATC
36900568 AA
1 AA
36900570 ATTAAAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.23
Consensus pattern (31 bp):
AATTCAAAAAGTAGAAGAACTAAAATTGATC
Found at i:36900587 original size:29 final size:28
Alignment explanation
Indices: 36900522--36900589 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
36900512 AAAAGTACGG
36900522 AGACTAAAATTGATCAATTCAAAAAGTATA
1 AGACTAAAATTGATCAATT--AAAAGTATA
36900552 AGAACTAAAATTGATCAAATT-AAAGTATAA
1 AG-ACTAAAATTGATC-AATTAAAAGTAT-A
36900582 AGACTAAA
1 AGACTAAA
36900590 TCAACAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 13 0.37
30 5 0.14
31 13 0.37
32 4 0.11
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.25
Consensus pattern (28 bp):
AGACTAAAATTGATCAATTAAAAGTATA
Found at i:36901252 original size:32 final size:32
Alignment explanation
Indices: 36901211--36901278 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
36901201 CTTTTGATAT
*
36901211 CTAAATTTGACACTTTTTTCCTAATTTGGTAC
1 CTAAATTTGACACTCTTTTCCTAATTTGGTAC
*
36901243 CTAAATTTGACTCTCTTTTCCTAATTTGGTAC
1 CTAAATTTGACACTCTTTTCCTAATTTGGTAC
36901275 CTAA
1 CTAA
36901279 TTTTATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (32 bp):
CTAAATTTGACACTCTTTTCCTAATTTGGTAC
Found at i:36901688 original size:61 final size:59
Alignment explanation
Indices: 36901607--36901719 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
36901597 TTTGAACCTA
* *
36901607 AAAAAAGATTAGATATCAAATTAGAAAAAAAAATGCCAACTTCAGGTACCAAATTGGGCCC
1 AAAAAAGATTAGATACCAAATT--AAAAAAAAATGCCAACTTCAAGTACCAAATTGGGCCC
* * * * *
36901668 AAAAAAGTTTAGGTACCAAATTAAAAAAAAGTGTCAAGTTCAAGTACCAAAT
1 AAAAAAGATTAGATACCAAATTAAAAAAAAATGCCAACTTCAAGTACCAAAT
36901720 ATTATATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 26 0.58
61 19 0.42
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (59 bp):
AAAAAAGATTAGATACCAAATTAAAAAAAAATGCCAACTTCAAGTACCAAATTGGGCCC
Found at i:36905236 original size:25 final size:23
Alignment explanation
Indices: 36905183--36905229 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
36905173 AAGAGCATGT
*
36905183 CAAACTAAATATTTAAATATGTTA
1 CAAA-TAAATATTTAAATAAGTTA
36905207 CAAATAAATATATTAAAATAAGT
1 CAAATAAATAT-TT-AAATAAGT
36905230 ACTAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (23 bp):
CAAATAAATATTTAAATAAGTTA
Found at i:36905311 original size:3 final size:3
Alignment explanation
Indices: 36905303--36905328 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36905293 ATAAAGAAGG
36905303 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
36905329 TAATAATAAT
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:36905333 original size:3 final size:3
Alignment explanation
Indices: 36905327--36905375 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
36905317 CAACAACAAC
36905327 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36905375 A
1 A
36905376 GGATTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36908346 original size:20 final size:21
Alignment explanation
Indices: 36908297--36908346 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36908287 ATGATTTTCT
36908297 TATATTATTAATAAAATATATA
1 TATATTA-TAATAAAATATATA
* **
36908319 TATGTTATAATAAGGTATA-A
1 TATATTATAATAAAATATATA
36908339 TATATTAT
1 TATATTAT
36908347 TATGTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.33
21 10 0.42
22 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATTATAATAAAATATATA
Found at i:36909070 original size:2 final size:2
Alignment explanation
Indices: 36909063--36909100 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
36909053 TTATTAATTA
36909063 AT AT AT AT AT -T CAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
36909101 TGTATTTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36910062 original size:41 final size:41
Alignment explanation
Indices: 36910017--36910186 Score: 252
Period size: 41 Copynumber: 4.1 Consensus size: 41
36910007 GGCTCGGTGC
* * **
36910017 CTAGCAGGCTTGATGCCAGTGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
36910058 CTAGCAGGCTTG-TCGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGAT-GCCGGTGAAACATTTCAGACTTTAAGT
** *
36910099 CTAGCAGGCTTGGCGCCGATGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
*
36910140 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
36910181 CTAGCA
1 CTAGCA
36910187 AGCTAAGTGC
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 116 0.99
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:36921654 original size:7 final size:7
Alignment explanation
Indices: 36921642--36921709 Score: 84
Period size: 7 Copynumber: 9.9 Consensus size: 7
36921632 TTCTAAAATA
36921642 CATTTCC
1 CATTTCC
36921649 CATTTCC
1 CATTTCC
36921656 CATTTCC
1 CATTTCC
*
36921663 CACTTCC
1 CATTTCC
*
36921670 CACTTCC
1 CATTTCC
36921677 CATTTCC
1 CATTTCC
* *
36921684 C-CTCCC
1 CATTTCC
36921690 CATTTCC
1 CATTTCC
*
36921697 TATTTCC
1 CATTTCC
36921704 CATTTC
1 CATTTC
36921710 TCCGTGCATC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
6 4 0.08
7 48 0.92
ACGTcount: A:0.13, C:0.47, G:0.00, T:0.40
Consensus pattern (7 bp):
CATTTCC
Found at i:36921964 original size:6 final size:6
Alignment explanation
Indices: 36921955--36921990 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
36921945 TCTTTTTGCT
*
36921955 TTTTGA TTTTGA TTTTAA TTTTGA TTTTGAA TTTTG
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTG-A TTTTG
36921991 CTGTTAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (6 bp):
TTTTGA
Found at i:36922290 original size:128 final size:128
Alignment explanation
Indices: 36922062--36922316 Score: 465
Period size: 128 Copynumber: 2.0 Consensus size: 128
36922052 AGAATTTTGG
36922062 TTTTGATTTTAATTTTTACTATTAACCCTATTTCCTGTTCGAACAATTAGACTAATAGGTTTAAA
1 TTTTGATTTTAATTTTTACTATTAACCCTATTTCCTGTTCGAACAATTAGACTAATAGGTTTAAA
*
36922127 GCAGTCAAAGATTGTATTGACATTTTTAACCTTTAAATGTTGCGTGTTTTAATCTTGTTATGA
66 GCAGTCAAAGATTGTATTGACATATTTAACCTTTAAATGTTGCGTGTTTTAATCTTGTTATGA
* * *
36922190 TTTTGATTTTAATTTTTGCTGTTAACCCTATTTCCTGTTCGAATAATTAGACTAATAGGTTTAAA
1 TTTTGATTTTAATTTTTACTATTAACCCTATTTCCTGTTCGAACAATTAGACTAATAGGTTTAAA
*
36922255 GCAGTCAAAGATTGTGTTGACATATTTAACCTTTAAATGTTGCGTGTTTTAATCTTGTTATG
66 GCAGTCAAAGATTGTATTGACATATTTAACCTTTAAATGTTGCGTGTTTTAATCTTGTTATG
36922317 CTTAAAATGA
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 122 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (128 bp):
TTTTGATTTTAATTTTTACTATTAACCCTATTTCCTGTTCGAACAATTAGACTAATAGGTTTAAA
GCAGTCAAAGATTGTATTGACATATTTAACCTTTAAATGTTGCGTGTTTTAATCTTGTTATGA
Found at i:36922669 original size:28 final size:28
Alignment explanation
Indices: 36922636--36922690 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
36922626 TATTTGATTT
36922636 AACTGACAGTGAGAGTGTCCTTTTGAAG
1 AACTGACAGTGAGAGTGTCCTTTTGAAG
*
36922664 AACTGATAGTGAGAGTGTCCTTTTGAA
1 AACTGACAGTGAGAGTGTCCTTTTGAA
36922691 CCCTTGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AACTGACAGTGAGAGTGTCCTTTTGAAG
Found at i:36924709 original size:26 final size:26
Alignment explanation
Indices: 36924676--36924730 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
36924666 GATGGGAAAG
*
36924676 AAAAAACTAAGTTAGGAATTTGGGGA
1 AAAAAACTAAGTCAGGAATTTGGGGA
* *
36924702 AAAAAACTCAGTCAGGGATTTGGGGA
1 AAAAAACTAAGTCAGGAATTTGGGGA
36924728 AAA
1 AAA
36924731 CAATTTGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.07, G:0.27, T:0.20
Consensus pattern (26 bp):
AAAAAACTAAGTCAGGAATTTGGGGA
Found at i:36925827 original size:2 final size:2
Alignment explanation
Indices: 36925771--36925808 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
36925761 CACTCACATA
36925771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36925809 TCTCCATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36928310 original size:27 final size:27
Alignment explanation
Indices: 36928253--36928310 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
36928243 AATTTACTTT
*
36928253 TTATATAAATTTAATTTAATTATTATT
1 TTATATAAATTTAATTTAATTATTATA
*
36928280 TTATAT-AATATT-ATTTCATTATATATA
1 TTATATAAAT-TTAATTTAATTAT-TATA
36928307 TTAT
1 TTAT
36928311 TATTTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTATATAAATTTAATTTAATTATTATA
Found at i:36928778 original size:19 final size:19
Alignment explanation
Indices: 36928754--36928795 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
36928744 AAAATTGAAG
36928754 GGAGACTTGGTCAGAAATT
1 GGAGACTTGGTCAGAAATT
*
36928773 GGAGACTTGGTCAGCAATT
1 GGAGACTTGGTCAGAAATT
36928792 GGAG
1 GGAG
36928796 TTTTGACCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.36, T:0.24
Consensus pattern (19 bp):
GGAGACTTGGTCAGAAATT
Found at i:36932766 original size:3 final size:3
Alignment explanation
Indices: 36932758--36932784 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
36932748 TCCTCTTGCA
36932758 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
36932785 AGTATTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:36935094 original size:72 final size:73
Alignment explanation
Indices: 36934965--36935105 Score: 173
Period size: 72 Copynumber: 1.9 Consensus size: 73
36934955 ACTGCTTACA
* * *
36934965 TCATCATTGTTTTGATGATAGCTTCCACGTTGCAAGACTTTTTTGTCTGCATCTGGATTTC-TTC
1 TCATCATGGATTTGATGATAGCTTCCACGTTGCAAGACTTTGTTGTCTGCATCTGGATTTCTTTC
36935029 TTTTGTCT
66 TTTTGTCT
* * *
36935037 TCATCATGGATTTGATGAT-GACTTCCACGTTGCCAATA-TTTGTTG-CTGGTATGTGGATTTCT
1 TCATCATGGATTTGATGATAG-CTTCCACGTTG-CAAGACTTTGTTGTCT-GCATCTGGATTTCT
36935099 TTCTTTT
63 TTCTTTT
36935106 CAGGTTACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
71 3 0.05
72 45 0.76
73 11 0.19
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (73 bp):
TCATCATGGATTTGATGATAGCTTCCACGTTGCAAGACTTTGTTGTCTGCATCTGGATTTCTTTC
TTTTGTCT
Found at i:36935892 original size:10 final size:10
Alignment explanation
Indices: 36935877--36935907 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
36935867 ATTACAAATC
36935877 ATTTTCTATT
1 ATTTTCTATT
36935887 ATTTTCTATT
1 ATTTTCTATT
36935897 ATTTTCATATT
1 ATTTTC-TATT
36935908 GAAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTCTATT
Found at i:36936505 original size:24 final size:25
Alignment explanation
Indices: 36936465--36936511 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
36936455 AGTTATCATC
36936465 AAATCCATGATGAAGACAAAAAAAG
1 AAATCCATGATGAAGACAAAAAAAG
*
36936490 AAATCCA-GATGCAGACAAAAAA
1 AAATCCATGATGAAGACAAAAAA
36936512 GTCTTGCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.60, C:0.15, G:0.15, T:0.11
Consensus pattern (25 bp):
AAATCCATGATGAAGACAAAAAAAG
Found at i:36938359 original size:14 final size:14
Alignment explanation
Indices: 36938337--36938369 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36938327 ATTTTCTAAA
36938337 AAAAGAAAAGAAGTT
1 AAAAGAAAAGAA-TT
36938352 AAAA-AAAAGAATT
1 AAAAGAAAAGAATT
36938365 AAAAG
1 AAAAG
36938370 TCTTGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 7 0.41
15 4 0.24
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAAGAAAAGAATT
Found at i:36939699 original size:34 final size:32
Alignment explanation
Indices: 36939660--36939733 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 32
36939650 AATTAATAAC
36939660 AAAACCTATAAAAATAATAGGTATAGATGGTAAT
1 AAAACC-ATAAAAATAAT-GGTATAGATGGTAAT
*
36939694 AAAACCAT--AATTAATGGTATAGATGGTAAT
1 AAAACCATAAAAATAATGGTATAGATGGTAAT
36939724 AAAACCATAA
1 AAAACCATAA
36939734 TTAATTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 23 0.62
31 6 0.16
33 2 0.05
34 6 0.16
ACGTcount: A:0.53, C:0.08, G:0.14, T:0.26
Consensus pattern (32 bp):
AAAACCATAAAAATAATGGTATAGATGGTAAT
Found at i:36939713 original size:30 final size:31
Alignment explanation
Indices: 36939674--36939738 Score: 123
Period size: 30 Copynumber: 2.1 Consensus size: 31
36939664 CCTATAAAAA
36939674 TAATAGGTATAGATGGTAATAAAACCATAAT
1 TAATAGGTATAGATGGTAATAAAACCATAAT
36939705 TAAT-GGTATAGATGGTAATAAAACCATAAT
1 TAATAGGTATAGATGGTAATAAAACCATAAT
36939735 TAAT
1 TAAT
36939739 TATAAAGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (31 bp):
TAATAGGTATAGATGGTAATAAAACCATAAT
Found at i:36947139 original size:72 final size:72
Alignment explanation
Indices: 36947063--36947197 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 72
36947053 CCTGTAAGGA
* * *
36947063 AAGAAATCCAGATACCA-ACAACAAAGAT-TGGCAACGTGGAAG-TCATCATCAAATCCATGATG
1 AAGAAATCCAGAT-CCAGACAAAAAAG-TCTGGCAACGTGGAAGCT-ATCATCAAAACAATGATG
36947125 AAGACAAAAG
63 AAGACAAAAG
* * *
36947135 AAGAAATCTAGATGCAGACAAAAAAGTCTTGCAACGTGGAAGCTATCATCAAAACAATGATGA
1 AAGAAATCCAGATCCAGACAAAAAAGTCTGGCAACGTGGAAGCTATCATCAAAACAATGATGA
36947198 TGTAAGCAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
71 3 0.06
72 50 0.93
73 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.17
Consensus pattern (72 bp):
AAGAAATCCAGATCCAGACAAAAAAGTCTGGCAACGTGGAAGCTATCATCAAAACAATGATGAAG
ACAAAAG
Found at i:36948538 original size:19 final size:21
Alignment explanation
Indices: 36948514--36948561 Score: 73
Period size: 19 Copynumber: 2.4 Consensus size: 21
36948504 CGAATATGCC
*
36948514 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTA
36948533 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
36948554 AACAGAAG
1 AACAGAAG
36948562 TTCATTAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 12 0.46
20 2 0.08
21 12 0.46
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:36948578 original size:21 final size:21
Alignment explanation
Indices: 36948514--36948578 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
36948504 CGAATATGCC
*
36948514 AACAGAAGCTC-GAA-AGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
36948533 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTG
* * *
36948554 AACAGAAGTTCATTAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
36948575 AACA
1 AACA
36948579 AAAAGTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
19 11 0.30
20 2 0.05
21 24 0.65
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:36954110 original size:26 final size:26
Alignment explanation
Indices: 36954081--36954163 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
36954071 AAAGTAGTTA
36954081 AGTAATACAATTTAATTGTGACATTC
1 AGTAATACAATTTAATTGTGACATTC
* * * ** * *
36954107 AGTACCTAGAAGTTAGAAAAGT-A-GTTA
1 AGTA-ATACAA-TT-TAATTGTGACATTC
36954134 AGTAATACAATTTAATTGTGACATTC
1 AGTAATACAATTTAATTGTGACATTC
36954160 AGTA
1 AGTA
36954164 CCTAGACCCG
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
24 4 0.11
25 3 0.08
26 14 0.37
27 10 0.26
28 3 0.08
29 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.34
Consensus pattern (26 bp):
AGTAATACAATTTAATTGTGACATTC
Found at i:36954121 original size:53 final size:53
Alignment explanation
Indices: 36954061--36954169 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
36954051 TGTAAATAAA
36954061 AGAAGTTAGAAAAGTAGTTAAGTAATACAATTTAATTGTGACATTCAGTACCT
1 AGAAGTTAGAAAAGTAGTTAAGTAATACAATTTAATTGTGACATTCAGTACCT
36954114 AGAAGTTAGAAAAGTAGTTAAGTAATACAATTTAATTGTGACATTCAGTACCT
1 AGAAGTTAGAAAAGTAGTTAAGTAATACAATTTAATTGTGACATTCAGTACCT
36954167 AGA
1 AGA
36954170 CCCGACGATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.31
Consensus pattern (53 bp):
AGAAGTTAGAAAAGTAGTTAAGTAATACAATTTAATTGTGACATTCAGTACCT
Found at i:36969285 original size:25 final size:25
Alignment explanation
Indices: 36969224--36969285 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
36969214 AACACAGATT
* * *
36969224 ATTTGAAAAGCATTTGTGGTGTATC
1 ATTTGGAAAGCCTTTGTGATGTATC
36969249 ATTTGGAAAGCCTTTGTGATGTATC
1 ATTTGGAAAGCCTTTGTGATGTATC
36969274 ATTTGGAAAGCC
1 ATTTGGAAAGCC
36969286 ATCATGGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.37
Consensus pattern (25 bp):
ATTTGGAAAGCCTTTGTGATGTATC
Found at i:36972298 original size:20 final size:18
Alignment explanation
Indices: 36972273--36972309 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
36972263 ACCTAACATG
36972273 AATTAAATTGAAACCATATT
1 AATTAAATT-AAA-CATATT
36972293 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
36972310 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:36975310 original size:32 final size:32
Alignment explanation
Indices: 36975274--36975339 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
36975264 CATTTGAGGT
* *
36975274 ATGCTTACTTGGGAGATAATAGCACATTGCCA
1 ATGCTTACTTAGGAGATAATAACACATTGCCA
36975306 ATGCTTACTTAGGAGATAATAACACATTGCCA
1 ATGCTTACTTAGGAGATAATAACACATTGCCA
36975338 AT
1 AT
36975340 AGTTATCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (32 bp):
ATGCTTACTTAGGAGATAATAACACATTGCCA
Found at i:36978052 original size:35 final size:35
Alignment explanation
Indices: 36978004--36978071 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
36977994 GAATCTCTCT
* *
36978004 TTTTAATTCTATTTTAGTTTTTCTCTTT-TTTTAGG
1 TTTTAATTCTATTTCAATTTTT-TCTTTGTTTTAGG
36978039 TTTTAGATT-TATTTCAATTTTTTCTTTGTTTTA
1 TTTTA-ATTCTATTTCAATTTTTTCTTTGTTTTA
36978072 TCTTAGGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 5 0.17
35 21 0.72
36 3 0.10
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.69
Consensus pattern (35 bp):
TTTTAATTCTATTTCAATTTTTTCTTTGTTTTAGG
Found at i:36980111 original size:22 final size:23
Alignment explanation
Indices: 36980054--36980126 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 23
36980044 AAGAATATAG
* *
36980054 AATGGAAAAAATAAAAACCAAAAAA
1 AATGGACAAAATAAAAA-C-ACAAA
36980079 AATGTGGAC-AAATAAAAACACAAA
1 AA--TGGACAAAATAAAAACACAAA
*
36980103 AATGGACAAAATAAAACCACAAA
1 AATGGACAAAATAAAAACACAAA
36980126 A
1 A
36980127 TCGTGAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.12
23 15 0.36
24 6 0.14
25 3 0.07
26 9 0.21
27 4 0.10
ACGTcount: A:0.68, C:0.12, G:0.10, T:0.10
Consensus pattern (23 bp):
AATGGACAAAATAAAAACACAAA
Found at i:36987086 original size:31 final size:31
Alignment explanation
Indices: 36987051--36987146 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
36987041 TGCACAGAGA
* * *
36987051 CTTATCACAGAAAGCTCGCATAGGGAGCTTG
1 CTTATCATAGAGAGCTCACATAGGGAGCTTG
36987082 CTTATCATAGAGAGCTCACATAGGGAGCTTG
1 CTTATCATAGAGAGCTCACATAGGGAGCTTG
36987113 CTTATCATAGAGAGCTCACATAGGGAGCTTG
1 CTTATCATAGAGAGCTCACATAGGGAGCTTG
36987144 CTT
1 CTT
36987147 GCAAACACTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (31 bp):
CTTATCATAGAGAGCTCACATAGGGAGCTTG
Found at i:36987096 original size:18 final size:18
Alignment explanation
Indices: 36987069--36987128 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
36987059 AGAAAGCTCG
*
36987069 CATAGGGAGCTTGCTTAT
1 CATAGAGAGCTTGCTTAT
36987087 CATAGAGAGC-T-C--A-
1 CATAGAGAGCTTGCTTAT
*
36987100 CATAGGGAGCTTGCTTAT
1 CATAGAGAGCTTGCTTAT
36987118 CATAGAGAGCT
1 CATAGAGAGCT
36987129 CACATAGGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 19 0.56
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (18 bp):
CATAGAGAGCTTGCTTAT
Found at i:36987286 original size:27 final size:26
Alignment explanation
Indices: 36987256--36987311 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
36987246 GCACACATAA
* *
36987256 AACATATCTTTAAAATCATAGCTTAAG
1 AACATATCTTGAAAAT-AGAGCTTAAG
*
36987283 AACATATCTTGAAAATAGAGTTTAAG
1 AACATATCTTGAAAATAGAGCTTAAG
36987309 AAC
1 AAC
36987312 TTGAAAACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.30
Consensus pattern (26 bp):
AACATATCTTGAAAATAGAGCTTAAG
Found at i:36987314 original size:21 final size:22
Alignment explanation
Indices: 36987290--36987332 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
36987280 AAGAACATAT
*
36987290 CTTGAAAATAGAGTTT-AAGAA
1 CTTGAAAACAGAGTTTGAAGAA
36987311 CTTGAAAACAGAGTTTGAAGAA
1 CTTGAAAACAGAGTTTGAAGAA
36987333 AACTTACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.26
Consensus pattern (22 bp):
CTTGAAAACAGAGTTTGAAGAA
Found at i:36987888 original size:27 final size:27
Alignment explanation
Indices: 36987857--36987911 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
36987847 ACTGGCGAAT
* *
36987857 CCTAGTTTGAAACTTAAGTAGCAAACC
1 CCTAGTTCGAAACTTAACTAGCAAACC
* *
36987884 CCTAGTTCGCAACTTACCTAGCAAACC
1 CCTAGTTCGAAACTTAACTAGCAAACC
36987911 C
1 C
36987912 TAGCTCGCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.24
Consensus pattern (27 bp):
CCTAGTTCGAAACTTAACTAGCAAACC
Found at i:36987931 original size:27 final size:26
Alignment explanation
Indices: 36987875--36987950 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
36987865 GAAACTTAAG
* *
36987875 TAGCAAACCCCTAGTTCG-CAACTTACC
1 TAGCAAA-CCCTAGCTCGCCAA-ATACC
36987902 TAGCAAACCCTAGCTCGCCAAATACAC
1 TAGCAAACCCTAGCTCGCCAAATAC-C
** *
36987929 TAGTGAACCCTAGCTCACCAAA
1 TAGCAAACCCTAGCTCGCCAAA
36987951 CATACTGGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 12 0.29
27 30 0.71
ACGTcount: A:0.34, C:0.36, G:0.12, T:0.18
Consensus pattern (26 bp):
TAGCAAACCCTAGCTCGCCAAATACC
Found at i:36987963 original size:27 final size:27
Alignment explanation
Indices: 36987901--36987964 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
36987891 CGCAACTTAC
* * *
36987901 CTAGCAAACCCTAGCTCGCCAAATACA
1 CTAGCGAACCCTAGCTCACCAAACACA
* *
36987928 CTAGTGAACCCTAGCTCACCAAACATA
1 CTAGCGAACCCTAGCTCACCAAACACA
*
36987955 CTGGCGAACC
1 CTAGCGAACC
36987965 TACATGTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.36, G:0.14, T:0.16
Consensus pattern (27 bp):
CTAGCGAACCCTAGCTCACCAAACACA
Found at i:36989967 original size:21 final size:21
Alignment explanation
Indices: 36989943--36989983 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
36989933 TATATTTATC
36989943 ATGTTGATAATTTATTGAATG
1 ATGTTGATAATTTATTGAATG
*
36989964 ATGTTTATAATTTATTGAAT
1 ATGTTGATAATTTATTGAAT
36989984 AATATTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (21 bp):
ATGTTGATAATTTATTGAATG
Found at i:36989991 original size:21 final size:21
Alignment explanation
Indices: 36989949--36989992 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
36989939 TATCATGTTG
* *
36989949 ATAATTTATTGAATGATGTTT
1 ATAATTTATTGAATAATATTT
36989970 ATAATTTATTGAATAATATTT
1 ATAATTTATTGAATAATATTT
36989991 AT
1 AT
36989993 GAGTAGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (21 bp):
ATAATTTATTGAATAATATTT
Found at i:36992962 original size:30 final size:30
Alignment explanation
Indices: 36992928--36992990 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
36992918 GCTAGAAAAC
*
36992928 TAAACCTATAAAATATCATGAGGACCACAA
1 TAAACCCATAAAATATCATGAGGACCACAA
36992958 TAAACCCATAAAATATCATGAGGACCACAA
1 TAAACCCATAAAATATCATGAGGACCACAA
36992988 TAA
1 TAA
36992991 TAATCAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.19
Consensus pattern (30 bp):
TAAACCCATAAAATATCATGAGGACCACAA
Found at i:36995993 original size:140 final size:140
Alignment explanation
Indices: 36995820--36996647 Score: 1035
Period size: 140 Copynumber: 6.0 Consensus size: 140
36995810 TATAACAAAA
* ** * *
36995820 GTTGGCATAGTGTTGGACAAAGCTGACTCTTATTTAATTGCTGCATTAGGCATACATATCCCAAC
1 GTTGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * * *
36995885 CCTTATACAAAGAGTTGGCCAAAGCGTATATCAGTAAGTCTATCCCAACAATTAGGAAAGTGCCG
66 CCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG
36995950 GCCCAAAAGT
131 GCCCAAAAGT
* * *
36995960 GTTGGCATAGTGTTGCACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGG-AAATCATATCCCAA
1 GTTGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATA-CATATCCCAA
* * * * *
36996024 CCCTTATATAAAGAGTTGGCCAAAGTGTATGTTGGCAAGTTTATCCCAACACTTAGGAAAGTTTC
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTC
36996089 GGCCCAAAAGT
130 GGCCCAAAAGT
* * * ** * * *
36996100 GTCGGCATAGCT-TTGGACAAAGTCGACTCTTATTTAAGTGTTATCTTAAGTATGCATATCCCAA
1 GTTGGCATAG-TGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAA
* * * *
36996164 CCCTTATACAAAGAGTTGGCTAAAGCATATGTCTGCAAGTCTATCCCAACATTTAGGAAAGTGTC
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTC
36996229 GGCCCAAAAGT
130 GGCCCAAAAGT
* * * *
36996240 GTTGTCATAGTGTTGGTCAAAGCCCACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAAC
1 GTTGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
* *
36996305 CCTTATATAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAGTGTCG
66 CCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG
36996370 GCCCAAAAGT
131 GCCCAAAAGT
* *
36996380 GTTGGCATAGTGTTGGACAAAGCTGACCCTTATTTAAGCGTTGCCTTAGGCATGA-ATATCCCAA
1 GTTGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCAT-ACATATCCCAA
* * * * *
36996444 CCCTTATAGAAAGAGTTGGCCAACGTGTCTGTCAAG-AAGTCTATCCCAACACTTAGGAAAGTGT
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTC-GGCAAGTCTATCCCAACACTTAGGAAAGTGT
36996508 -----C------
129 CGGCCCAAAAGT
* * *
36996509 ---GGCATAGTATTGGACAAAGCCGACTCTTATTTAACCGTTGCCTTAGGCATGCATATCCCAAC
1 GTTGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * *
36996571 CCTTATACAAAGAGTTGGCCAAATCATATGTTGGCAAGTCTATCCCAACACTTAGAAAAGTGTCG
66 CCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG
*
36996636 TCCCAAAAGT
131 GCCCAAAAGT
36996646 GT
1 GT
36996648 CGTCTTAGGA
Statistics
Matches: 592, Mismatches: 75, Indels: 43
0.83 0.11 0.06
Matches are distributed among these distances:
125 1 0.00
126 108 0.18
131 1 0.00
135 1 0.00
139 3 0.01
140 475 0.80
141 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (140 bp):
GTTGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG
GCCCAAAAGT
Found at i:36996610 original size:126 final size:126
Alignment explanation
Indices: 36996374--36996635 Score: 375
Period size: 126 Copynumber: 2.1 Consensus size: 126
36996364 GTGTCGGCCC
* * * *
36996374 AAAAGTGTTGGCATAGTGTTGGACAAAGCTGACCCTTATTTAAGCGTTGCCTTAGGCATGAATAT
1 AAAAGTGTCGGCATAGTATTGGACAAAGCCGACCCTTATTTAACCGTTGCCTTAGGCATGAATAT
* * * *
36996439 CCCAACCCTTATAGAAAGAGTTGGCCAACGTGTCTGTCAAGAAGTCTATCCCAACACTTAG
66 CCCAACCCTTATACAAAGAGTTGGCCAACATATATGTCAAGAAGTCTATCCCAACACTTAG
* * *
36996500 GAAAGTGTCGGCATAGTATTGGACAAAGCCGACTCTTATTTAACCGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCGGCATAGTATTGGACAAAGCCGACCCTTATTTAACCGTTGCCTTAGGCATGAATAT
**
36996565 CCCAACCCTTATACAAAGAGTTGGCCAA-ATCATATGT-TGGCAAGTCTATCCCAACACTTAG
66 CCCAACCCTTATACAAAGAGTTGGCCAACAT-ATATGTCAAG-AAGTCTATCCCAACACTTAG
36996626 AAAAGTGTCG
1 AAAAGTGTCG
36996636 TCCCAAAAGT
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 2 0.02
126 118 0.98
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (126 bp):
AAAAGTGTCGGCATAGTATTGGACAAAGCCGACCCTTATTTAACCGTTGCCTTAGGCATGAATAT
CCCAACCCTTATACAAAGAGTTGGCCAACATATATGTCAAGAAGTCTATCCCAACACTTAG
Done.