Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 152 of 378
Found at i:43737359 original size:37 final size:37
Alignment explanation
Indices: 43737306--43737396 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
43737296 TATAAAAGAA
43737306 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43737343 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43737380 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
43737397 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:43737547 original size:49 final size:49
Alignment explanation
Indices: 43737492--43737844 Score: 571
Period size: 49 Copynumber: 7.4 Consensus size: 49
43737482 TTTTACATTA
43737492 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43737541 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43737590 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43737630 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43737679 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43737728 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43737777 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43737826 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
43737845 CACATATGTA
Statistics
Matches: 285, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
40 36 0.13
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 243 0.85
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:43737606 original size:89 final size:89
Alignment explanation
Indices: 43737513--43737790 Score: 439
Period size: 89 Copynumber: 3.0 Consensus size: 89
43737503 TTATCACATA
*
43737513 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTTACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
43737578 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
43737602 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
43737667 TTCACCACATCGGCCATTAGGCCTTATCACAT
66 TTCACCACATCGGCCATTAGG------C-C-T
* *
43737699 ATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCAC
1 -TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
*
43737764 ATTCATCACATCGGCCATTAGGCCT
65 ATTCACCACATCGGCCATTAGGCCT
43737789 TA
1 TA
43737791 TCACATATAC
Statistics
Matches: 176, Mismatches: 4, Indels: 18
0.89 0.02 0.09
Matches are distributed among these distances:
89 87 0.49
90 1 0.01
91 1 0.01
92 1 0.01
95 1 0.01
96 1 0.01
97 1 0.01
98 83 0.47
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:43737765 original size:138 final size:142
Alignment explanation
Indices: 43737492--43737844 Score: 518
Period size: 138 Copynumber: 2.5 Consensus size: 142
43737482 TTTTACATTA
43737492 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
* *
43737557 ACATATACATACACTTTTACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACAT--T
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTATCACATCCT
43737620 CAC--CACATCG
131 CACAACACATCG
43737630 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
* *
43737695 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATAC-ATCCACT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT--T-ACATACACTAT-CACA
* * *
43737759 TTCACATTCATCACATCG
127 TCCTCA--CAACACATCG
* * * *
43737777 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTGGCCATTCGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
43737842 ACA
66 ACA
43737845 CACATATGTA
Statistics
Matches: 196, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
138 109 0.56
140 2 0.01
141 11 0.06
143 2 0.01
145 1 0.01
147 71 0.36
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (142 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTATCACATCCT
CACAACACATCG
Found at i:43742565 original size:22 final size:22
Alignment explanation
Indices: 43742537--43742582 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
43742527 TCAATTCTTT
43742537 TAGCTCAGTCGGAGCCATCCTG
1 TAGCTCAGTCGGAGCCATCCTG
43742559 TAGCTCAGTCGGAGCCATCCTG
1 TAGCTCAGTCGGAGCCATCCTG
43742581 TA
1 TA
43742583 TGGAGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (22 bp):
TAGCTCAGTCGGAGCCATCCTG
Found at i:43745623 original size:281 final size:277
Alignment explanation
Indices: 43745115--43745677 Score: 932
Period size: 281 Copynumber: 2.0 Consensus size: 277
43745105 CATGACATAT
* *
43745115 TTAGACACTCAATAATTCAACAACATGGCACTTTCACTTCTTCGTAATGTCATCTTATTACAGAT
1 TTAGACACTCAATAATTCAACAACATGGCACTTTCACATCTTCGTAATGTCATCCTATTACAGAT
*
43745180 TCAATTAGTCACACCATTTGGTAGCATTCCACATCAACTTCATGCATAACCAACTTTGTTATCAT
66 TCAATTAGTCACAACATTTGGTAGCATTCCACATCAACTTCATGCATAACCAACTTTGTTATCAT
43745245 AACTTCAAATTATACCTTCATGATTATAGTCATCTTAAGTCATTAAGTCATTCCTTATTTTCATG
131 AACTTCAAATTATACCTTCATGATTATAGTCATCTTAAGTCATTAAGTCATTCCTTATTTTCATG
* * *
43745310 TACTTCATTCATACCCCTTCATATCCATCAAACAAACCACATAGCACG-TCATCAACGCATTAAC
196 TACTTAATTCATACCCATTCATATCCATCAAACAAAACACATAGCA-GATCATCAACGCATTAAC
43745374 AAATGCATGTATTCATGAACAA
260 AAATGCATG----CATGAACAA
* *
43745396 TTAGACACTCAATTATTCAACAACATGGCACTTTCACATCTTTGTAATGTCATCCTATTACATG-
1 TTAGACACTCAATAATTCAACAACATGGCACTTTCACATCTTCGTAATGTCATCCTATTACA-GA
*
43745460 TTCAATTAGTCACAACATTTGGTAGCATTCCACGTCAACTTCATGCATAACCAACTTTGTTATCA
65 TTCAATTAGTCACAACATTTGGTAGCATTCCACATCAACTTCATGCATAACCAACTTTGTTATCA
*
43745525 TAACTTCAAATTATACCTTCATGATTATAGTCATCTTAAGTCATTAAGTCATTTCTTATTTTCAT
130 TAACTTCAAATTATACCTTCATGATTATAGTCATCTTAAGTCATTAAGTCATTCCTTATTTTCAT
* * *
43745590 GTACTTAATTCATACCCATTCTTATCTATCAAACAAAACACATAGCAGATCATCAAGGCATTAAC
195 GTACTTAATTCATACCCATTCATATCCATCAAACAAAACACATAGCAGATCATCAACGCATTAAC
*
43745655 ACATGCATGCATGAACAA
260 AAATGCATGCATGAACAA
43745673 TTAGA
1 TTAGA
43745678 TTTACAACCC
Statistics
Matches: 266, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
277 14 0.05
280 1 0.00
281 250 0.94
282 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (277 bp):
TTAGACACTCAATAATTCAACAACATGGCACTTTCACATCTTCGTAATGTCATCCTATTACAGAT
TCAATTAGTCACAACATTTGGTAGCATTCCACATCAACTTCATGCATAACCAACTTTGTTATCAT
AACTTCAAATTATACCTTCATGATTATAGTCATCTTAAGTCATTAAGTCATTCCTTATTTTCATG
TACTTAATTCATACCCATTCATATCCATCAAACAAAACACATAGCAGATCATCAACGCATTAACA
AATGCATGCATGAACAA
Found at i:43745997 original size:13 final size:13
Alignment explanation
Indices: 43745975--43746007 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43745965 AAGGGTTTGT
43745975 TTAT-TAAACTAA
1 TTATCTAAACTAA
43745987 TTATCTAAACTAA
1 TTATCTAAACTAA
*
43746000 TTAACTAA
1 TTATCTAA
43746008 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:43748441 original size:66 final size:65
Alignment explanation
Indices: 43748315--43748501 Score: 275
Period size: 66 Copynumber: 2.8 Consensus size: 65
43748305 TATTATGTGT
* *
43748315 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAA
1 ACACCATGTAGACAAGAGAGCTACGAGATAAATG--GCTAGGTCGCATGCGTGGTTCCAGGTGAA
43748380 GG
64 GG
* *
43748382 ACACCATGTAGACAAGAGAGCTACAAGATAAACTGGCTAGGTCGCATGCGTTGTTCCAGGTGAAG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGGCTAGGTCGCATGCGTGGTTCCAGGTGAAG
43748447 G
65 G
* * *
43748448 ACACCATGTAGACAAGATAGCTACGAGATAAATTGGCTAGGTCACATGGGTGGT
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGGCTAGGTCGCATGCGTGGT
43748502 ACTGAGTGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
66 78 0.72
67 29 0.27
68 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (65 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAATGGCTAGGTCGCATGCGTGGTTCCAGGTGAAGG
Found at i:43752571 original size:12 final size:12
Alignment explanation
Indices: 43752556--43752630 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 12
43752546 AATTGAAATG
*
43752556 AAAATAAAAAGA
1 AAAATAAAAAAA
* *
43752568 AAAAGAAAAAGA
1 AAAATAAAAAAA
43752580 AAAATAAGAATAAA
1 AAAATAA-AA-AAA
43752594 ATAAATAAAATAAAA
1 A-AAAT-AAA-AAAA
*
43752609 ATAAATAAAAATA
1 A-AAATAAAAAAA
43752622 AAAATAAAA
1 AAAATAAAA
43752631 TAGGAGGATT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
12 25 0.46
13 6 0.11
14 6 0.11
15 14 0.26
16 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.13
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:43752591 original size:6 final size:5
Alignment explanation
Indices: 43752580--43752632 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
43752570 AAGAAAAAGA
43752580 AAAAT AAGAAT AAAAT -AAAT AAAAT AAAA- ATAAAT AAAAAT AAAAAT
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT A-AAAT -AAAAT -AAAAT
43752627 AAAAT A
1 AAAAT A
43752633 GGAGGATTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 5 0.12
5 22 0.51
6 15 0.35
7 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:43752599 original size:15 final size:15
Alignment explanation
Indices: 43752551--43752629 Score: 76
Period size: 15 Copynumber: 5.2 Consensus size: 15
43752541 AAGAAAATTG
*
43752551 AAATGAAAATAAAAAG
1 AAAT-AAAATAAAAAT
43752567 AAA-AAGAA-AAAGAA-
1 AAATAA-AATAAA-AAT
43752581 AAATAAGAAT-AAAAT
1 AAATAA-AATAAAAAT
43752596 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
43752611 AAATAAAAATAAAAAT
1 AAAT-AAAATAAAAAT
43752627 AAA
1 AAA
43752630 ATAGGAGGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
14 13 0.23
15 26 0.46
16 17 0.30
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:43752605 original size:20 final size:21
Alignment explanation
Indices: 43752579--43752632 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
43752569 AAAGAAAAAG
43752579 AAAAATAAGAAT-AAAATAAAT
1 AAAAATAA-AATAAAAATAAAT
43752600 -AAAATAAAAATAAATAA-AAAT
1 AAAAAT-AAAATAAA-AATAAAT
43752621 AAAAATAAAATA
1 AAAAATAAAATA
43752633 GGAGGATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 8 0.28
21 14 0.48
22 7 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAAATAAAATAAAAATAAAT
Found at i:43758025 original size:13 final size:13
Alignment explanation
Indices: 43758003--43758035 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43757993 AAGGGTTTGT
43758003 TTAT-TAAACTAA
1 TTATCTAAACTAA
43758015 TTATCTAAACTAA
1 TTATCTAAACTAA
*
43758028 TTAACTAA
1 TTATCTAA
43758036 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:43761477 original size:46 final size:46
Alignment explanation
Indices: 43761380--43761546 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
43761370 ATGCCAATGC
** * * *
43761380 CATGTCCCGGACATGGTCTTACACTAG--CTCAACTCATA-GTCAATG
1 CATGTCCCAAACAT-GTCTTACACTAGCTCTCATCTCA-AGGCCGATG
* * *
43761425 CATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT-CATCTCAAGGCCGATG
* * *
43761471 CATGTCCCAAACATGTCATACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
*
43761517 CCATGTCCCGAACATGTCTTACACTAGCTC
1 -CATGTCCCAAACATGTCTTACACTAGCTC
43761547 ACAATAACCC
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
44 11 0.11
45 14 0.14
46 47 0.47
47 28 0.28
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:43763394 original size:18 final size:18
Alignment explanation
Indices: 43763367--43763418 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
43763357 AATATAAAGA
43763367 CATTTGGGACTTACACGG
1 CATTTGGGACTTACACGG
* *
43763385 CATTTAGGACTTACCCGG
1 CATTTGGGACTTACACGG
* *
43763403 CGTTCGGGACTTACAC
1 CATTTGGGACTTACAC
43763419 CCATACAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (18 bp):
CATTTGGGACTTACACGG
Found at i:43765982 original size:51 final size:51
Alignment explanation
Indices: 43765914--43766022 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
43765904 TACTTCATAC
* *
43765914 TTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAATAGCTTCAAAT
1 TTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAGCTTCAAAT
* * * *
43765965 TTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAGCTTCATAT
1 TTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAGCTTCAAAT
*
43766016 TTTATCC
1 TTCATCC
43766023 AGATAACATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (51 bp):
TTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAGCTTCAAAT
Found at i:43768376 original size:45 final size:45
Alignment explanation
Indices: 43768317--43768421 Score: 201
Period size: 45 Copynumber: 2.3 Consensus size: 45
43768307 TAGCCCAGCC
*
43768317 ATGGTCTTACACGGATCACATATCACACTGATGCCATATCCTAAT
1 ATGGTCTTATACGGATCACATATCACACTGATGCCATATCCTAAT
43768362 ATGGTCTTATACGGATCACATATCACACTGATGCCATATCCTAAT
1 ATGGTCTTATACGGATCACATATCACACTGATGCCATATCCTAAT
43768407 ATGGTCTTATACGGA
1 ATGGTCTTATACGGA
43768422 AGCACGTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (45 bp):
ATGGTCTTATACGGATCACATATCACACTGATGCCATATCCTAAT
Found at i:43770513 original size:39 final size:39
Alignment explanation
Indices: 43770414--43770604 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
43770404 CGAATGATGT
* * * * *
43770414 CCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTA-AA
* * *
43770454 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
43770493 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
43770532 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
43770573 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
43770605 CGTTATATCC
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:43770557 original size:79 final size:82
Alignment explanation
Indices: 43770413--43770597 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
43770403 TCGAATGATG
* * * *
43770413 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
43770477 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
43770493 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
43770555 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
43770573 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43770598 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:43770628 original size:79 final size:79
Alignment explanation
Indices: 43770465--43770630 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
43770455 CGGACTAGGA
* * *
43770465 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
*
43770530 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * ** * **
43770544 CCCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
43770608 TATATCC-GGTTAAAT
64 TAAACCCGGGTTAAAT
43770623 TCCGAAGG
1 TCCGAAGG
43770631 TACGTGATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 45 0.63
80 26 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGGGTTAAAT
Found at i:43772887 original size:23 final size:22
Alignment explanation
Indices: 43772818--43772905 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
43772808 TAATTGATCA
* *
43772818 GAATATGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
43772839 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
43772860 G-ATACGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* * *
43772881 GAAATACTACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
43772904 GA
1 GA
43772906 TCAGTAAAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.16
21 28 0.50
22 1 0.02
23 18 0.32
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:43773142 original size:23 final size:23
Alignment explanation
Indices: 43773074--43773143 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 23
43773064 CGGATTCCAT
*
43773074 CCAAACACACCAGTATAATCCTC
1 CCAAACACACCAGAATAATCCTC
* *
43773097 CAAAACACACTAGTATCATATAATCCTC
1 CCAAACACACCAG----A-ATAATCCTC
43773125 CCAAACACACCAGAATAAT
1 CCAAACACACCAGAATAAT
43773144 ATAATCCATC
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
23 16 0.43
24 1 0.03
28 20 0.54
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.19
Consensus pattern (23 bp):
CCAAACACACCAGAATAATCCTC
Found at i:43773169 original size:29 final size:28
Alignment explanation
Indices: 43773087--43773170 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
43773077 AACACACCAG
* *
43773087 TATAATCCTCCAAAACACACTAGTATCA
1 TATAATCCTCCAAAACACACTAGAATAA
* *
43773115 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACTAGAATAA
43773143 TATAATCCATCCAAAACACACTAGAATA
1 TATAATCC-TCCAAAACACACTAGAATA
43773171 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.46, C:0.29, G:0.04, T:0.21
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACTAGAATAA
Found at i:43774738 original size:51 final size:51
Alignment explanation
Indices: 43774683--43774794 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
43774673 TACTTCATAC
*
43774683 TTCATCCGGAATTATTACATTGTTGCTCTAACTTCAACAAGAGCTTCAAAT
1 TTCATCCGGAATAATTACATTGTTGCTCTAACTTCAACAAGAGCTTCAAAT
* * * *
43774734 TTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAGCTTCATAT
1 TTCATCCGGAATAATTACATTGTTGCTCTAACTTCAACAAGAGCTTCAAAT
*
43774785 TTTATCCGGA
1 TTCATCCGGA
43774795 TAACTTAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (51 bp):
TTCATCCGGAATAATTACATTGTTGCTCTAACTTCAACAAGAGCTTCAAAT
Found at i:43779887 original size:93 final size:93
Alignment explanation
Indices: 43779780--43779950 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
43779770 GCCCTTAAGT
* * * *
43779780 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
43779845 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
43779873 GAACTCGGACTCAACTCAACAAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
43779938 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43779951 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43779947 original size:46 final size:46
Alignment explanation
Indices: 43779775--43779947 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
43779765 AACCCGCCCT
* * * *
43779775 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
* *
43779821 TAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
43779869 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
43779914 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43779948 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 58 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:43780403 original size:30 final size:30
Alignment explanation
Indices: 43780369--43780428 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43780359 ATTTAATACG
43780369 AACTTTGGAAAAATTAAACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
* * * *
43780399 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
43780429 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTAAACTTTTGCCCCTA
Found at i:43787302 original size:28 final size:28
Alignment explanation
Indices: 43787270--43787368 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
43787260 GCAATAAGCC
*
43787270 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
43787298 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
43787326 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
43787355 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43787369 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:43810288 original size:22 final size:22
Alignment explanation
Indices: 43810239--43810289 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
43810229 ATAATAGAAA
*
43810239 ATTTAACTTATTTAATATTCAC
1 ATTTATCTTATTTAATATTCAC
43810261 ATTTATCTTATTTAATATTCAC
1 ATTTATCTTATTTAATATTCAC
43810283 ATTTATC
1 ATTTATC
43810290 AAAACAGTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTATCTTATTTAATATTCAC
Found at i:43812947 original size:45 final size:45
Alignment explanation
Indices: 43812550--43812947 Score: 532
Period size: 45 Copynumber: 8.8 Consensus size: 45
43812540 TAGCATTTCA
* * * *
43812550 CCTGCTAGGCTC-GAGGCCCG-ATATCATTTCACCGGTATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAG
** ** *
43812593 CCTATTAGGCTCGAAA-GCCCGAATAGTATCTCACTGGCATTATAG
1 CCTGCTAGGCTC-AAAGGCCCGAATAACATCTCACCGGCATTATAG
* * *
43812638 CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATAT
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAG
* *
43812683 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACTGTCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAG
** *
43812728 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCAACAGTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAG
*
43812773 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACTGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAG
*
43812818 CCTGCTAGTCTCAAAGGCCCGAATAACATCTCACCGCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCT-----CACCGGCATTATAG
*
43812868 CCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAG
*
43812913 CCTGCTAGGCTCAAAGGCCCGAATAACATTTCACC
1 CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACC
43812948 AGTTCTTTCC
Statistics
Matches: 319, Mismatches: 27, Indels: 16
0.88 0.07 0.04
Matches are distributed among these distances:
43 10 0.03
44 8 0.03
45 259 0.81
50 42 0.13
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAACATCTCACCGGCATTATAG
Found at i:43815055 original size:55 final size:52
Alignment explanation
Indices: 43814967--43815222 Score: 186
Period size: 55 Copynumber: 4.9 Consensus size: 52
43814957 CATTAGGGTT
* * *
43814967 TAAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAA
1 TAAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAA
* * * *
43815020 GGTAAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACT-A
1 --TAAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAA
* *
43815072 TAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAA
1 TAAGG-AAA----CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAA
* ** * * *
43815128 GGCAAGGCTACCATGTCAGACCATGTCAATACATGGCAA-TGGTAAGTTTC-AA
1 --TAAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAA
* * * *
43815180 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 TAAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
43815223 GTACCTGTGT
Statistics
Matches: 163, Mismatches: 27, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
49 37 0.23
50 5 0.03
51 3 0.02
52 3 0.02
53 34 0.21
54 13 0.08
55 62 0.38
56 1 0.01
57 1 0.01
58 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (52 bp):
TAAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAA
Found at i:43815174 original size:108 final size:110
Alignment explanation
Indices: 43814978--43815175 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
43814968 AAGGATACCG
* *
43814978 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
43815043 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* ** *
43815088 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTCAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* *
43815150 ATGTCAATACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
43815176 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 44 0.56
109 7 0.09
110 24 0.31
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:43815393 original size:16 final size:16
Alignment explanation
Indices: 43815372--43815402 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43815362 ATAAATTTGA
43815372 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
43815388 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
43815403 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:43825165 original size:53 final size:53
Alignment explanation
Indices: 43825061--43825256 Score: 133
Period size: 53 Copynumber: 3.6 Consensus size: 53
43825051 TTCCTTTTTA
* * * * *
43825061 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGATATACTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGAGATACTTGCCTTATG
* * * *
43825114 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGAT-CTTTGTCTTATC
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGAGATAC-TTGCCTTATG
* * * * * * ** * * *
43825167 ATAGTTTATCAATGCCATGTCTTGACATGGTGTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTCACCATTGCCATGCCTTGACATGGTCTTACATGAGATACTTGCCTTAT-G
* * * *
43825223 AACTTACCAATGCCATGCCTTGGCATCGTCTTAC
1 AACTCACCATTGCCATGCCTTGACATGGTCTTAC
43825257 TTGGTATCCT
Statistics
Matches: 110, Mismatches: 28, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
52 1 0.01
53 43 0.39
54 27 0.25
55 37 0.34
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGAGATACTTGCCTTATG
Found at i:43830803 original size:92 final size:93
Alignment explanation
Indices: 43830692--43830862 Score: 283
Period size: 92 Copynumber: 1.8 Consensus size: 93
43830682 GCCCATAAGT
*
43830692 GAACTCGGACTCAACTCAACGAGCTCGGGC-TTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTT-GCATCCATAAGTGAACTCAGACTCAACTCA
43830756 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
43830785 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
*
43830849 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
43830863 CAAACATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 64 0.88
93 9 0.12
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:43830858 original size:46 final size:46
Alignment explanation
Indices: 43830684--43830858 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
43830674 TGTAACCCGC
*
43830684 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTT-GCAT
* * *
43830730 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
43830780 CTC-T---CGAACTC-GACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
43830822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43830859 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
41 1 0.01
42 8 0.07
43 1 0.01
45 6 0.06
46 78 0.72
47 6 0.06
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:43833281 original size:15 final size:14
Alignment explanation
Indices: 43833245--43833284 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
43833235 CAAGAAAACC
43833245 GAATAAAGAAATCA
1 GAATAAAGAAATCA
*
43833259 GAATAAAGAGATCCA
1 GAATAAAGAAAT-CA
*
43833274 GGATAAAGAAA
1 GAATAAAGAAA
43833285 CCCAAGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.12
Consensus pattern (14 bp):
GAATAAAGAAATCA
Found at i:43836328 original size:92 final size:93
Alignment explanation
Indices: 43836217--43836387 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 93
43836207 GCCCATAAGT
* *
43836217 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
43836281 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* **
43836309 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
43836374 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
43836388 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 47 0.65
93 25 0.35
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:43836360 original size:46 final size:46
Alignment explanation
Indices: 43836209--43836383 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
43836199 TGTAACCCGC
* * *
43836209 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
*
43836255 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTACAT
* * *
43836304 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
*
43836347 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43836384 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 21 0.19
46 49 0.45
47 21 0.19
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
Found at i:43839896 original size:48 final size:48
Alignment explanation
Indices: 43839844--43840044 Score: 242
Period size: 48 Copynumber: 4.2 Consensus size: 48
43839834 TGTCCTAGAC
* * * * *
43839844 ATGGTCTTATACGGGACCTCATATCAATGCCAATTCCATATCCCAAAT
1 ATGGTCTTACACGGGATCTCATATCGATGCCAATGCCATATCCCATAT
* *
43839892 ATGGTCTTACATGGGATCTCATA-CTGATGCCAATGTCATATCCCATAT
1 ATGGTCTTACACGGGATCTCATATC-GATGCCAATGCCATATCCCATAT
* * * * *
43839940 ATGGTTTTACACGGGATCTCATCTCGATGCCGATGCCATATCCTAGAT
1 ATGGTCTTACACGGGATCTCATATCGATGCCAATGCCATATCCCATAT
* * *
43839988 ATGGTCTTACACGGGATCTCATTTCGATGCCGATGCCATATCCTATAT
1 ATGGTCTTACACGGGATCTCATATCGATGCCAATGCCATATCCCATAT
*
43840036 ATAGTCTTA
1 ATGGTCTTA
43840045 TATGGGAACT
Statistics
Matches: 133, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 131 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
ATGGTCTTACACGGGATCTCATATCGATGCCAATGCCATATCCCATAT
Found at i:43843863 original size:27 final size:27
Alignment explanation
Indices: 43843795--43843865 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
43843785 CGACTTGTAA
* *
43843795 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
43843822 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
43843849 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
43843866 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:43843872 original size:27 final size:27
Alignment explanation
Indices: 43843849--43843972 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
43843839 CAATTTACAG
*
43843849 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCTTGGTTTATAA
* * * *
43843876 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAA
*
43843903 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACTAAAATACCCTTGGTTTATAA
**
43843930 AATTACTAAAATACCAATGGTTTGA-AA
1 AATTACTAAAATACCCTTGGTTT-ATAA
43843957 AATTACTAAAATACCC
1 AATTACTAAAATACCC
43843973 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTATAA
Found at i:43843891 original size:54 final size:53
Alignment explanation
Indices: 43843833--43843944 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 53
43843823 ATTACCGTTT
43843833 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * * *
43843887 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACTAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
43843941 TACC
1 TACC
43843945 AATGGTTTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
53 2 0.04
54 38 0.78
55 7 0.14
56 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:43843951 original size:54 final size:54
Alignment explanation
Indices: 43843849--43843972 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
43843839 CAATTTACAG
* ** *
43843849 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* * *
43843903 AATTACTAAAATACCCTTTGTTTATAAAATTACTAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
43843957 AATTACTAAAATACCC
1 AATTACTAAAATACCC
43843973 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:43843985 original size:27 final size:27
Alignment explanation
Indices: 43843955--43844016 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
43843945 AATGGTTTGA
43843955 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
43843982 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
43844009 AAAATTAC
1 AAAATTAC
43844017 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:43843985 original size:54 final size:54
Alignment explanation
Indices: 43843849--43843998 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
43843839 CAATTTACAG
* ** * * ** *
43843849 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACTAAAATACCAATGGTTTGAAA
* **
43843903 AATTACTAAAATACCCTTTGTTTATAAAATTACTAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACTAAAATACCAATGGTTTGAAA
* *
43843957 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACTAAAATACC
43843999 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACTAAAATACCAATGGTTTGAAA
Found at i:43844001 original size:81 final size:81
Alignment explanation
Indices: 43843849--43844001 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
43843839 CAATTTACAG
** **
43843849 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
43843914 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * * *
43843930 AATTACTAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
43843993 AATACCCTT
64 AATACCCTT
43844002 GTGGGGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:43844670 original size:28 final size:28
Alignment explanation
Indices: 43844637--43844733 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
43844627 GCGTAGATCA
43844637 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
43844665 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
43844693 CGAAATTACCCTTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
43844721 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
43844734 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.05
27 7 0.11
28 53 0.84
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.22
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:43849209 original size:43 final size:43
Alignment explanation
Indices: 43849148--43849358 Score: 286
Period size: 43 Copynumber: 4.9 Consensus size: 43
43849138 GGGGTGTTAC
*
43849148 ATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCGAT
1 ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
43849191 ATGTGATTACGTGTAAGACC-CTGTCTAGGATAG-TGGCATCGAT
1 ATGTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT
* *
43849234 ATGTGATTATGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
1 ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
*
43849277 ATGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGTATCGAT
1 ATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* *
43849320 ATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
43849359 TGTACGATAT
Statistics
Matches: 148, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
42 4 0.03
43 140 0.95
44 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:43849293 original size:86 final size:86
Alignment explanation
Indices: 43849148--43849358 Score: 350
Period size: 86 Copynumber: 2.5 Consensus size: 86
43849138 GGGGTGTTAC
*
43849148 ATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCCT
1 ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCCT
*
43849213 GTCTAGGATAGTGGCATCGAT
66 GTCTAGGACAGTGGCATCGAT
* *
43849234 ATGTGATTATGTGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCCT
1 ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCCT
* *
43849299 GTCTGGGACAGTGGTATCGAT
66 GTCTAGGACAGTGGCATCGAT
* *
43849320 ATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
43849359 TGTACGATAT
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 115 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (86 bp):
ATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCCT
GTCTAGGACAGTGGCATCGAT
Found at i:43852959 original size:50 final size:49
Alignment explanation
Indices: 43852844--43853032 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
43852834 TGAGGTCGCA
* * * * *
43852844 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
43852895 TGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
43852945 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * *
43852994 TGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
43853033 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 41 0.35
50 44 0.38
51 32 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:43856255 original size:79 final size:81
Alignment explanation
Indices: 43856154--43856338 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43856144 ACGACTCGCT
** * *
43856154 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
43856217 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
43856234 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
43856298 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
43856314 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43856339 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:43856338 original size:40 final size:39
Alignment explanation
Indices: 43856147--43856338 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
43856137 GGATATAACG
* ** * *
43856147 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43856187 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
43856227 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43856266 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
43856306 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
43856339 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:43864293 original size:79 final size:81
Alignment explanation
Indices: 43864192--43864376 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43864182 ACGACTCGCT
** * *
43864192 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
43864255 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
43864272 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
43864336 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
43864352 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43864377 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:43864376 original size:40 final size:39
Alignment explanation
Indices: 43864185--43864376 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
43864175 GGATATAACG
* ** * *
43864185 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43864225 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
43864265 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43864304 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
43864344 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
43864377 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:43875107 original size:79 final size:81
Alignment explanation
Indices: 43875006--43875190 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43874996 ACGACTCGCT
** * *
43875006 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
43875069 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
43875086 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
43875150 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
43875166 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43875191 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:43875190 original size:40 final size:39
Alignment explanation
Indices: 43874999--43875190 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
43874989 GGATATAACG
* ** * *
43874999 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43875039 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
43875079 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43875118 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
43875158 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
43875191 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:43925254 original size:40 final size:40
Alignment explanation
Indices: 43925146--43925315 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
43925136 CGGGATTTAA
* * * * *
43925146 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
43925186 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43925226 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43925266 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43925306 CCGGATATAT
1 CCGGATATAT
43925316 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:43933264 original size:40 final size:39
Alignment explanation
Indices: 43933169--43933296 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
43933159 TGCTGGAAAT
* * * *
43933169 TATATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
* *
43933208 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
43933248 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
43933288 TATATCCGG
1 TATATCCGG
43933297 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.35
40 48 0.62
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:43940307 original size:206 final size:206
Alignment explanation
Indices: 43939948--43940533 Score: 904
Period size: 206 Copynumber: 2.8 Consensus size: 206
43939938 TAGGCCGCAG
* * * *
43939948 CATAGCAGATCTGGCCTTCAGATGTTTATACGGAAGCAAGATCCAAGATGGTTCGGCATCCTTGT
1 CATAGCAAATCTGGCCTTCAGATGTTTATACTGAAG-TAGATCCAAGATGGTTTGGCATCCTTGT
* *
43940013 GCTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGATGAAGCAAGTC
65 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAGTC
* * *
43940078 TACGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAT
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
43940143 GGAGAGCAGACA
195 GGAGAGCAGACA
*
43940155 CATAGCAAATCTGGCCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAAATCTGGCCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTG
* * *
43940220 TTTACAATGAACAAATCGAAGACATAGCTGATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAGTCT
* *
43940285 AAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACG
* *
43940350 GAGGGTAGACA
196 GAGAGCAGACA
** * * *
43940361 CATAGCAAATCTAACCTTCAGATGATTAGACTGAAGTAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAAATCTGGCCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTG
* * * *
43940426 CTTATAAGGAGA-AAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATC
66 CTTACAAGGA-ACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAGTC
*
43940490 TAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAG
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
43940534 AAGCAGATTT
Statistics
Matches: 345, Mismatches: 33, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
206 310 0.90
207 35 0.10
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (206 bp):
CATAGCAAATCTGGCCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTG
CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAGTCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACG
GAGAGCAGACA
Found at i:43942285 original size:26 final size:26
Alignment explanation
Indices: 43942256--43942345 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 26
43942246 CCTTTATCCC
*
43942256 TTTTAAGATTATTTATA-ACTTA-TTTA
1 TTTTAA-ATTATATATATA-TTATTTTA
*
43942282 TTTTAAATTGTATATATATTATTTTA
1 TTTTAAATTATATATATATTATTTTA
*
43942308 TTTT-AA-TATAAATATATGTATTATATA
1 TTTTAAATTATATATATAT-TATT-T-TA
*
43942335 TTTTATATTAT
1 TTTTAAATTAT
43942346 TATTTACTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
24 9 0.17
25 17 0.33
26 16 0.31
27 6 0.12
28 1 0.02
29 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTTAAATTATATATATATTATTTTA
Found at i:43942361 original size:23 final size:24
Alignment explanation
Indices: 43942296--43942413 Score: 89
Period size: 26 Copynumber: 4.8 Consensus size: 24
43942286 AAATTGTATA
* * *
43942296 TATATTA-TTTTATTTTAATATAAA
1 TATATTACTTATATTTT-ATATTAT
*
43942320 TATATGTATTATATATTTTATATTAT
1 TATAT-TACT-TATATTTTATATTAT
43942346 TAT-TTACTTATATTTTAT-TATAT
1 TATATTACTTATATTTTATAT-TAT
*
43942369 TATATTACTTCATATTTTTCTATTAT
1 TATATTACTT-ATA-TTTTATATTAT
* *
43942395 CATATTAATATATATTTTA
1 TATATTACT-TATATTTTA
43942414 GCATATATCA
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.01
23 16 0.21
24 14 0.18
25 10 0.13
26 27 0.35
27 9 0.12
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (24 bp):
TATATTACTTATATTTTATATTAT
Found at i:43942371 original size:8 final size:8
Alignment explanation
Indices: 43942296--43942500 Score: 78
Period size: 8 Copynumber: 26.1 Consensus size: 8
43942286 AAATTGTATA
43942296 TATATTAT
1 TATATTAT
*
43942304 TTTATT-T
1 TATATTAT
* *
43942311 TAATATAAA
1 T-ATATTAT
43942320 TATATGTAT
1 TATAT-TAT
*
43942329 TATATATTT
1 TATAT-TAT
43942338 TATATTAT
1 TATATTAT
43942346 TAT-TTACT
1 TATATTA-T
43942354 TATATT-T
1 TATATTAT
43942361 TAT-TATAT
1 TATAT-TAT
43942369 TATATTACT
1 TATATTA-T
*
43942378 TCATATTTT
1 T-ATATTAT
*
43942387 TCTATTAT
1 TATATTAT
* *
43942395 CATATTAA
1 TATATTAT
43942403 TATA-TAT
1 TATATTAT
* **
43942410 TTTAGCA-
1 TATATTAT
*
43942417 TATATCAT
1 TATATTAT
*
43942425 TA-CTTAT
1 TATATTAT
43942432 TAT-TTAT
1 TATATTAT
43942439 TATATTA-
1 TATATTAT
43942446 TAT-TT-T
1 TATATTAT
*
43942452 TATCA-CAT
1 TAT-ATTAT
*
43942460 AATATT-T
1 TATATTAT
43942467 ATATATT-T
1 -TATATTAT
*
43942475 ATATATTTT
1 -TATATTAT
43942484 TATATTAT
1 TATATTAT
43942492 TATATTAT
1 TATATTAT
43942500 T
1 T
43942501 TTACATTTTA
Statistics
Matches: 148, Mismatches: 28, Indels: 42
0.68 0.13 0.19
Matches are distributed among these distances:
6 6 0.04
7 37 0.25
8 78 0.53
9 22 0.15
10 5 0.03
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:43942375 original size:5 final size:5
Alignment explanation
Indices: 43942326--43942375 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
43942316 TAAATATATG
* *
43942326 TATTA TA-TA TTTTA TATTA TTATT- TACTTA TATTT TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA -TATTA TA-TTA TATTA TATTA TATTA TATTA
43942376 CTTCATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 5 0.14
5 26 0.70
6 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (5 bp):
TATTA
Found at i:43942487 original size:18 final size:19
Alignment explanation
Indices: 43942431--43942502 Score: 57
Period size: 18 Copynumber: 4.1 Consensus size: 19
43942421 TCATTACTTA
43942431 TTAT-TTATTATATTATATT
1 TTATATTATTATATTAT-TT
* * *
43942450 TT-TATCA-CATAATATTT
1 TTATATTATTATATTATTT
*
43942467 ATATA-T-TTATA-TATTT
1 TTATATTATTATATTATTT
43942483 TTATATTATTATATTATTT
1 TTATATTATTATATTATTT
43942502 T
1 T
43942503 ACATTTTAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
16 9 0.22
17 7 0.17
18 14 0.35
19 10 0.25
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTATTATATTATTT
Found at i:43945122 original size:27 final size:27
Alignment explanation
Indices: 43945054--43945146 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
43945044 AATACTTCAG
*
43945054 TTTACAAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ** * *
43945081 CTTGTAAAATCACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
43945108 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
43945135 TTTACAAAATTA
1 TTTACAAAATTA
43945147 TTGAAATACC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:43945172 original size:27 final size:27
Alignment explanation
Indices: 43945142--43945264 Score: 176
Period size: 27 Copynumber: 4.6 Consensus size: 27
43945132 CGATTTACAA
* *
43945142 AATTATTGAAATACCTCTGTATGGTAG
1 AATTACTGAAATACCTCTGTAGGGTAG
*
43945169 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCTCTGTAGGGTAG
*
43945196 AATTACCGAAATACC-CTTGTAGGGTAG
1 AATTACTGAAATACCTC-TGTAGGGTAG
*
43945223 AAATACTGAAATACCTCTGTAGGGTAG
1 AATTACTGAAATACCTCTGTAGGGTAG
*
43945250 AATTACTGAGATACC
1 AATTACTGAAATACC
43945265 CTTGTGGGGT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCTCTGTAGGGTAG
Found at i:43945274 original size:27 final size:27
Alignment explanation
Indices: 43945142--43945280 Score: 174
Period size: 27 Copynumber: 5.1 Consensus size: 27
43945132 CGATTTACAA
* *
43945142 AATTATTGAAATA-CCTCTGTATGGTAG
1 AATTACTGAAATACCCT-TGTAGGGTAG
*
43945169 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
43945196 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
43945223 AAATACTGAAATA-CCTCTGTAGGGTAG
1 AATTACTGAAATACCCT-TGTAGGGTAG
* * *
43945250 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
43945277 AATT
1 AATT
43945281 TTTATTTTGC
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.03
27 90 0.92
28 5 0.05
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:43945827 original size:28 final size:27
Alignment explanation
Indices: 43945786--43945866 Score: 101
Period size: 28 Copynumber: 3.0 Consensus size: 27
43945776 TGGAGGAAGC
* *
43945786 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGATAGCTATGCCACAAATATCT
43945813 GTTTCTGATAGCTATGCCACAAATATCT
1 G-TTCTGATAGCTATGCCACAAATATCT
* * *
43945841 GTTCTGGTGGCTCTGCCAC-AATATCT
1 GTTCTGATAGCTATGCCACAAATATCT
43945867 ATATCTGGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.15
27 16 0.33
28 25 0.52
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
GTTCTGATAGCTATGCCACAAATATCT
Found at i:43945857 original size:27 final size:26
Alignment explanation
Indices: 43945786--43945900 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
43945776 TGGAGGAAGC
43945786 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
43945813 GTTTCTGATAGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
43945841 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
43945867 ATATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
43945894 GTTCTGG
1 GTTCTGG
43945901 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.17
27 39 0.51
28 25 0.32
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:43950891 original size:42 final size:43
Alignment explanation
Indices: 43950781--43950936 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 43
43950771 GGTTGTTACA
* * * * * *
43950781 GCCAGTGTCCCAGACGTGGTCTTACATGTAATCATATATCAAT
1 GCCAATGTCCCAAACATGGTCTTACACGAAATCATATATCGAT
* * * *
43950824 GCCACTGTCTCTAACAGGGTCTTACACGAAATCATATA-CGAT
1 GCCAATGTCCCAAACATGGTCTTACACGAAATCATATATCGAT
* * *
43950866 GCCAATGTCCCAAACATGGTGTTACACGTAAATCACAAATCGAT
1 GCCAATGTCCCAAACATGGTCTTACACG-AAATCATATATCGAT
* * *
43950910 GCCAACGT-CCAAGACGTGGCCTTACAC
1 GCCAATGTCCCAA-ACATGGTCTTACAC
43950937 AATAACACAC
Statistics
Matches: 90, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
42 26 0.29
43 42 0.47
44 22 0.24
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAAACATGGTCTTACACGAAATCATATATCGAT
Found at i:43950935 original size:44 final size:42
Alignment explanation
Indices: 43950844--43950936 Score: 98
Period size: 44 Copynumber: 2.2 Consensus size: 42
43950834 CTAACAGGGT
* * * *
43950844 CTTACACGAAATCATATACGATGCCAATGTCCCAAACATGGT
1 CTTACACGAAATCACAAACGATGCCAACGTCCCAAACATGGC
* *
43950886 GTTACACGTAAATCACAAATCGATGCCAACGT-CCAAGACGTGGC
1 CTTACACG-AAATCACAAA-CGATGCCAACGTCCCAA-ACATGGC
43950930 CTTACAC
1 CTTACAC
43950937 AATAACACAC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
42 7 0.17
43 12 0.29
44 22 0.54
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
CTTACACGAAATCACAAACGATGCCAACGTCCCAAACATGGC
Found at i:43952455 original size:20 final size:20
Alignment explanation
Indices: 43952365--43952455 Score: 51
Period size: 20 Copynumber: 4.5 Consensus size: 20
43952355 AAACATGCAA
* *
43952365 ACAGGGGCATCAAAGTGTAT
1 ACAGGGGCACCGAAGTGTAT
* *
43952385 ATAGGGGCACCGGAGTGTGA-
1 ACAGGGGCACCGAAGTGT-AT
* * * * *
43952405 ACATGGGCACAGTCA-TGCAA
1 ACAGGGGCACCG-AAGTGTAT
**
43952425 ACAGGAACACCGAAGTGTAT
1 ACAGGGGCACCGAAGTGTAT
43952445 ACAGGGGCACC
1 ACAGGGGCACC
43952456 TATTCATTTC
Statistics
Matches: 49, Mismatches: 18, Indels: 8
0.65 0.24 0.11
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.32, T:0.14
Consensus pattern (20 bp):
ACAGGGGCACCGAAGTGTAT
Found at i:43963983 original size:28 final size:34
Alignment explanation
Indices: 43963911--43963981 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
43963901 GTGTTGAAAG
43963911 TAAGTATAATTATGATGATTCAAATGTTCAATAT
1 TAAGTATAATTATGATGATTCAAATGTTCAATAT
43963945 TAAGTATAATTATGATGATTCAAATGTTCAATAT
1 TAAGTATAATTATGATGATTCAAATGTTCAATAT
43963979 TAA
1 TAA
43963982 TTCGACATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (34 bp):
TAAGTATAATTATGATGATTCAAATGTTCAATAT
Found at i:43970134 original size:39 final size:40
Alignment explanation
Indices: 43970034--43970218 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
43970024 TCGAATGATG
* * *
43970034 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
43970073 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
43970114 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
43970153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43970192 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43970219 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:43970240 original size:79 final size:79
Alignment explanation
Indices: 43970087--43970251 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
43970077 GGACTAAGAT
* * **
43970087 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43970152 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43970166 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
43970229 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43970245 CCGAAGG
1 CCGAAGG
43970252 TATGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43976861 original size:21 final size:21
Alignment explanation
Indices: 43976821--43976869 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
43976811 TTTCTAATTT
**
43976821 AATTTTTTTATAATTGTTTAA
1 AATTTTTTTATAATCATTTAA
43976842 AAGTTTTTTTATAA-CATTTAA
1 AA-TTTTTTTATAATCATTTAA
43976863 AATTTTT
1 AATTTTT
43976870 ATAGTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 9 0.36
22 11 0.44
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTTTTTTATAATCATTTAA
Found at i:43979679 original size:75 final size:75
Alignment explanation
Indices: 43979594--43980148 Score: 482
Period size: 75 Copynumber: 7.4 Consensus size: 75
43979584 TAGTATTGGA
* * * *
43979594 CACACCATTATATTTGTCGGTTTATATGACTAGCGCTTGGCACAACTTTCATCACTTTATCTGAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
*
43979659 TAGTGTTGGG
66 TAGTGCTGGG
* * * * *
43979669 TACACTATTATAGTTT-TTGGTTTATCTGACTAGTG-TTGGACACAACTTTCATCAATTTATCTT
1 CACACCATTATA-TTTGTCGGTTTATCTGACTAGCGCTAGG-CACAACTTTCATCAATTTATCTT
* *
43979732 ACTAATGCTAGG
64 ACTAGTGCTGGG
* * * *
43979744 CACACCATTATATTTTTCGGTTTATCTGACAAGTGCTAGTCACAACTTTCATCAATTTATCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
*
43979809 TAGTG-TTGG
66 TAGTGCTGGG
* * ** * * * **
43979818 CAACATCATTATATTTGTCAGTTTATCCAACTAGCACTGGGTGCA-AACCTTT-GTTGATTTAT-
1 C-ACACCATTATATTTGTCGGTTTATCTGACTAGCGCT-AG-GCACAA-CTTTCATCAATTTATC
*
43979880 TCAACTAGTGCTGGG
62 T-TACTAGTGCTGGG
* * * * *
43979895 CACACCATTATATTTGTTGGTTTATAC-AACTAGCGCTTGGCGCAACTTTCATCACTTTAT-TTG
1 CACACCATTATATTTGTCGGTTTAT-CTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTT-
*
43979958 ACTAGTGCTAGG
64 ACTAGTGCTGGG
* * * * * **
43979970 CACACCATTGTAGTTT-TTGGTTTATCTGACTAGTGCCAAGTGCAACTTTCATCAATTTATCTTA
1 CACACCATTATA-TTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTA
**
43980034 CTAGCACTGGG
65 CTAGTGCTGGG
* * ** *
43980045 CACACCATTATATTTGTCGGTTTATCTGACTATCACTAGGCGTAACTTTCATCAGTTTATCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
*
43980110 TAGTGCT-AG
66 TAGTGCTGGG
* * *
43980119 CAACATCATTATATCTGTTGGTTTATCTGA
1 C-ACACCATTATATTTGTCGGTTTATCTGA
43980149 TTAGTGCGGG
Statistics
Matches: 389, Mismatches: 72, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
74 23 0.06
75 298 0.77
76 57 0.15
77 11 0.03
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (75 bp):
CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
TAGTGCTGGG
Found at i:43980056 original size:226 final size:226
Alignment explanation
Indices: 43979657--43980070 Score: 563
Period size: 226 Copynumber: 1.8 Consensus size: 226
43979647 ACTTTATCTG
* * * * *
43979657 ACTAGTGTTGGGTACACTATTATAGTTTTTGGTTTATCTGACTAGTGTTGGACACAACTTTCATC
1 ACTAGTGCTGGGCACACCATTATAGTTTTTGGTTTATCTAACTAGCGTTGGACACAACTTTCATC
*
43979722 AATTTATCTTACTAATGCTAGGCACACCATTATATTTTTCGGTTTATCTGACAAGTGCTAGTCAC
66 AATTTATCTTACTAATGCTAGGCACACCATTATATTTTTCGGTTTATCTGACAAGTGCAAGTCAC
** * *
43979787 AACTTTCATCAATTTATCTTACTAGTGTTGGCAACATCATTATATTTGTCAGTTTATCCAACTAG
131 AACTTTCATCAATTTATCTTACTAGACTGGGCAACACCATTATATTTGTCAGTTTATCCAACTAG
43979852 CACTGGGTGCAAACCTTTGTTGATTTATTCA
196 CACTGGGTGCAAACCTTTGTTGATTTATTCA
*
43979883 ACTAGTGCTGGGCACACCATTATA-TTTGTTGGTTTATAC-AACTAGCGCTTGG-CGCAACTTTC
1 ACTAGTGCTGGGCACACCATTATAGTTT-TTGGTTTAT-CTAACTAGCG-TTGGACACAACTTTC
* * * *
43979945 ATCACTTTAT-TTGACTAGTGCTAGGCACACCATTGTAGTTTTT-GGTTTATCTGACTAGTGCCA
63 ATCAATTTATCTT-ACTAATGCTAGGCACACCATTATA-TTTTTCGGTTTATCTGACAAGTG-CA
* *
43980008 AGT-GCAACTTTCATCAATTTATCTTACTAGCACTGGGC-ACACCATTATATTTGTCGGTTTATC
125 AGTCACAACTTTCATCAATTTATCTTACTAG-ACTGGGCAACACCATTATATTTGTCAGTTTATC
43980071 TGACTATCAC
Statistics
Matches: 164, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
225 5 0.03
226 141 0.86
227 18 0.11
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (226 bp):
ACTAGTGCTGGGCACACCATTATAGTTTTTGGTTTATCTAACTAGCGTTGGACACAACTTTCATC
AATTTATCTTACTAATGCTAGGCACACCATTATATTTTTCGGTTTATCTGACAAGTGCAAGTCAC
AACTTTCATCAATTTATCTTACTAGACTGGGCAACACCATTATATTTGTCAGTTTATCCAACTAG
CACTGGGTGCAAACCTTTGTTGATTTATTCA
Found at i:43980106 original size:301 final size:301
Alignment explanation
Indices: 43979562--43980132 Score: 822
Period size: 301 Copynumber: 1.9 Consensus size: 301
43979552 CTGGGCACCC
* * **
43979562 AACCTTTGTTGATTTATTTAACTAGTATTGGACACACCATTATATTTGTCGGTTTATATGACTAG
1 AACCTTTGTTGATTTATTCAACTAGTACTGGACACACCATTATATTTGTCGGTTTATACAACTAG
* * * *
43979627 CGCTTGGCACAACTTTCATCACTTTATCTGACTAGTGTTGGGTACACTATTATAGTTTTTGGTTT
66 CGCTTGGCACAACTTTCATCACTTTATCTGACTAGTGCTAGGCACACCATTATAGTTTTTGGTTT
*** **
43979692 ATCTGACTAGTGTTGGACACAACTTTCATCAATTTATCTTACTAATGCTAGGCACACCATTATAT
131 ATCTGACTAGTGCAAGACACAACTTTCATCAATTTATCTTACTAACACTAGGCACACCATTATAT
* * * * *
43979757 TTTTCGGTTTATCTGACAAGTGCTAGTCACAACTTTCATCAATTTATCTTACTAGTGTTGGCAAC
196 TTGTCGGTTTATCTGACAAGTACTAGGCACAACTTTCATCAATTTATCTTACTAGTGCTAGCAAC
43979822 ATCATTATATTTGTCAGTTTATCCAACTAGCACTGGGTGCA
261 ATCATTATATTTGTCAGTTTATCCAACTAGCACTGGGTGCA
* * *
43979863 AACCTTTGTTGATTTATTCAACTAGTGCTGGGCACACCATTATATTTGTTGGTTTATACAACTAG
1 AACCTTTGTTGATTTATTCAACTAGTACTGGACACACCATTATATTTGTCGGTTTATACAACTAG
* * *
43979928 CGCTTGGCGCAACTTTCATCACTTTATTTGACTAGTGCTAGGCACACCATTGTAGTTTTTGGTTT
66 CGCTTGGCACAACTTTCATCACTTTATCTGACTAGTGCTAGGCACACCATTATAGTTTTTGGTTT
** * *
43979993 ATCTGACTAGTGCCAAG-TGCAACTTTCATCAATTTATCTTACTAGCACTGGGCACACCATTATA
131 ATCTGACTAGTG-CAAGACACAACTTTCATCAATTTATCTTACTAACACTAGGCACACCATTATA
* ** *
43980057 TTTGTCGGTTTATCTGACTA-TCACTAGGCGTAACTTTCATCAGTTTATCTTACTAGTGCTAGCA
195 TTTGTCGGTTTATCTGACAAGT-ACTAGGCACAACTTTCATCAATTTATCTTACTAGTGCTAGCA
43980121 ACATCATTATAT
259 ACATCATTATAT
43980133 CTGTTGGTTT
Statistics
Matches: 236, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
300 1 0.00
301 234 0.99
302 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (301 bp):
AACCTTTGTTGATTTATTCAACTAGTACTGGACACACCATTATATTTGTCGGTTTATACAACTAG
CGCTTGGCACAACTTTCATCACTTTATCTGACTAGTGCTAGGCACACCATTATAGTTTTTGGTTT
ATCTGACTAGTGCAAGACACAACTTTCATCAATTTATCTTACTAACACTAGGCACACCATTATAT
TTGTCGGTTTATCTGACAAGTACTAGGCACAACTTTCATCAATTTATCTTACTAGTGCTAGCAAC
ATCATTATATTTGTCAGTTTATCCAACTAGCACTGGGTGCA
Found at i:43980155 original size:150 final size:150
Alignment explanation
Indices: 43979594--43980155 Score: 546
Period size: 150 Copynumber: 3.7 Consensus size: 150
43979584 TAGTATTGGA
* * *
43979594 CACACCATTATATTTGTCGGTTTATATGACTAGCGCTTGGCACAACTTTCATCACTTTATCTGAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
* * ** * * **
43979659 TAGTGTTGGGTACA-CTATTATAGTTTTTGGTTTATCTGACTAGTG-TTGGACACAACTTTCATC
66 TAGTGCTAGCAACATC-ATTATAGTTGTTGGTTTATCTGACTAGTGCTAGG-TGCAACTTTCATC
* *
43979722 AATTTATCTTACTAATGCTAGG
129 AATTTATCTTACTAGTGCTGGG
* * * * *
43979744 CACACCATTATATTTTTCGGTTTATCTGACAAGTGCTAGTCACAACTTTCATCAATTTATCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
* * * ** ** ** * * *
43979809 TAGTGTTGGCAACATCATTATATTTGTCAGTTTATCCAACTAGCACTGGGTGCAAACCTTT-GTT
66 TAGTGCTAGCAACATCATTATAGTTGTTGGTTTATCTGACTAGTGCTAGGTGC-AA-CTTTCATC
* *
43979873 GATTTAT-TCAACTAGTGCTGGG
129 AATTTATCT-TACTAGTGCTGGG
* * * *
43979895 CACACCATTATATTTGTTGGTTTATAC-AACTAGCGCTTGGCGCAACTTTCATCACTTTAT-TTG
1 CACACCATTATATTTGTCGGTTTAT-CTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTT-
* * * * *
43979958 ACTAGTGCTAGGC-ACACCATTGTAGTTTTTGGTTTATCTGACTAGTGCCAAGTGCAACTTTCAT
64 ACTAGTGCTA-GCAACATCATTATAGTTGTTGGTTTATCTGACTAGTGCTAGGTGCAACTTTCAT
**
43980022 CAATTTATCTTACTAGCACTGGG
128 CAATTTATCTTACTAGTGCTGGG
* * ** *
43980045 CACACCATTATATTTGTCGGTTTATCTGACTATCACTAGGCGTAACTTTCATCAGTTTATCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
*
43980110 TAGTGCTAGCAACATCATTATA-TCTGTTGGTTTATCTGATTAGTGC
66 TAGTGCTAGCAACATCATTATAGT-TGTTGGTTTATCTGACTAGTGC
43980156 GGGGCACAAA
Statistics
Matches: 330, Mismatches: 68, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
149 8 0.02
150 203 0.62
151 112 0.34
152 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (150 bp):
CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
TAGTGCTAGCAACATCATTATAGTTGTTGGTTTATCTGACTAGTGCTAGGTGCAACTTTCATCAA
TTTATCTTACTAGTGCTGGG
Found at i:43982884 original size:40 final size:40
Alignment explanation
Indices: 43982825--43983032 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
43982815 CAATTGAATG
* * * *
43982825 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
43982865 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43982905 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43982945 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
43982985 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
43983025 ATATCCGG
1 ATATCCGG
43983033 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:43982963 original size:80 final size:80
Alignment explanation
Indices: 43982826--43983032 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
43982816 AATTGAATGA
* * ** * * *
43982826 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
43982891 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
43982904 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
43982969 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
43982986 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
43983033 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:43994078 original size:40 final size:40
Alignment explanation
Indices: 43993952--43994155 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
43993942 CAATTGAATG
* * ** * **
43993952 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
43993992 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
*
43994032 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
43994072 AAATCCGGGCT---ATCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
43994109 CTATCCGGGCTAA-ACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
43994148 ATATCCGG
1 ATATCCGG
43994156 TTGTATTCCG
Statistics
Matches: 136, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
37 32 0.24
39 32 0.24
40 67 0.49
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:43994168 original size:39 final size:37
Alignment explanation
Indices: 43994048--43994155 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
43994038 GGGCTAAGAC
* *
43994048 CCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAT
1 CCGAAGGCATTCGTGCAAGTCGTTATATCCGGGCTAT
* * *
43994085 CCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAAC
1 CCGAAGGCATTCGTGCAAGTCGTTATATCCGGGCT--AT
* *
43994124 CCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 CCGAAGGCATTCGTGCAAGTCGTTATATCCGG
43994156 TTGTATTCCG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
37 31 0.52
39 29 0.48
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (37 bp):
CCGAAGGCATTCGTGCAAGTCGTTATATCCGGGCTAT
Found at i:44002066 original size:80 final size:80
Alignment explanation
Indices: 44001929--44002119 Score: 224
Period size: 80 Copynumber: 2.4 Consensus size: 80
44001919 AATTGAATGA
* * ** * * *
44001929 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAA
*
44001994 TTGAGCTAGT-G-AC
66 TTGAGCAAGTCGTAC
** *
44002007 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGC
* * *
44002072 ATTTGTGCAAGTCGTTC
64 AATTGAGCAAGTCGTAC
44002089 TATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGC
44002120 ATGTGGTTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 91 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTAATTAAATCCGGGCTAAGACCCGAAGGCAA
TTGAGCAAGTCGTAC
Found at i:44002120 original size:40 final size:39
Alignment explanation
Indices: 44001928--44002135 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
44001918 CAATTGAATG
* * ** * *
44001928 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * *
44001968 ATATCCGGGTTAAGACCCGAAGGCAATT-GAGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
* *
44002008 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
44002048 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
44002088 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
44002128 ATATCCGG
1 ATATCCGG
44002136 TCGTATTCCG
Statistics
Matches: 140, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:44003890 original size:20 final size:20
Alignment explanation
Indices: 44003865--44003916 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
44003855 AAACAGGGTC
44003865 ACACGCCCGTGTGGCTCGAG
1 ACACGCCCGTGTGGCTCGAG
44003885 ACACGCCCGTGTGGCTCGAG
1 ACACGCCCGTGTGGCTCGAG
44003905 ACACGCCCGTGT
1 ACACGCCCGTGT
44003917 CCTCAACCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTCGAG
Found at i:44008881 original size:29 final size:29
Alignment explanation
Indices: 44008839--44008896 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
44008829 AGTGTAAGGC
44008839 CGTGTAGAGCATACTAACTTAATTTCAAA
1 CGTGTAGAGCATACTAACTTAATTTCAAA
44008868 CGTGTAGAGCATACTAACTTAATTTCAAA
1 CGTGTAGAGCATACTAACTTAATTTCAAA
44008897 ATCAATACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
CGTGTAGAGCATACTAACTTAATTTCAAA
Found at i:44011541 original size:37 final size:37
Alignment explanation
Indices: 44011453--44011550 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 37
44011443 TATCACAGTG
* *
44011453 ACATACTTAACATGCAAATCAGAATATCAGAAATATG
1 ACATACTTAACATGCAAATAAGAATATCAGAAATATA
* **
44011490 GCATGGTTAACATGCAAATAAGAATATCAG-AATAGTA
1 ACATACTTAACATGCAAATAAGAATATCAGAAATA-TA
* * * *
44011527 ACATATTTATCATGCCAATTAGAA
1 ACATACTTAACATGCAAATAAGAA
44011551 CATCGATAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 4 0.08
37 45 0.92
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (37 bp):
ACATACTTAACATGCAAATAAGAATATCAGAAATATA
Found at i:44013814 original size:39 final size:39
Alignment explanation
Indices: 44013771--44013904 Score: 160
Period size: 39 Copynumber: 3.4 Consensus size: 39
44013761 TGGACATATG
* *
44013771 TCCAGCACGTAGCCTGTAGACCTTAAGTCCGGTTATAAT
1 TCCAGCACATAGCCTGTAGACCTTAAGTCCGGGTATAAT
*
44013810 TCCAGCACATAGCCTGTGGACCTTAAGTCCGGGTATAAT
1 TCCAGCACATAGCCTGTAGACCTTAAGTCCGGGTATAAT
* ** * * * *
44013849 TCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATATAAT
1 TCCAGCACATAGCCTG-TAGACCTTAAGTCCGGGTATAAT
*
44013889 TCCAGCATATAGCCTG
1 TCCAGCACATAGCCTG
44013905 CGGGTCTTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 51 0.60
40 34 0.40
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
TCCAGCACATAGCCTGTAGACCTTAAGTCCGGGTATAAT
Found at i:44013887 original size:40 final size:40
Alignment explanation
Indices: 44013793--44013924 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
44013783 CCTGTAGACC
* * * * * *
44013793 TTAAGTCCGGTTATAATTCCAGCACATAGCCTG-TGGACC
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
* *
44013832 TTAAGTCCGGGTATAATTCCAGCATATAGCCTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
44013872 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
44013912 TTAAGCCCGGATA
1 TTAAGCCCGGATA
44013925 CACATCAAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 31 0.36
40 54 0.64
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
Found at i:44016016 original size:52 final size:52
Alignment explanation
Indices: 44015959--44016061 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
44015949 AGATTCTCAT
44015959 GATTTGGTTAACCGTTTTTGT-AAGGGTTAAGTGTTGGGGAGAATACGTAGGA
1 GATTTGGTTAACCGTTTTTGTGAA-GGTTAAGTGTTGGGGAGAATACGTAGGA
44016011 GATTTGGTTAACCGTTTTTGTGAAGGTTAAGTGTTGGGGAGAATACGTAGG
1 GATTTGGTTAACCGTTTTTGTGAAGGTTAAGTGTTGGGGAGAATACGTAGG
44016062 TTAGAACAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 48 0.96
53 2 0.04
ACGTcount: A:0.24, C:0.06, G:0.35, T:0.35
Consensus pattern (52 bp):
GATTTGGTTAACCGTTTTTGTGAAGGTTAAGTGTTGGGGAGAATACGTAGGA
Found at i:44022458 original size:2 final size:2
Alignment explanation
Indices: 44022451--44022483 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
44022441 ATGACTAACC
44022451 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44022484 TTTACCAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44023988 original size:56 final size:57
Alignment explanation
Indices: 44023909--44024039 Score: 194
Period size: 56 Copynumber: 2.3 Consensus size: 57
44023899 CAGATAGGGT
* * *
44023909 CTTACTTGCACACATAT-TACAGAATCACATATCGATGCCAACCTATTAAATGTGGC
1 CTTACTCGCACACATATATACAGAATCACATATCGATGCCAACATATTAAACGTGGC
* *
44023965 CTTACTCGCGCACATATAT-CAGAATCACATATCGATGCCAACATATTAAACGTGGT
1 CTTACTCGCACACATATATACAGAATCACATATCGATGCCAACATATTAAACGTGGC
*
44024021 CTTACTCGCACATATATAT
1 CTTACTCGCACACATATAT
44024040 TGTAATATCC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 66 0.99
57 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (57 bp):
CTTACTCGCACACATATATACAGAATCACATATCGATGCCAACATATTAAACGTGGC
Found at i:44025385 original size:46 final size:46
Alignment explanation
Indices: 44025335--44025503 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
44025325 TGAGCATCCA
44025335 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
44025381 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
44025428 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
44025474 AGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
44025504 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 55 0.54
47 29 0.29
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:44025487 original size:93 final size:93
Alignment explanation
Indices: 44025328--44025498 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
44025318 GGATGGTTGA
* * *
44025328 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
44025393 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
44025421 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
44025486 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44025499 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:44025765 original size:19 final size:20
Alignment explanation
Indices: 44025728--44025765 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44025718 ATAAGGTGGT
44025728 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44025748 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44025766 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44028432 original size:42 final size:43
Alignment explanation
Indices: 44028355--44028525 Score: 179
Period size: 42 Copynumber: 4.0 Consensus size: 43
44028345 ATCTCGTACA
* *
44028355 ATGCCAACGTCCCAGACGAGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGAGGTCTTACACGAAATCAAATATCG
44028398 ATGCC-ACTGTCCCAGAC-AGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACGAGGTCTTACACGAAATCAAATATCG
* * * * * *
44028439 ATGTCGATGTCCCAAAC-ATGGTCTTACACGTAAATCATATGTCG
1 ATGCCAACGTCCCAGACGA-GGTCTTACACG-AAATCAAATATCG
* * * *
44028483 ATGCCAACGTCTCAGACGTGGTCTTACACGAAAACACATATCG
1 ATGCCAACGTCCCAGACGAGGTCTTACACGAAATCAAATATCG
44028526 GATCCTATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 15 0.14
42 34 0.32
43 32 0.30
44 25 0.24
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGAAATCAAATATCG
Found at i:44033299 original size:43 final size:42
Alignment explanation
Indices: 44033188--44033333 Score: 120
Period size: 44 Copynumber: 3.4 Consensus size: 42
44033178 AATACCAACA
* *
44033188 TCCCAGACGTGGTC-T-TACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTATACAT-AAATCAAATA-CGATGCCA-TG
* * * * *
44033231 TCCCAAATAGGGTCTTACAC-GAAATCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTATACATAAATCAAATACGATGCC-ATG
*
44033273 TCCCAGACATGGTCTTATACATAAATCATAAGT-CGATGCCAATC
1 TCCCAGACATGGTCTTATACATAAATCA-AA-TACGATGCC-ATG
*
44033317 TCCCAGACGTGGTCTTA
1 TCCCAGACATGGTCTTA
44033334 CATGAAAACA
Statistics
Matches: 82, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 25 0.30
43 26 0.32
44 28 0.34
45 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTATACATAAATCAAATACGATGCCATG
Found at i:44035060 original size:11 final size:11
Alignment explanation
Indices: 44035046--44035088 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
44035036 AGTTAAAAAT
*
44035046 TATTTTATCAA
1 TATTTTATTAA
44035057 TATTTTACTTAGA
1 TATTTTA-TTA-A
44035070 TA-TTTATTAA
1 TATTTTATTAA
44035080 TATTTTATT
1 TATTTTATT
44035089 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 3 0.11
11 16 0.57
12 6 0.21
13 3 0.11
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:44035076 original size:23 final size:23
Alignment explanation
Indices: 44035049--44035092 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
44035039 TAAAAATTAT
44035049 TTTATCAATATTTTACTTAGATA
1 TTTATCAATATTTTACTTAGATA
* *
44035072 TTTATTAATATTTTATTTAGA
1 TTTATCAATATTTTACTTAGA
44035093 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTATCAATATTTTACTTAGATA
Found at i:44037581 original size:28 final size:30
Alignment explanation
Indices: 44037530--44037587 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
44037520 TAATGTTTTT
44037530 AAAATATATTTTAATTTATAA-TTTAACATA
1 AAAATATATTTTAA-TTATAATTTTAACATA
44037560 AAAATATATTATTAA-TA-AATTTTAACAT
1 AAAATATATT-TTAATTATAATTTTAACAT
44037588 TTTGTGATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 2 0.08
29 10 0.38
30 10 0.38
31 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
AAAATATATTTTAATTATAATTTTAACATA
Found at i:44038002 original size:31 final size:32
Alignment explanation
Indices: 44037960--44038045 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 32
44037950 TTTGAGTTTA
*
44037960 TTTCTGACTCATGAAGCCAGAATCC-TTTTCC
1 TTTCTGGCTCATGAAGCCAGAATCCTTTTTCC
44037991 TTTCTGGCTCATGAAGCCAGAA-CCTTTTTCC
1 TTTCTGGCTCATGAAGCCAGAATCCTTTTTCC
* *
44038022 TTTCTGGCTCATGAAACCAAAATC
1 TTTCTGGCTCATGAAGCCAGAATC
44038046 TTTGAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 2 0.04
31 47 0.94
32 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (32 bp):
TTTCTGGCTCATGAAGCCAGAATCCTTTTTCC
Found at i:44043522 original size:26 final size:26
Alignment explanation
Indices: 44043493--44043542 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
44043483 TCATATGTGA
*
44043493 TTTTACATATT-TATTATTTAATTATT
1 TTTTAAATATTATATT-TTTAATTATT
44043519 TTTTAAATATTATATTTTTAATTA
1 TTTTAAATATTATATTTTTAATTA
44043543 GAGTAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAAATATTATATTTTTAATTATT
Found at i:44043735 original size:4 final size:4
Alignment explanation
Indices: 44043726--44043757 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
44043716 TTCAAAATAA
44043726 TAAT TAAT TAAT TAAT TAAT TAAT ATAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT -TAAT TAA
44043758 CTTTAACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
TAAT
Found at i:44043827 original size:20 final size:20
Alignment explanation
Indices: 44043802--44043842 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
44043792 TTTTAATAAC
44043802 AAATAGTATATTACTTAAAA
1 AAATAGTATATTACTTAAAA
44043822 AAATAGTATATTACTTAAAA
1 AAATAGTATATTACTTAAAA
44043842 A
1 A
44043843 GTGTTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATAGTATATTACTTAAAA
Found at i:44045026 original size:15 final size:15
Alignment explanation
Indices: 44045006--44045036 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44044996 CGAAGGGTGT
44045006 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
44045021 AAAAAAAGAAAAGAA
1 AAAAAAAAAAAAGAA
44045036 A
1 A
44045037 TCGCAGTCCA
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:44048739 original size:40 final size:40
Alignment explanation
Indices: 44048695--44048834 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 40
44048685 TCTGTTCGAA
44048695 ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
1 ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
* * ** ** *
44048735 ATAGCTTCGGCTATATATATATAAATGGCACTTAGTGTGCGGTCCGAA
1 ATAGCTTCGGC------TA-A-AAGTGGCACTTGGTGTGCAATTTGAG
* *
44048783 ATAGCTTTGGCTAAAAGTGGCACTTGATGTGCAATTTGAG
1 ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
44048823 ATAGCTTCGGCT
1 ATAGCTTCGGCT
44048835 GATAGCTTCG
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
40 40 0.53
41 1 0.01
42 2 0.03
46 2 0.03
47 1 0.01
48 29 0.39
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (40 bp):
ATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAG
Found at i:44048818 original size:88 final size:88
Alignment explanation
Indices: 44048669--44048834 Score: 287
Period size: 88 Copynumber: 1.9 Consensus size: 88
44048659 TTATCAGCGA
* * * *
44048669 AAATGGCACTTAGTGTTCTGTTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGA
1 AAATGGCACTTAGTGTGCGGTCCGAAATAGCTTCGGCTAAAAGTGGCACTTGATGTGCAATTTGA
44048734 GATAGCTTCGGCTATATATATAT
66 GATAGCTTCGGCTATATATATAT
*
44048757 AAATGGCACTTAGTGTGCGGTCCGAAATAGCTTTGGCTAAAAGTGGCACTTGATGTGCAATTTGA
1 AAATGGCACTTAGTGTGCGGTCCGAAATAGCTTCGGCTAAAAGTGGCACTTGATGTGCAATTTGA
44048822 GATAGCTTCGGCT
66 GATAGCTTCGGCT
44048835 GATAGCTTCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (88 bp):
AAATGGCACTTAGTGTGCGGTCCGAAATAGCTTCGGCTAAAAGTGGCACTTGATGTGCAATTTGA
GATAGCTTCGGCTATATATATAT
Found at i:44048840 original size:13 final size:13
Alignment explanation
Indices: 44048822--44048847 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44048812 TGCAATTTGA
44048822 GATAGCTTCGGCT
1 GATAGCTTCGGCT
44048835 GATAGCTTCGGCT
1 GATAGCTTCGGCT
44048848 ATATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
GATAGCTTCGGCT
Found at i:44055851 original size:12 final size:13
Alignment explanation
Indices: 44055836--44055864 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44055826 ATAAATATGA
44055836 TTTTATATAATT-
1 TTTTATATAATTG
44055848 TTTTATATAATTG
1 TTTTATATAATTG
44055861 TTTT
1 TTTT
44055865 TTTTTTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTATATAATTG
Found at i:44056223 original size:33 final size:33
Alignment explanation
Indices: 44056180--44056242 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
44056170 TTAAAGATAT
*
44056180 AATTGTGATATATGTGACTCTCCAAAACAAGAA
1 AATTATGATATATGTGACTCTCCAAAACAAGAA
*
44056213 AATTATGATATATGTGGCTCTCCAAAACAA
1 AATTATGATATATGTGACTCTCCAAAACAA
44056243 TTTCTAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (33 bp):
AATTATGATATATGTGACTCTCCAAAACAAGAA
Found at i:44059516 original size:43 final size:43
Alignment explanation
Indices: 44059490--44059605 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
44059480 AGATACATAT
* *
44059490 CGATGCCACTGTCCCAGACAGGGTCTTACACGAAACCATAATA
1 CGATGCCAATGTCCCAAACAGGGTCTTACACGAAACCATAATA
* * *
44059533 CGATGCCAATGTCCCAAACATGGTCTTACACGCAATC-TCAATA
1 CGATGCCAATGTCCCAAACAGGGTCTTACACGAAACCAT-AATA
* * * * *
44059576 CAATGTCAATGTCCTAGACATGGTCTTACA
1 CGATGCCAATGTCCCAAACAGGGTCTTACA
44059606 TGTAATCACA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
CGATGCCAATGTCCCAAACAGGGTCTTACACGAAACCATAATA
Found at i:44082667 original size:54 final size:54
Alignment explanation
Indices: 44082585--44082695 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
44082575 CTTGTCCTCA
44082585 ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
1 ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
* **
44082639 ATCAAAATACATATGAATGCATGAATGGATGAATTTCTGCCCTTGCATATAACT
1 ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
44082693 ATC
1 ATC
44082696 TTTTACTGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (54 bp):
ATCAAAATACATATAAATGCATGAATGGACAAATTTCTGCCCTTGCATATAACT
Found at i:44082996 original size:6 final size:6
Alignment explanation
Indices: 44082987--44083018 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
44082977 ATTATTATTA
44082987 TTTTCT TTTTCT TTTTCT TTTT-T TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
44083019 ATAACATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:44083007 original size:11 final size:12
Alignment explanation
Indices: 44082987--44083018 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
44082977 ATTATTATTA
44082987 TTTTCTTTTTCT
1 TTTTCTTTTTCT
44082999 TTTTCTTTTT-T
1 TTTTCTTTTTCT
44083010 TTTTCTTTT
1 TTTTCTTTT
44083019 ATAACATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:44083013 original size:23 final size:24
Alignment explanation
Indices: 44082961--44083018 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
44082951 TTTGTACTTG
*
44082961 TTTTTTTC-TCTTCTTTATTATTA
1 TTTTTTTCTTTTTCTTTATTATTA
* * *
44082984 TTATTTTCTTTTTCTTT-TTCTTT
1 TTTTTTTCTTTTTCTTTATTATTA
44083007 TTTTTTTCTTTT
1 TTTTTTTCTTTT
44083019 ATAACATTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTCTTTTTCTTTATTATTA
Found at i:44086098 original size:27 final size:27
Alignment explanation
Indices: 44086060--44086153 Score: 161
Period size: 27 Copynumber: 3.4 Consensus size: 27
44086050 GAGGAAACGT
44086060 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
44086087 TCTGGTGGCTCTGCCAAAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
44086114 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTG-A
44086142 TCTGGTGGCTCT
1 TCTGGTGGCTCT
44086154 TGTAACACCC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 51 0.81
28 12 0.19
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:44086991 original size:43 final size:44
Alignment explanation
Indices: 44086924--44087025 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 44
44086914 TTTTCTCAAA
* *
44086924 TCACCGGCATT-TTGCCTGTTAGGCTCG-AGGCCCGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-AT-AGATC
44086966 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAG-ATC
44087011 TCACCGGCATTATAG
1 TCACCGGCATTATAG
44087026 TTTGCAAAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
42 13 0.25
43 16 0.30
44 9 0.17
45 15 0.28
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGATC
Done.