Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 24 of 32
Found at i:3389516 original size:49 final size:49
Alignment explanation
Indices: 3389447--3389978 Score: 503
Period size: 49 Copynumber: 10.8 Consensus size: 49
3389437 CACAAGCCCA
* ** *
3389447 ATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCG
* * * * *
3389496 ATATCGCTGGCCTTGAATCAGCACATTGGCACGTTCATCTTTAAGTCTG
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCG
* * * *
3389545 ATATCGCTGGCCTT-AATCAGCACATTGGCACCTTAACCATCTTTAAGTCTG
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTT---TATCTTTAAGTCCG
* * ** *
3389596 CTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCCA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT-AAGTCCG
* * * * *
3389646 ATGTCGTTGGCCTTGAATCAACACATTGGCACGTTTATCTTTAAGTCCA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCG
* * * ** * *
3389695 ATATCGTTGGCCTTAAATCATCATATTGGTACC-TTGCCTTTAAGACCA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCG
* * * * *
3389743 ATGTCGTTGACCTTGAATCAACACATTGGCACGTTCT-TCTTTAAGTCCG
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGTCCG
* * * * * *
3389792 ATATCGCTGGCCTTGAATCAGCATATTGGCCCCTTCATCTCTAAGACTG
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCG
* * * * *
3389841 ATGTTGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCTTTAAGTCCG
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTT---TATCTTTAAGTCCG
* * * *
3389893 ATATCGTTGGCCTTGAATCAGTATATTGGCATCTTCATCTTTAAGTCTG
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCG
* *
3389942 ATATCGTTGGCCTTGAATCAGCATATTAGCATCTTTA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTA
3389979 ACATTCCTTA
Statistics
Matches: 398, Mismatches: 74, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
48 57 0.14
49 215 0.54
50 40 0.10
51 27 0.07
52 59 0.15
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (49 bp):
ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCG
Found at i:3389784 original size:97 final size:96
Alignment explanation
Indices: 3389452--3389961 Score: 459
Period size: 97 Copynumber: 5.2 Consensus size: 96
3389442 GCCCAATATT
* * * ** *
3389452 GTTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAAACCAATATCGCTGGCCTTGAATCA
1 GTTGGCCTTGAATCAACACATTGGCACGTTCT-TCTTTAAGTCCGATATCGCTGGCCTTGAATCA
* * * ** *
3389516 GCACATTGGCACGTTCATCTTTAAGTCTGATATC
65 GCATATTGGCACCTTC--CTTTAAGACCAATGTC
* * * * * *
3389550 GCTGGCCTT-AATCAGCACATTGGCACCTTAACCATCTTTAAGTCTGCTATCGCTGGCCTTGAAT
1 GTTGGCCTTGAATCAACACATTGGCACGTT---CTTCTTTAAGTCCGATATCGCTGGCCTTGAAT
* *
3389614 CAGCATATTGGCACCTTTATCTTTAAAACCCAATGTC
63 CAGCATATTGGCACC-TT-CCTTTAAGA-CCAATGTC
* * *
3389651 GTTGGCCTTGAATCAACACATTGGCACGTT-TATCTTTAAGTCCAATATCGTTGGCCTTAAATCA
1 GTTGGCCTTGAATCAACACATTGGCACGTTCT-TCTTTAAGTCCGATATCGCTGGCCTTGAATCA
* *
3389715 TCATATTGGTACCTTGCCTTTAAGACCAATGTC
65 GCATATTGGCACCTT-CCTTTAAGACCAATGTC
*
3389748 GTTGACCTTGAATCAACACATTGGCACGTTCTTCTTTAAGTCCGATATCGCTGGCCTTGAATCAG
1 GTTGGCCTTGAATCAACACATTGGCACGTTCTTCTTTAAGTCCGATATCGCTGGCCTTGAATCAG
* * ** *
3389813 CATATTGGCCCCTTCATCTCTAAGACTGATGTT
66 CATATTGGCACCTTC--CTTTAAGACCAATGTC
* * * * *
3389846 GTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCTTTAAGTCCGATATCGTTGGCCTTGAAT
1 GTTGGCCTTGAATCAACACATTGGCACGTT---CTTCTTTAAGTCCGATATCGCTGGCCTTGAAT
* * * ** *
3389911 CAGTATATTGGCATCTTCATCTTTAAGTCTGATATC
63 CAGCATATTGGCACCTTC--CTTTAAGACCAATGTC
3389947 GTTGGCCTTGAATCA
1 GTTGGCCTTGAATCA
3389962 GCATATTAGC
Statistics
Matches: 343, Mismatches: 54, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
96 1 0.00
97 97 0.28
98 56 0.16
99 38 0.11
100 44 0.13
101 89 0.26
102 18 0.05
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (96 bp):
GTTGGCCTTGAATCAACACATTGGCACGTTCTTCTTTAAGTCCGATATCGCTGGCCTTGAATCAG
CATATTGGCACCTTCCTTTAAGACCAATGTC
Found at i:3389902 original size:247 final size:246
Alignment explanation
Indices: 3389444--3389978 Score: 655
Period size: 247 Copynumber: 2.2 Consensus size: 246
3389434 TGGCACAAGC
* * *
3389444 CCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATATCGCTGGCCT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAAACCAATATCGCTGACCT
* *
3389509 TGAATCAGCACATTGGCACGTTCATCTTTAAGTCTGATATCGCTGGCCTTAATCAGCACATTGGC
66 TGAATCAACACATTGGCACGTTCATCTTTAAGTCCGATATCGCTGGCCTTAATCAGCACATTGGC
* * * * * *
3389574 ACCTTAACCATCTTTAAGTCTGCTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTA
131 ACCTT-A-CATCTCTAAGACTGATATCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTA
* *
3389639 AAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-CGTTTATCTTTAAGT
194 AAACCCAATATCGTTGGCCTTGAATCAACACATTGGCATC-TTCATCTTTAAGT
* * * * * * *
3389692 CCAATATCGTTGGCCTTAAATCATCATATTGGTACC-TTGCCTTTAAGACCAATGTCGTTGACCT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAAACCAATATCGCTGACCT
* *
3389756 TGAATCAACACATTGGCACGTTCTTCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGG
66 TGAATCAACACATTGGCACGTTCATCTTTAAGTCCGATATCGCTGGCCTT-AATCAGCACATTGG
* * * *
3389821 CCCCTT-CATCTCTAAGACTGATGTTGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCTT
130 CACCTTACATCTCTAAGACTGATATCGCTGGCCTTGAATCAGCACATTAGCACCTT---CATCTT
** * ** *
3389885 T-AAGTCCGATATCGTTGGCCTTGAATCAGTATATTGGCATCTTCATCTTTAAGT
192 TAAAACCCAATATCGTTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGT
** * *
3389939 CTGATATCGTTGGCCTTGAATCAGCATATTAGCATCTTTA
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTA
3389979 ACATTCCTTA
Statistics
Matches: 241, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
245 41 0.17
247 141 0.59
248 59 0.24
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (246 bp):
CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAAACCAATATCGCTGACCT
TGAATCAACACATTGGCACGTTCATCTTTAAGTCCGATATCGCTGGCCTTAATCAGCACATTGGC
ACCTTACATCTCTAAGACTGATATCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAA
ACCCAATATCGTTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGT
Found at i:3389966 original size:150 final size:149
Alignment explanation
Indices: 3389447--3389964 Score: 594
Period size: 150 Copynumber: 3.5 Consensus size: 149
3389437 CACAAGCCCA
* * *
3389447 ATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCAATATCGCTGGCCTTGA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGA
*
3389512 ATCAGCACATTGGCACGTTCATCTTTAAGTCTGATATCGCTGGCCTTAATCAGCACATTGGCACC
66 ATCAGCACATTGGCACGTTCATCTTTAAGTCTGATATCGTTGGCCTTAATCAGCACATTGGCACC
*
3389577 TTAACCATCTTTAAGTCTG
131 TTAACCATCTTTAAGTCCG
* * * * * *
3389596 CTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAAACCCAATGTCGTTGGCCTTG
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT-AAATCCAATATCGCTGGCCTTG
* * ** * * *
3389661 AATCAACACATTGGCACGTTTATCTTTAAGTCCAATATCGTTGGCCTTAAATCATCATATTGGTA
65 AATCAGCACATTGGCACGTTCATCTTTAAGTCTGATATCGTTGGCCTT-AATCAGCACATTGGCA
* * *
3389726 CCTT--GC--CTTTAAGACCA
129 CCTTAACCATCTTTAAGTCCG
* * * * * * * *
3389743 ATGTCGTTGACCTTGAATCAACACATTGGCACGTTCTTCTTTAAGTCCGATATCGCTGGCCTTGA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGA
* * * * * * * *
3389808 ATCAGCATATTGGCCCCTTCATCTCTAAGACTGATGTTGTTGGCCTTGAATCAGCACATTAGCAC
66 ATCAGCACATTGGCACGTTCATCTTTAAGTCTGATATCGTTGGCCTT-AATCAGCACATTGGCAC
3389873 CTTAACCATCTTTAAGTCCG
130 CTTAACCATCTTTAAGTCCG
* * * ** *
3389893 ATATCGTTGGCCTTGAATCAGTATATTGGCATCTTCATCTTTAAGTCTGATATCGTTGGCCTTGA
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGA
3389958 ATCAGCA
66 ATCAGCA
3389965 TATTAGCATC
Statistics
Matches: 302, Mismatches: 61, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
146 70 0.23
147 41 0.14
148 1 0.00
149 40 0.13
150 133 0.44
151 17 0.06
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (149 bp):
ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGA
ATCAGCACATTGGCACGTTCATCTTTAAGTCTGATATCGTTGGCCTTAATCAGCACATTGGCACC
TTAACCATCTTTAAGTCCG
Found at i:3390005 original size:101 final size:101
Alignment explanation
Indices: 3389447--3390007 Score: 439
Period size: 101 Copynumber: 5.7 Consensus size: 101
3389437 CACAAGCCCA
* * * * * **
3389447 ATATTGTTGGCCTTGAATCAGCATATTGGCACCTT---TATCTTTAAAACCAATATCGCTGGCCT
1 ATATCGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCCTTAAGCCCAATATCGCTGGCCT
* * * *
3389509 TGAATCAGCACATTGGCACGTTCATCTTTAAGTCTG
66 TGAATCAGCATATTGGCACCTTCATCTCTAAGACTG
* * * * ***
3389545 ATATCGCTGGCCTT-AATCAGCACATTGGCACCTTAACCATCTTTAAGTCTGCTATCGCTGGCCT
1 ATATCGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCCTTAAGCCCAATATCGCTGGCCT
* * * **
3389609 TGAATCAGCATATTGGCACCTTTATCTTTAAAACCCA
66 TGAATCAGCATATTGGCACCTTCATCTCTAAGA-CTG
* * * * * * * *
3389646 ATGTCGTTGGCCTTGAATCAACACATTGGCACGTT---TATCTTTAAGTCCAATATCGTTGGCCT
1 ATATCGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCCTTAAGCCCAATATCGCTGGCCT
* * * * **
3389708 TAAATCATCATATTGGTACCTTGC--CTTTAAGACCA
66 TGAATCAGCATATTGGCACCTT-CATCTCTAAGACTG
* * * * * * * * *
3389743 ATGTCGTTGACCTTGAATCAACACATTGGCACGTT---CTTCTTTAAGTCCGATATCGCTGGCCT
1 ATATCGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCCTTAAGCCCAATATCGCTGGCCT
*
3389805 TGAATCAGCATATTGGCCCCTTCATCTCTAAGACTG
66 TGAATCAGCATATTGGCACCTTCATCTCTAAGACTG
* * * * * *
3389841 ATGTTGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCTTTAAGTCCGATATCGTTGGCCT
1 ATATCGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCCTTAAGCCCAATATCGCTGGCCT
* * * *
3389906 TGAATCAGTATATTGGCATCTTCATCTTTAAGTCTG
66 TGAATCAGCATATTGGCACCTTCATCTCTAAGACTG
* * * *
3389942 ATATCGTTGGCCTTGAATCAGCATATTAGCATCTTTAA-CATTCCTT-AGCCCAATGTTGCTGGC
1 ATATCGTTGGCCTTGAATCAGCACATTAGCA-CCTTAACCA-TCCTTAAGCCCAATATCGCTGGC
3390005 CTT
64 CTT
3390008 TCTCAACACA
Statistics
Matches: 386, Mismatches: 64, Indels: 23
0.82 0.14 0.05
Matches are distributed among these distances:
96 1 0.00
97 97 0.25
98 57 0.15
99 41 0.11
100 49 0.13
101 114 0.30
102 27 0.07
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (101 bp):
ATATCGTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCCTTAAGCCCAATATCGCTGGCCT
TGAATCAGCATATTGGCACCTTCATCTCTAAGACTG
Found at i:3394224 original size:13 final size:13
Alignment explanation
Indices: 3394206--3394231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3394196 ACAAAGATCC
3394206 ATGTATCGATACA
1 ATGTATCGATACA
3394219 ATGTATCGATACA
1 ATGTATCGATACA
3394232 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3394227 original size:33 final size:33
Alignment explanation
Indices: 3394185--3394251 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3394175 AAAATTTCCA
***
3394185 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3394218 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3394251 A
1 A
3394252 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3394295 original size:19 final size:18
Alignment explanation
Indices: 3394271--3394338 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
3394261 CAGTAGCTAA
3394271 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
3394290 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
*
3394305 -T-TGTATCAATACAAAAC
1 TTATGTATCGATAC-AAAC
3394322 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3394339 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:3394317 original size:32 final size:32
Alignment explanation
Indices: 3394274--3394336 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3394264 TAGCTAATTA
* *
3394274 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCAATACAAAACTTATGTATCGATACAT
3394306 TGTATCAATACAAAACTTATGTATCGATACA
1 TGTATCAATACAAAACTTATGTATCGATACA
3394337 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCAATACAAAACTTATGTATCGATACAT
Found at i:3394417 original size:21 final size:21
Alignment explanation
Indices: 3394393--3394450 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
3394383 ACATTTGTAG
*
3394393 AATGTTTCGATACATTCCACA
1 AATGTATCGATACATTCCACA
*
3394414 AATGTATCGATACATTCTACA
1 AATGTATCGATACATTCCACA
3394435 AATGTATCGATACATT
1 AATGTATCGATACATT
3394451 TGGATAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:3395197 original size:119 final size:116
Alignment explanation
Indices: 3394989--3395200 Score: 261
Period size: 119 Copynumber: 1.8 Consensus size: 116
3394979 GGGTGTCCAC
* * * *
3394989 TTTTCAAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAAGACCAAGGAAGAGAAGA
1 TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCCTGCTCCTTGAAGACAAAAGAAGAGAAGA
3395054 AAAGCAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
66 AAAGCAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
* *
3395105 TTTTCCAAGGACAAAGGAAAAAGGGGAATGAAATACGTCCTGCT-CTCTGAGGACAAAAGAA-AG
1 TTTT-CAAGGACAAAGG-AAAA-GAGAATGAAATACGTCCTGCTCCT-TGAAGACAAAAGAAGAG
* *
3395168 AGGAAAA-TAAAGTGTATCCTGC-TCTTTGAGGAC
62 AAGAAAAGCAAAGTG--TCCTGCTTC-TTGAGGAC
3395201 TAAAAAGTGC
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
116 4 0.05
117 18 0.22
118 16 0.20
119 43 0.53
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (116 bp):
TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCCTGCTCCTTGAAGACAAAAGAAGAGAAGA
AAAGCAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
Found at i:3395371 original size:27 final size:27
Alignment explanation
Indices: 3395231--3395371 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
3395221 TGTGGGCTGT
*
3395231 GAAAGGCGTCCTGCTCTTTGAGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
** * * * *
3395257 GAAAGGTG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
3395285 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
3395313 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
3395341 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
3395368 GAAA
1 GAAA
3395372 ATGCCACCAA
Statistics
Matches: 77, Mismatches: 28, Indels: 19
0.62 0.23 0.15
Matches are distributed among these distances:
25 6 0.08
26 15 0.19
27 17 0.22
28 20 0.26
29 13 0.17
30 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:3395668 original size:59 final size:59
Alignment explanation
Indices: 3395184--3395954 Score: 865
Period size: 55 Copynumber: 13.3 Consensus size: 59
3395174 ATAAAGTGTA
* * * *
3395184 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTGT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
3395239 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
3395294 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
3395349 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* ** *
3395404 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
3395459 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* **
3395520 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAA-GTA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAGGCG
* * *
3395580 TCCTGCTCTTTGAGGACTGAAGGTACCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
3395639 TCCTGCTCTTTGAGAATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
3395698 TCCTGCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
3395757 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
**
3395816 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** * *
3395876 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGGGGGCTTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAG-AAAAGGCG
*
3395938 TCCTGCTCTCTGAGGAC
1 TCCTGCTCTTTGAGGAC
3395955 AAAAAAGCGG
Statistics
Matches: 650, Mismatches: 48, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 243 0.37
56 1 0.00
57 1 0.00
58 4 0.01
59 184 0.28
60 158 0.24
61 34 0.05
62 23 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:3409794 original size:13 final size:13
Alignment explanation
Indices: 3409776--3409801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3409766 ACAAAGATCC
3409776 ATGTATCGATACA
1 ATGTATCGATACA
3409789 ATGTATCGATACA
1 ATGTATCGATACA
3409802 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3409797 original size:33 final size:33
Alignment explanation
Indices: 3409755--3409821 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3409745 AAAATTTCCA
***
3409755 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3409788 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3409821 A
1 A
3409822 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3409865 original size:19 final size:18
Alignment explanation
Indices: 3409841--3409908 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
3409831 CAGTAGCTAA
3409841 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
3409860 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
3409875 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
3409892 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3409909 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:3409881 original size:13 final size:13
Alignment explanation
Indices: 3409863--3409887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3409853 ACAATACTTA
3409863 TGTATCGATACAT
1 TGTATCGATACAT
3409876 TGTATCGATACA
1 TGTATCGATACA
3409888 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3409885 original size:32 final size:32
Alignment explanation
Indices: 3409844--3409906 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3409834 TAGCTAATTA
*
3409844 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3409876 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3409907 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3409970 original size:21 final size:21
Alignment explanation
Indices: 3409944--3410020 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
3409934 GTTGGGACCC
* *
3409944 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
* *
3409965 TGTATCAATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
*
3409986 TGTATAGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
3410007 TGTATCGATACATT
1 TGTATCGATACATT
3410021 TGGATAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:3413105 original size:158 final size:158
Alignment explanation
Indices: 3412815--3413118 Score: 389
Period size: 158 Copynumber: 1.9 Consensus size: 158
3412805 GATAGCAACG
** *
3412815 GGGTTAGAGTATCCCCGATTGTAGAAAATCGGTGTTTTAGAAATAAAATCGGGATTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTAGAAAATCAATGCTTTAGAAATAAAATCGGGATTGGAGTATCC
* * ** *
3412880 CCTCAGAAATAACAGGGTTGGAGTATCCCTGATTATAGAAAATTGACATTTTGAAAATAAAATCG
66 CCCCAGAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAACATTTTGAAAATAAAACCG
3412945 GGGTTGGAGTATCCCCTCGAAAATAACT
131 GGGTTGGAGTATCCCCTCGAAAATAACT
* * * ** * *
3412973 GGGTTGGAGTATCCCCGATTGTGGAAAATTAATGCTTTAGAAATAAGGTTGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTAGAAAATCAATGCTTTAGAAATAAAATCGGGATTGGAGTATCC
* * * *
3413038 CCGCCA-AAATAATAGGGTTGGAGTATCCCCGATTGTA-AGAAATCAATATTTT-AGAAATAAAG
66 CC-CCAGAAATAACAGGGTTGGAGTATCCCCGATTATAGA-AAATCAACATTTTGA-AAATAAAA
3413100 CCGGGGTTGGAGTATCCCC
128 CCGGGGTTGGAGTATCCCC
3413119 GAGATGAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
157 2 0.02
158 120 0.97
159 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (158 bp):
GGGTTAGAGTATCCCCGATTGTAGAAAATCAATGCTTTAGAAATAAAATCGGGATTGGAGTATCC
CCCCAGAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAACATTTTGAAAATAAAACCG
GGGTTGGAGTATCCCCTCGAAAATAACT
Found at i:3413119 original size:79 final size:79
Alignment explanation
Indices: 3412815--3413119 Score: 339
Period size: 79 Copynumber: 3.9 Consensus size: 79
3412805 GATAGCAACG
* ** * *
3412815 GGGTTAGAGTATCCCCGATTGTAGAAAATCGGTGTTTTAGAAATAAAATCGGGATTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
* *
3412880 CC-TCAGAAATAACA
66 CCGCCA-AAATAATA
* * ** *
3412894 GGGTTGGAGTATCCCTGATTATAGAAAATTGACATTTT-GAAAATAAAATCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAG-AAATAAAATCGGGGTTGGAGTATC
* *
3412958 CCCTCGAAAATAACT-
65 CCCGCCAAAATAA-TA
* * ** ** *
3412973 GGGTTGGAGTATCCCCGATTGTGGAAAATTAATGCTTTAGAAATAAGGTTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
3413038 CCGCCAAAATAATA
66 CCGCCAAAATAATA
**
3413052 GGGTTGGAGTATCCCCGATTGTA-AGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTAGA-AAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATC
3413116 CCCG
65 CCCG
3413120 AGATGAAAAA
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
78 3 0.02
79 185 0.97
80 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
CCGCCAAAATAATA
Found at i:3417812 original size:20 final size:20
Alignment explanation
Indices: 3417787--3417836 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
3417777 GTAAAAAGAC
3417787 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
3417807 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
3417827 AGAATGTATC
1 AGAATGTATC
3417837 AGCAACAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:3418296 original size:28 final size:28
Alignment explanation
Indices: 3418264--3419548 Score: 1507
Period size: 28 Copynumber: 45.0 Consensus size: 28
3418254 TGGAAAAGCA
*
3418264 TGCCACTGACTTGTGGGCTTTGAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3418292 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
*
3418321 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3418350 TGCCACTGACTTGTGGGCGTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3418378 TGCCACTGACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3418406 TGCCACTGACTTGCGTGGGCTTTGAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
** * * *
3418436 TATCACTGATTTGTGAGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3418464 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3418492 TGCCACTGACTAGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
** *
3418520 TGCCACTGACTCATGGGCTTTGAAAAAGG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
** *
3418549 TGCCACCAACTGGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3418577 TGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3418605 TGCTATTGACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3418633 TACCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3418662 TGCCACTGACTTGTGAGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3418690 TGCCACTGACTTGCGTGGGCATTAAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
* * * *
3418720 TACTATTGACTTGCGTGGGTTTTGAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
*
3418750 TGCCACTGACTTGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3418778 TGCCACTGACTTGTGGGC-TTGAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3418805 TGCCACTGACTCGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3418834 TGCTACTGACTTGTGGGCTTTAAAAAGAG
1 TGCCACTGACTTGTGGGCTTT-GAAAGGG
*
3418863 TGCCACTGACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3418891 TGCCACTGACTTACGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTT--GTGGGCTTTG-AAAG-GG
* * *
3418923 TACCACTGGCTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
3418952 TGCCACTGACTTGTGGGCTTTGAGAA-GG
1 TGCCACTGACTTGTGGGCTTTGA-AAGGG
* * *
3418980 TGCCACTAACTTGTGAGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
*
3419009 TGCCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3419037 TGCCACTGACTTGTGGGCTTTGAAAGTG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3419065 TGCCACTAACTGGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* **
3419093 TGCCACTTACTCATGGGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3419122 TGCCACTAACTGGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3419150 TGCCACTGACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3419178 TGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* **
3419206 TAG-TACTGACTCATGGGCTTTGAAAGGG
1 T-GCCACTGACTTGTGGGCTTTGAAAGGG
* *
3419234 TACCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3419263 TGCCACTCAGTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3419291 TGCCACTGACTTGCGTGGGCTTTAAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
*
3419321 TGACACTGACTTGCGTGGGCTTTGAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
* *
3419351 TGCCACTGACTTGTGGGTTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3419379 TGCCACTGACTTGTGGGC-TTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3419406 TGCCACTGACTCGTGGCCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3419435 TGCTACTGACTTGTGGGGTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3419464 TGCCACTGACTTATGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3419492 TGCCACTGGCTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
*
3419521 TGTCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3419549 ATGAACGTTC
Statistics
Matches: 1089, Mismatches: 142, Indels: 52
0.85 0.11 0.04
Matches are distributed among these distances:
27 48 0.04
28 562 0.52
29 314 0.29
30 150 0.14
31 4 0.00
32 11 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:3418621 original size:113 final size:112
Alignment explanation
Indices: 3418264--3419548 Score: 1493
Period size: 113 Copynumber: 11.2 Consensus size: 112
3418254 TGGAAAAGCA
* * *
3418264 TGCCACTGACTTGTGGGCTTTGAGAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTG
* * *
3418329 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGG
65 ACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * **
3418378 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGTATCACT
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGGTGCCACT
* * *
3418443 GATTTGTGAGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
64 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* ** **
3418492 TGCCACTGACTAGTGGGCTTTGAAAGGGTGCCACTGACTCATGGGCTTTGAAAAAGGTGCCACCA
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAAGGTGCCACTG
* * *
3418557 ACTGGTGGGCTTTGAAAGGGTGCCACTAACTCGTGGGCTTTGAAAGGG
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
3418605 TGCTATTGACTCGTGGGCTTTGAAAGGGTACCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTG
* * * *
3418670 ACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGGG
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGGG
* * * *
3418720 TACTATTGACTTGCGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCAC
1 TGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCAC
* * *
3418784 TGACTTGTGGGC-TTGAGAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAG
63 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGG
* * * *
3418834 TGCTACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACT
1 TGCCACTGACTCGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACT
* * * *
3418898 GACTTACGTGGGCTTTGAAAAGAGTTACCACTGGCTTGTGGGCTTTGAAAAGAG
64 GACTT--GTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3418952 TGCCACTGACTTGTGGGCTTTGAGAA-GGTGCCACTAACTTGTGAGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTCGTGGGCTTTGA-AAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
* *
3419016 GACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGTG
64 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * ** *
3419065 TGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTTACTCATGGGCTTTGAAAAGGGTGCCACTA
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTG
* * *
3419130 ACTGGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGG
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * ** * *
3419178 TGCCACTAACTCGTGGGCTTTGAAAGGGTAG-TACTGACTCATGGGCTTTGAAAGGGTACCACTG
1 TGCCACTGACTCGTGGGCTTTGAAAGGGT-GCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTG
* * * *
3419242 ACTTGTGGGCTTTGAAAAGAGTGCCACTCAGTTGTGGGCTTTAAAAGGG
65 ACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3419291 TGCCACTGACTTGCGTGGGCTTTAAAAGGGTGACACTGACTTGCGTGGGCTTTGAAAGGGTGCCA
1 TGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGGTGCCA
* *
3419356 CTGACTTGTGGGTTTTGAAAGAGTGCCACTGACTTGTGGGC-TTGAAAGGG
62 CTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
3419406 TGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTGACTTGTGGGGTTTGAAAAGAGTGCCACT
1 TGCCACTGACTCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
* * * *
3419471 GACTTATGGGCTTTAAAAGGGTGCCACTGGCTTGTGGGCTTTGAAAAGAG
64 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3419521 TGTCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTCGTGGGCTTTGAAAGGG
3419549 ATGAACGTTC
Statistics
Matches: 1015, Mismatches: 123, Indels: 66
0.84 0.10 0.05
Matches are distributed among these distances:
112 58 0.06
113 418 0.41
114 169 0.17
115 135 0.13
116 73 0.07
117 96 0.09
118 66 0.07
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (112 bp):
TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:3419353 original size:601 final size:598
Alignment explanation
Indices: 3418264--3419545 Score: 2054
Period size: 601 Copynumber: 2.1 Consensus size: 598
3418254 TGGAAAAGCA
* * * *
3418264 TGCCACTGACTTGTGGGCTTTGAGAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTCCACTG
* *
3418329 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTGACTTGTGG
66 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTAACTTGTGA
* * * *
3418394 GCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGTATCACTGATTTGTGAGCTTTGA
131 GCTTTAAAAGAGTGCCACTGACTT-CGTGGGCTTTGAAAAGGTACCACTGACTTGTGAGCTTTGA
* *
3418459 AAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTGCC
195 AAGAGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTGCC
* *
3418524 ACTGACTCATGGGCTTTGAAAAAGGTGCCACCAACTGGTGGGCTTTGAAAGGGTGCCACTAACTC
260 ACTAACTCATGGGCTTTGAAAAAGGTGCCACCAACTCGTGGGCTTTGAAAGGGTGCCACTAACTC
* * *
3418589 GTGGGCTTTGAAAGGGTGCTATTGACTCGTGGGCTTTGAAAGGGTACCACTGATTTGTGGGCTTT
325 GTGGGCTTTGAAAGGGTGCTACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT
*
3418654 GAAAAGAGTGCCACTGACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGG
390 GAAAAGAGTGCCACTCACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGG
* *
3418719 GTACTATTGACTTGCGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
455 GTACTACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
* *
3418784 TGACTTGTGGGCTTGAGAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCTACTGACTTGTG
520 TGACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTGACTTGTG
3418849 GGCTTTAAAAAGAG
585 GGCTTTAAAAAGAG
3418863 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTACGTGGGCTTTGAAAAGAGTTACCA
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTT-CCA
* * *
3418928 CTGGCTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAGAAGGTGCCACTAACTTG
63 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTAACTTG
* *
3418993 TGAGCTTTGAAAAGAGTGCCACTGACTT-GTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
128 TGAGCTTT-AAAAGAGTGCCACTGACTTCGTGGGCTTTGAAAAGGTACCACTGACTTGTGAGCTT
* *
3419057 TGAAAGTGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTTACTCA-TGGGCTTTGAAAAGG
192 TGAAAGAGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTGACT-AGTGGGCTTTG-AAAGG
** * **
3419121 GTGCCACTAACTGGTGGGCTTTGAAAGA-GTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
255 GTGCCACTAACTCATGGGCTTTGAAAAAGGTGCCACCAACTCGTGGGCTTTGAAAGGGTGCCACT
3419185 AACTCGTGGGCTTTGAAAGGGTAG-TACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTG
320 AACTCGTGGGCTTTGAAAGGGT-GCTACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTG
* * *
3419249 GGCTTTGAAAAGAGTGCCACTCAGTTGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTT
384 GGCTTTGAAAAGAGTGCCACTCACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATT
*
3419314 AAAAGGGTGAC-ACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGA
449 AAAAGGGT-ACTACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGA
3419378 GTGCCACTGACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTG
513 GTGCCACTGACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTG
* *
3419443 ACTTGTGGGGTTTGAAAAGAG
578 ACTTGTGGGCTTTAAAAAGAG
* *
3419464 TGCCACTGACTTATGGGCTTTAAAAGGGTGCCACTGGCTTGTGGGCTTTGAAAAGAGTGT-CACT
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT-TCCACT
3419528 GACTTGTGGGCTTTGAAA
65 GACTTGTGGGCTTTGAAA
3419546 GGGATGAACG
Statistics
Matches: 631, Mismatches: 43, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
598 21 0.03
599 55 0.09
600 1 0.00
601 432 0.68
602 104 0.16
603 18 0.03
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (598 bp):
TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTCCACTG
ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTAACTTGTGA
GCTTTAAAAGAGTGCCACTGACTTCGTGGGCTTTGAAAAGGTACCACTGACTTGTGAGCTTTGAA
AGAGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTGCCA
CTAACTCATGGGCTTTGAAAAAGGTGCCACCAACTCGTGGGCTTTGAAAGGGTGCCACTAACTCG
TGGGCTTTGAAAGGGTGCTACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTTG
AAAAGAGTGCCACTCACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGGG
TACTACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACT
GACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTGACTTGTGG
GCTTTAAAAAGAG
Found at i:3420642 original size:21 final size:21
Alignment explanation
Indices: 3420609--3420649 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3420599 CTAAGTAAAA
3420609 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3420630 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3420650 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3420807 original size:53 final size:53
Alignment explanation
Indices: 3420729--3420865 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
3420719 AAATTGCATA
*
3420729 GTATCGATACATACAAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
* *
3420783 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
*
3420836 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
3420866 TTGGAAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
Found at i:3420940 original size:21 final size:22
Alignment explanation
Indices: 3420910--3420960 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
3420900 CACTATTCAT
3420910 ACTGTTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATC
3420932 ACT-TTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATC
3420953 ACTGTTCA
1 ACTGTTCA
3420961 CACTGTTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (22 bp):
ACTGTTCATGTATCGATACATC
Found at i:3426093 original size:246 final size:246
Alignment explanation
Indices: 3425659--3426152 Score: 952
Period size: 246 Copynumber: 2.0 Consensus size: 246
3425649 GGTAATAGGG
3425659 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
1 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
3425724 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
66 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
*
3425789 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGTGGTTTTCGCCATGATCCCATTGTCAAGATT
131 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
*
3425854 AGGTCTTATAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
196 AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
3425905 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
1 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
3425970 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
66 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
3426035 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
131 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
* *
3426100 AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCGGTATCTTGGAGATTTT
196 AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
3426151 AT
1 AT
3426153 TTAAGATGAC
Statistics
Matches: 244, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
246 244 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (246 bp):
ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
Found at i:3434784 original size:13 final size:13
Alignment explanation
Indices: 3434766--3434791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3434756 ACAAAGATCC
3434766 ATGTATCGATACA
1 ATGTATCGATACA
3434779 ATGTATCGATACA
1 ATGTATCGATACA
3434792 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3434787 original size:33 final size:33
Alignment explanation
Indices: 3434745--3434811 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3434735 AAAATTTCCA
***
3434745 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3434778 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3434811 A
1 A
3434812 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3434855 original size:19 final size:18
Alignment explanation
Indices: 3434831--3434898 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
3434821 CAGTAGCTAA
3434831 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
3434850 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
3434865 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
3434882 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3434899 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:3434871 original size:13 final size:13
Alignment explanation
Indices: 3434853--3434877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3434843 ACAATACTTA
3434853 TGTATCGATACAT
1 TGTATCGATACAT
3434866 TGTATCGATACA
1 TGTATCGATACA
3434878 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3434875 original size:32 final size:32
Alignment explanation
Indices: 3434834--3434896 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3434824 TAGCTAATTA
*
3434834 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3434866 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3434897 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3434960 original size:21 final size:21
Alignment explanation
Indices: 3434934--3435010 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
3434924 GTTGGGACCC
* *
3434934 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
* *
3434955 TGTATCAATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
*
3434976 TGTATAGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
3434997 TGTATCGATACATT
1 TGTATCGATACATT
3435011 TGGATAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:3438095 original size:158 final size:158
Alignment explanation
Indices: 3437805--3438108 Score: 389
Period size: 158 Copynumber: 1.9 Consensus size: 158
3437795 GATAGCAACG
** *
3437805 GGGTTAGAGTATCCCCGATTGTAGAAAATCGGTGTTTTAGAAATAAAATCGGGATTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTAGAAAATCAATGCTTTAGAAATAAAATCGGGATTGGAGTATCC
* * ** *
3437870 CCTCAGAAATAACAGGGTTGGAGTATCCCTGATTATAGAAAATTGACATTTTGAAAATAAAATCG
66 CCCCAGAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAACATTTTGAAAATAAAACCG
3437935 GGGTTGGAGTATCCCCTCGAAAATAACT
131 GGGTTGGAGTATCCCCTCGAAAATAACT
* * * ** * *
3437963 GGGTTGGAGTATCCCCGATTGTGGAAAATTAATGCTTTAGAAATAAGGTTGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTAGAAAATCAATGCTTTAGAAATAAAATCGGGATTGGAGTATCC
* * * *
3438028 CCGCCA-AAATAATAGGGTTGGAGTATCCCCGATTGTA-AGAAATCAATATTTT-AGAAATAAAG
66 CC-CCAGAAATAACAGGGTTGGAGTATCCCCGATTATAGA-AAATCAACATTTTGA-AAATAAAA
3438090 CCGGGGTTGGAGTATCCCC
128 CCGGGGTTGGAGTATCCCC
3438109 GAGATGAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
157 2 0.02
158 120 0.97
159 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (158 bp):
GGGTTAGAGTATCCCCGATTGTAGAAAATCAATGCTTTAGAAATAAAATCGGGATTGGAGTATCC
CCCCAGAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAACATTTTGAAAATAAAACCG
GGGTTGGAGTATCCCCTCGAAAATAACT
Found at i:3438109 original size:79 final size:79
Alignment explanation
Indices: 3437805--3438109 Score: 339
Period size: 79 Copynumber: 3.9 Consensus size: 79
3437795 GATAGCAACG
* ** * *
3437805 GGGTTAGAGTATCCCCGATTGTAGAAAATCGGTGTTTTAGAAATAAAATCGGGATTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
* *
3437870 CC-TCAGAAATAACA
66 CCGCCA-AAATAATA
* * ** *
3437884 GGGTTGGAGTATCCCTGATTATAGAAAATTGACATTTT-GAAAATAAAATCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAG-AAATAAAATCGGGGTTGGAGTATC
* *
3437948 CCCTCGAAAATAACT-
65 CCCGCCAAAATAA-TA
* * ** ** *
3437963 GGGTTGGAGTATCCCCGATTGTGGAAAATTAATGCTTTAGAAATAAGGTTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
3438028 CCGCCAAAATAATA
66 CCGCCAAAATAATA
**
3438042 GGGTTGGAGTATCCCCGATTGTA-AGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTAGA-AAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATC
3438106 CCCG
65 CCCG
3438110 AGATGAAAAA
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
78 3 0.02
79 185 0.97
80 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTGTAGAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
CCGCCAAAATAATA
Found at i:3442803 original size:20 final size:20
Alignment explanation
Indices: 3442778--3442827 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
3442768 GTAAAAAGAC
3442778 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
3442798 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
3442818 AGAATGTATC
1 AGAATGTATC
3442828 AGCAACAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:3443287 original size:28 final size:28
Alignment explanation
Indices: 3443255--3444539 Score: 1507
Period size: 28 Copynumber: 45.0 Consensus size: 28
3443245 TGGAAAAGCA
*
3443255 TGCCACTGACTTGTGGGCTTTGAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3443283 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
*
3443312 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3443341 TGCCACTGACTTGTGGGCGTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3443369 TGCCACTGACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3443397 TGCCACTGACTTGCGTGGGCTTTGAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
** * * *
3443427 TATCACTGATTTGTGAGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3443455 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3443483 TGCCACTGACTAGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
** *
3443511 TGCCACTGACTCATGGGCTTTGAAAAAGG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
** *
3443540 TGCCACCAACTGGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3443568 TGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3443596 TGCTATTGACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3443624 TACCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3443653 TGCCACTGACTTGTGAGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3443681 TGCCACTGACTTGCGTGGGCATTAAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
* * * *
3443711 TACTATTGACTTGCGTGGGTTTTGAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
*
3443741 TGCCACTGACTTGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3443769 TGCCACTGACTTGTGGGC-TTGAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3443796 TGCCACTGACTCGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3443825 TGCTACTGACTTGTGGGCTTTAAAAAGAG
1 TGCCACTGACTTGTGGGCTTT-GAAAGGG
*
3443854 TGCCACTGACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3443882 TGCCACTGACTTACGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTT--GTGGGCTTTG-AAAG-GG
* * *
3443914 TACCACTGGCTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
3443943 TGCCACTGACTTGTGGGCTTTGAGAA-GG
1 TGCCACTGACTTGTGGGCTTTGA-AAGGG
* * *
3443971 TGCCACTAACTTGTGAGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
*
3444000 TGCCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3444028 TGCCACTGACTTGTGGGCTTTGAAAGTG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3444056 TGCCACTAACTGGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* **
3444084 TGCCACTTACTCATGGGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3444113 TGCCACTAACTGGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3444141 TGCCACTGACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3444169 TGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* **
3444197 TAG-TACTGACTCATGGGCTTTGAAAGGG
1 T-GCCACTGACTTGTGGGCTTTGAAAGGG
* *
3444225 TACCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3444254 TGCCACTCAGTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
*
3444282 TGCCACTGACTTGCGTGGGCTTTAAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
*
3444312 TGACACTGACTTGCGTGGGCTTTGAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGG
* *
3444342 TGCCACTGACTTGTGGGTTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3444370 TGCCACTGACTTGTGGGC-TTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3444397 TGCCACTGACTCGTGGCCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3444426 TGCTACTGACTTGTGGGGTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3444455 TGCCACTGACTTATGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
3444483 TGCCACTGGCTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGG
*
3444512 TGTCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
3444540 ATGAACGTTC
Statistics
Matches: 1089, Mismatches: 142, Indels: 52
0.85 0.11 0.04
Matches are distributed among these distances:
27 48 0.04
28 562 0.52
29 314 0.29
30 150 0.14
31 4 0.00
32 11 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:3443612 original size:113 final size:112
Alignment explanation
Indices: 3443255--3444539 Score: 1493
Period size: 113 Copynumber: 11.2 Consensus size: 112
3443245 TGGAAAAGCA
* * *
3443255 TGCCACTGACTTGTGGGCTTTGAGAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTG
* * *
3443320 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGG
65 ACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * **
3443369 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGTATCACT
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGGTGCCACT
* * *
3443434 GATTTGTGAGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
64 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* ** **
3443483 TGCCACTGACTAGTGGGCTTTGAAAGGGTGCCACTGACTCATGGGCTTTGAAAAAGGTGCCACCA
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAAGGTGCCACTG
* * *
3443548 ACTGGTGGGCTTTGAAAGGGTGCCACTAACTCGTGGGCTTTGAAAGGG
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
3443596 TGCTATTGACTCGTGGGCTTTGAAAGGGTACCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTG
* * * *
3443661 ACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGGG
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGGG
* * * *
3443711 TACTATTGACTTGCGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCAC
1 TGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCAC
* * *
3443775 TGACTTGTGGGC-TTGAGAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAG
63 TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGG
* * * *
3443825 TGCTACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACT
1 TGCCACTGACTCGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACT
* * * *
3443889 GACTTACGTGGGCTTTGAAAAGAGTTACCACTGGCTTGTGGGCTTTGAAAAGAG
64 GACTT--GTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
3443943 TGCCACTGACTTGTGGGCTTTGAGAA-GGTGCCACTAACTTGTGAGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTCGTGGGCTTTGA-AAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
* *
3444007 GACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGTG
64 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * ** *
3444056 TGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTTACTCATGGGCTTTGAAAAGGGTGCCACTA
1 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTG
* * *
3444121 ACTGGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGG
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * ** * *
3444169 TGCCACTAACTCGTGGGCTTTGAAAGGGTAG-TACTGACTCATGGGCTTTGAAAGGGTACCACTG
1 TGCCACTGACTCGTGGGCTTTGAAAGGGT-GCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTG
* * * *
3444233 ACTTGTGGGCTTTGAAAAGAGTGCCACTCAGTTGTGGGCTTTAAAAGGG
65 ACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
3444282 TGCCACTGACTTGCGTGGGCTTTAAAAGGGTGACACTGACTTGCGTGGGCTTTGAAAGGGTGCCA
1 TGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGGTGCCA
* *
3444347 CTGACTTGTGGGTTTTGAAAGAGTGCCACTGACTTGTGGGC-TTGAAAGGG
62 CTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
3444397 TGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTGACTTGTGGGGTTTGAAAAGAGTGCCACT
1 TGCCACTGACTCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
* * * *
3444462 GACTTATGGGCTTTAAAAGGGTGCCACTGGCTTGTGGGCTTTGAAAAGAG
64 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
3444512 TGTCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTCGTGGGCTTTGAAAGGG
3444540 ATGAACGTTC
Statistics
Matches: 1015, Mismatches: 123, Indels: 66
0.84 0.10 0.05
Matches are distributed among these distances:
112 58 0.06
113 418 0.41
114 169 0.17
115 135 0.13
116 73 0.07
117 96 0.09
118 66 0.07
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (112 bp):
TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA
CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:3444344 original size:601 final size:598
Alignment explanation
Indices: 3443255--3444536 Score: 2054
Period size: 601 Copynumber: 2.1 Consensus size: 598
3443245 TGGAAAAGCA
* * * *
3443255 TGCCACTGACTTGTGGGCTTTGAGAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTCCACTG
* *
3443320 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTGACTTGTGG
66 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTAACTTGTGA
* * * *
3443385 GCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGTATCACTGATTTGTGAGCTTTGA
131 GCTTTAAAAGAGTGCCACTGACTT-CGTGGGCTTTGAAAAGGTACCACTGACTTGTGAGCTTTGA
* *
3443450 AAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTGCC
195 AAGAGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTGCC
* *
3443515 ACTGACTCATGGGCTTTGAAAAAGGTGCCACCAACTGGTGGGCTTTGAAAGGGTGCCACTAACTC
260 ACTAACTCATGGGCTTTGAAAAAGGTGCCACCAACTCGTGGGCTTTGAAAGGGTGCCACTAACTC
* * *
3443580 GTGGGCTTTGAAAGGGTGCTATTGACTCGTGGGCTTTGAAAGGGTACCACTGATTTGTGGGCTTT
325 GTGGGCTTTGAAAGGGTGCTACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT
*
3443645 GAAAAGAGTGCCACTGACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGG
390 GAAAAGAGTGCCACTCACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGG
* *
3443710 GTACTATTGACTTGCGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
455 GTACTACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
* *
3443775 TGACTTGTGGGCTTGAGAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCTACTGACTTGTG
520 TGACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTGACTTGTG
3443840 GGCTTTAAAAAGAG
585 GGCTTTAAAAAGAG
3443854 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTACGTGGGCTTTGAAAAGAGTTACCA
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTT-CCA
* * *
3443919 CTGGCTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAGAAGGTGCCACTAACTTG
63 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTAACTTG
* *
3443984 TGAGCTTTGAAAAGAGTGCCACTGACTT-GTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
128 TGAGCTTT-AAAAGAGTGCCACTGACTTCGTGGGCTTTGAAAAGGTACCACTGACTTGTGAGCTT
* *
3444048 TGAAAGTGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTTACTCA-TGGGCTTTGAAAAGG
192 TGAAAGAGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTGACT-AGTGGGCTTTG-AAAGG
** * **
3444112 GTGCCACTAACTGGTGGGCTTTGAAAGA-GTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
255 GTGCCACTAACTCATGGGCTTTGAAAAAGGTGCCACCAACTCGTGGGCTTTGAAAGGGTGCCACT
3444176 AACTCGTGGGCTTTGAAAGGGTAG-TACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTG
320 AACTCGTGGGCTTTGAAAGGGT-GCTACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTG
* * *
3444240 GGCTTTGAAAAGAGTGCCACTCAGTTGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTT
384 GGCTTTGAAAAGAGTGCCACTCACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATT
*
3444305 AAAAGGGTGAC-ACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGA
449 AAAAGGGT-ACTACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGA
3444369 GTGCCACTGACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTG
513 GTGCCACTGACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTG
* *
3444434 ACTTGTGGGGTTTGAAAAGAG
578 ACTTGTGGGCTTTAAAAAGAG
* *
3444455 TGCCACTGACTTATGGGCTTTAAAAGGGTGCCACTGGCTTGTGGGCTTTGAAAAGAGTGT-CACT
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT-TCCACT
3444519 GACTTGTGGGCTTTGAAA
65 GACTTGTGGGCTTTGAAA
3444537 GGGATGAACG
Statistics
Matches: 631, Mismatches: 43, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
598 21 0.03
599 55 0.09
600 1 0.00
601 432 0.68
602 104 0.16
603 18 0.03
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (598 bp):
TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTCCACTG
ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCGTTGAAAAGGTGCCACTAACTTGTGA
GCTTTAAAAGAGTGCCACTGACTTCGTGGGCTTTGAAAAGGTACCACTGACTTGTGAGCTTTGAA
AGAGTGCCACTAACTGGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTGCCA
CTAACTCATGGGCTTTGAAAAAGGTGCCACCAACTCGTGGGCTTTGAAAGGGTGCCACTAACTCG
TGGGCTTTGAAAGGGTGCTACTGACTCATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTTG
AAAAGAGTGCCACTCACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCATTAAAAGGG
TACTACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACT
GACTTGTGGGCTTGAAAGGGTGCCACTGACTCGTGGCCTTTGAAAAGAGTGCTACTGACTTGTGG
GCTTTAAAAAGAG
Found at i:3445633 original size:21 final size:21
Alignment explanation
Indices: 3445600--3445640 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3445590 CTAAGTAAAA
3445600 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
3445621 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
3445641 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:3445798 original size:53 final size:53
Alignment explanation
Indices: 3445720--3445856 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
3445710 AAATTGCATA
*
3445720 GTATCGATACATACAAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
* *
3445774 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
*
3445827 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
3445857 TTGGAAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGACAGTAGCCAAATTT
Found at i:3445929 original size:21 final size:22
Alignment explanation
Indices: 3445900--3445951 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
3445890 TCACTATTCA
3445900 TACTGTTCATGTATCGATACAT
1 TACTGTTCATGTATCGATACAT
3445922 TACT-TTCATGTATCGATACAT
1 TACTGTTCATGTATCGATACAT
*
3445943 CACTGTTCA
1 TACTGTTCA
3445952 CACTGTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (22 bp):
TACTGTTCATGTATCGATACAT
Found at i:3451084 original size:246 final size:246
Alignment explanation
Indices: 3450650--3451143 Score: 952
Period size: 246 Copynumber: 2.0 Consensus size: 246
3450640 GGTAATAGGG
3450650 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
1 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
3450715 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
66 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
*
3450780 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGTGGTTTTCGCCATGATCCCATTGTCAAGATT
131 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
*
3450845 AGGTCTTATAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
196 AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
3450896 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
1 ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
3450961 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
66 ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
3451026 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
131 TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
* *
3451091 AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCGGTATCTTGGAGATTTT
196 AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
3451142 AT
1 AT
3451144 TTAAGATGAC
Statistics
Matches: 244, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
246 244 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (246 bp):
ATAAAGAAGATGAAAGGTGATAGTGGGACAAAAATATGGAATAATATGTAAAAGTCATTTCATTG
ATAATATTTGATAAAAATGCCCCTTACACAAGACACCTCCCTACCTTTGGGTGAAGGTAGGTAGG
TTTTCATTACATGAAATGGACAAGAAAAGTGCAGGGGTTTTCGCCATGATCCCATTGTCAAGATT
AGGTCTTACAGGAAAGACACAAGTTTTATGGCTCAGTATCCTGGAGATTTT
Found at i:3455106 original size:18 final size:18
Alignment explanation
Indices: 3455083--3455121 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
3455073 AAAAAGAGGG
3455083 ACAATCGAAATACATCTC
1 ACAATCGAAATACATCTC
3455101 ACAATCGAAATACATCTC
1 ACAATCGAAATACATCTC
3455119 ACA
1 ACA
3455122 TTTGTCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.21
Consensus pattern (18 bp):
ACAATCGAAATACATCTC
Found at i:3457618 original size:20 final size:20
Alignment explanation
Indices: 3457592--3457648 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
3457582 TAAAAAGACA
*
3457592 AAATGTATCGATACATTGA-
1 AAATGTATCGATACATTCAT
*
3457611 AGAATGTATGGATACATTCAT
1 A-AATGTATCGATACATTCAT
*
3457632 ACATGTATCGATACATT
1 AAATGTATCGATACATT
3457649 TGGGTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACATTCAT
Found at i:3458361 original size:14 final size:14
Alignment explanation
Indices: 3458342--3458370 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3458332 GAGCCAACAG
3458342 CCCCTACTTATCAT
1 CCCCTACTTATCAT
3458356 CCCCTACTTATCAT
1 CCCCTACTTATCAT
3458370 C
1 C
3458371 ATGCTTGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (14 bp):
CCCCTACTTATCAT
Found at i:3458760 original size:20 final size:20
Alignment explanation
Indices: 3458737--3458792 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
3458727 AAACATACCT
*
3458737 AAATGTATCAATACATTGAA
1 AAATGTATCGATACATTGAA
*
3458757 AAATGTATCGATACAATGAA
1 AAATGTATCGATACATTGAA
*
3458777 CAATGTATCGATACAT
1 AAATGTATCGATACAT
3458793 CTGGGTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (20 bp):
AAATGTATCGATACATTGAA
Found at i:3470057 original size:130 final size:126
Alignment explanation
Indices: 3469782--3470107 Score: 293
Period size: 130 Copynumber: 2.5 Consensus size: 126
3469772 ACGAGAAATT
* * *
3469782 TAATATTTTGGAGATAATAACGGGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCC
1 TAATATTTTGGAAATAA-AAC-GGGTTGGAGTATCCCAT-GAAAATAATGGGGTTGGAGTATCCC
* * * *
3469847 CGATTGTGAAAACTCTATGATTTAGAAATAAGGCACGAGTTGAAGTGTCCCCAATTAT-AGAAAA
63 CAATTATGAAAACTCAATGATTTAGAAATAAGGCACGAGTTGAAGTATCCCCAATTATGAG-AAA
* ***
3469911 TAGATGTTTCAAAAATAAAATCGGGATTGGAGTATCTCCATGAAAATAATGGGGTTGGAGTATCC
1 TA-ATATTTTGGAAATAAAA-CGGG-TTGGAGTATC-CCATGAAAATAATGGGGTTGGAGTATCC
* *** *
3469976 CCAATTATGAGAAA-TCAAT-ATTTTAGAAATAAGGC-CGGGGTTGAAGTATCCTTGATTGTGAG
62 CCAATTATGA-AAACTCAATGA-TTTAGAAATAAGGCAC-GAGTTGAAGTATCCCCAATTATGAG
3470038 AAA
124 AAA
* * * *
3470041 TCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCTTTGGAAATAACT-GGGTTAGAGTATC
1 T-AATATTTTGGAAATAAA-AC-GGGTTGGAGTATCCC-ATGAAAATAA-TGGGGTTGGAGTATC
3470105 CCC
61 CCC
3470108 GATAAAATAA
Statistics
Matches: 160, Mismatches: 24, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
129 11 0.07
130 136 0.85
131 13 0.08
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (126 bp):
TAATATTTTGGAAATAAAACGGGTTGGAGTATCCCATGAAAATAATGGGGTTGGAGTATCCCCAA
TTATGAAAACTCAATGATTTAGAAATAAGGCACGAGTTGAAGTATCCCCAATTATGAGAAA
Found at i:3470115 original size:28 final size:28
Alignment explanation
Indices: 3470084--3470138 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
3470074 ATCCCTTTGG
*
3470084 AAATAACTGGGTTAGAGTATCCCCGATA
1 AAATAACGGGGTTAGAGTATCCCCGATA
*
3470112 AAATAACGGGGTTGGAGTATCCCCGAT
1 AAATAACGGGGTTAGAGTATCCCCGAT
3470139 TGTGAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (28 bp):
AAATAACGGGGTTAGAGTATCCCCGATA
Found at i:3470188 original size:51 final size:51
Alignment explanation
Indices: 3470122--3470237 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
3470112 AAATAACGGG
*
3470122 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAA-TCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACT-GGA
* * * * *
3470173 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACTGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACTGGA
3470224 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
3470238 TCAAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACTGGA
Found at i:3470263 original size:79 final size:78
Alignment explanation
Indices: 3470173--3470469 Score: 352
Period size: 79 Copynumber: 3.8 Consensus size: 78
3470163 TAAAATCGGA
* * * *
3470173 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAA-CTGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGT-GAAAATTGATGTTTTAGAAATAAAATC-GAGGTTGGAGTATCCC
3470237 CTCAAAAATAACAGG
64 CTCAAAAATAACAGG
* * *
3470252 GTTGGAGTATCCCCGATTATGAAAACTTGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAA-TTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
* *
3470317 TCGAAAATTACAGG
65 TCAAAAATAACAGG
* * * * *
3470331 GTTCGAGTATCCTCGA-TG-AAAAATTGATGTTTTAGGAATAAAATCGAGGTTGGAGTGTCCCCT
1 GTTGGAGTATCCCCGATTGTGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT
*
3470394 CAGAAATAAC-GAG
66 CAAAAATAACAG-G
* *
3470407 GTTGGAGTATCCCCGATTGTGAAAATTCGGTGTTTTGGAAATAAAATCG-GAGTTGGAGTATCC
1 GTTGGAGTATCCCCGATTGTGAAAATT-GATGTTTTAGAAATAAAATCGAG-GTTGGAGTATCC
3470470 TCGATTATGG
Statistics
Matches: 185, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
75 1 0.01
76 58 0.31
77 6 0.03
78 12 0.06
79 107 0.58
80 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCCCGATTGTGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT
CAAAAATAACAGG
Found at i:3470500 original size:52 final size:51
Alignment explanation
Indices: 3470407--3470587 Score: 222
Period size: 51 Copynumber: 3.5 Consensus size: 51
3470397 AAATAACGAG
* *
3470407 GTTGGAGTATCCCCGATTGTGAAAATTCGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* * *
3470458 GTTGGAGTATCCTCGATTATGGAAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAAATCGGTGTTTTGGAAATAAAATCGGA
* * * * * *
3470510 GTTGGAGTATCCCCCATTAAGAAAAATTGATGTTTTGGAAATGAAACCGTGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCG-GA
*
3470562 -TTGGAGTATCCCCGA-GATGAAAAATC
1 GTTGGAGTATCCCCGATTATGAAAAATC
3470588 TAGAAATTTA
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 8 0.07
51 56 0.50
52 47 0.42
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
Found at i:3473773 original size:14 final size:12
Alignment explanation
Indices: 3473743--3473802 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
3473733 CACCCTTCGC
*
3473743 AAAAAAAATC-A
1 AAAAAAAAACAA
*
3473754 ACAAAAAAACGAA
1 AAAAAAAAAC-AA
3473767 ATAAAAAAAACAA
1 A-AAAAAAAACAA
3473780 AAAATAAAAACAA
1 AAAA-AAAAACAA
3473793 AAAAACAAAA
1 AAAAA-AAAA
3473803 AACAAACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.20
12 4 0.10
13 21 0.51
14 8 0.20
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:3473783 original size:21 final size:20
Alignment explanation
Indices: 3473742--3473818 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 20
3473732 GCACCCTTCG
**
3473742 CAAAAAAAATCAACAAAAAAA
1 CAAAAAAAAAAAAC-AAAAAA
*
3473763 CGAAATAAAAAAAACAAAAAA
1 C-AAAAAAAAAAAACAAAAAA
*
3473784 TAAAAACAAAAAAACAAAAAA
1 CAAAAA-AAAAAAACAAAAAA
3473805 CAAACAACAAAAAA
1 CAAA-AA-AAAAAA
3473819 GGGTCCAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
20 4 0.09
21 24 0.51
22 19 0.40
ACGTcount: A:0.82, C:0.13, G:0.01, T:0.04
Consensus pattern (20 bp):
CAAAAAAAAAAAACAAAAAA
Found at i:3473803 original size:14 final size:13
Alignment explanation
Indices: 3473756--3473818 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
3473746 AAAAATCAAC
*
3473756 AAAAAAACGAAATA
1 AAAAAAAC-AAAAA
3473770 AAAAAAACAAAAA
1 AAAAAAACAAAAA
*
3473783 ATAAAAACAAAAAA
1 AAAAAAAC-AAAAA
3473797 ACAAAAAACAAACAA
1 A-AAAAAACAAA-AA
3473812 CAAAAAA
1 -AAAAAA
3473819 GGGTCCAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
13 11 0.26
14 17 0.40
15 13 0.31
16 1 0.02
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.03
Consensus pattern (13 bp):
AAAAAAACAAAAA
Found at i:3475486 original size:52 final size:53
Alignment explanation
Indices: 3475411--3475512 Score: 161
Period size: 52 Copynumber: 1.9 Consensus size: 53
3475401 ATGGCATCTA
* *
3475411 CTTCTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTTTTTT
1 CTTCTAAGCCCAATGCCGCTGGCCTTGAATCAACACATTGGCACCTTTTTTTT
* *
3475464 CTTC-AAGTCCAATGCCGCTGGCCTTGAATCAGCACATTGGCACCTTTTT
1 CTTCTAAGCCCAATGCCGCTGGCCTTGAATCAACACATTGGCACCTTTTT
3475513 CATCTTTAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (53 bp):
CTTCTAAGCCCAATGCCGCTGGCCTTGAATCAACACATTGGCACCTTTTTTTT
Found at i:3475540 original size:52 final size:52
Alignment explanation
Indices: 3475432--3475549 Score: 155
Period size: 52 Copynumber: 2.3 Consensus size: 52
3475422 AATGTCGTTG
* ** * **
3475432 GCCTTGAATCAACACATTGGCACCTTTTTTTTCTTCAAGTCCAATGCCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTTTCATCTTCAAGTCCAATACCGCCA
* * *
3475484 GCCTTGAATCAGCACATTGGCACCTTTTTCATCTTTAAGTTCAATATCGCCA
1 GCCTTGAATCAGCACATTGGCACCTTTTTCATCTTCAAGTCCAATACCGCCA
3475536 GCCTTGAATCAGCA
1 GCCTTGAATCAGCA
3475550 TACCGGCACC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (52 bp):
GCCTTGAATCAGCACATTGGCACCTTTTTCATCTTCAAGTCCAATACCGCCA
Found at i:3475745 original size:52 final size:53
Alignment explanation
Indices: 3475567--3475819 Score: 209
Period size: 52 Copynumber: 4.9 Consensus size: 53
3475557 ACCTTTATCC
* * * * *
3475567 TTCTTCTAATCTTC-AAGTCC-AATGTTGTCGGCCTTGAATTAGCATATTGTCA
1 TTCTTCTCATCTTCTAAG-CCTAATGTCGTTGGCCTTGAATCAGCATATTGGCA
* * * *** *
3475619 -CCTTTGTCATCTT-TAAGCCCAAAACCGTTGGCCTTGAATCAGCATATTAGCA
1 TTC-TTCTCATCTTCTAAGCCTAATGTCGTTGGCCTTGAATCAGCATATTGGCA
* * *
3475671 -TCTT-TAACAT-TCCTAAGCCTAATGTCTTTGGCCTTGAATCAGTATATTGGCA
1 TTCTTCT--CATCTTCTAAGCCTAATGTCGTTGGCCTTGAATCAGCATATTGGCA
* *
3475723 TTCTTCTCATCTTC-AAGTCTAATGTCGTTGGCCGTGAATCAGCATATTGGCA
1 TTCTTCTCATCTTCTAAGCCTAATGTCGTTGGCCTTGAATCAGCATATTGGCA
* * * * *
3475775 TTCTTCGCATCTT-TAAGCCCAATATCGCTAGCCTTGAATCAGCAT
1 TTCTTCTCATCTTCTAAGCCTAATGTCGTTGGCCTTGAATCAGCAT
3475820 GTTAGCACCT
Statistics
Matches: 159, Mismatches: 32, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
50 1 0.01
51 6 0.04
52 145 0.91
53 6 0.04
54 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
TTCTTCTCATCTTCTAAGCCTAATGTCGTTGGCCTTGAATCAGCATATTGGCA
Found at i:3475890 original size:61 final size:61
Alignment explanation
Indices: 3475786--3475903 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
3475776 TCTTCGCATC
* * * * *
3475786 TTTAAGCCCAATATCGCTAGCCTTGAATCAGCATGTTAGCACCTTTATCATTTTTCTTATA
1 TTTAAGCCCAATATCGCTAGCCTGGAATCAACATATTAACACCTTTATCATTCTTCTTATA
* * *
3475847 TTTAAGCCCAATATTGCTGGCCTGGAATCAACATATTAACACCTTTATTATTCTTCT
1 TTTAAGCCCAATATCGCTAGCCTGGAATCAACATATTAACACCTTTATCATTCTTCT
3475904 CATCTGCATC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (61 bp):
TTTAAGCCCAATATCGCTAGCCTGGAATCAACATATTAACACCTTTATCATTCTTCTTATA
Found at i:3476576 original size:13 final size:13
Alignment explanation
Indices: 3476558--3476583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3476548 ACATAAGTTT
3476558 TGTATCGATACAA
1 TGTATCGATACAA
3476571 TGTATCGATACAA
1 TGTATCGATACAA
3476584 AACTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3479250 original size:27 final size:27
Alignment explanation
Indices: 3479220--3479306 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
3479210 CACTTTTCTT
3479220 CCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTTCGTGGCAC
** * *
3479247 CCTTTTAAGTCTGCAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTTCGTGGCAC
* * *
3479274 CCTTTTAGGCCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTTCGTGGCAC
*
3479301 TCTTTT
1 CCTTTT
3479307 TCCTTTTAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTTCGTGGCAC
Found at i:3479332 original size:34 final size:34
Alignment explanation
Indices: 3479274--3479340 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
3479264 TCCATGGCAC
* ** *
3479274 CCTTTTAGGCCCACAACTTTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCAGTGGCACCCTTTTT
*
3479308 CCTTTTAAGCCCACAAGTCAGTGGCACCCTTTT
1 CCTTTTAAGCCCACAACTCAGTGGCACCCTTTT
3479341 CAAAAGCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.15, T:0.36
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCAGTGGCACCCTTTTT
Found at i:3479413 original size:30 final size:28
Alignment explanation
Indices: 3479314--3479408 Score: 127
Period size: 28 Copynumber: 3.3 Consensus size: 28
3479304 TTTTCCTTTT
*
3479314 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
* * *
3479344 AAGCCCATAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
3479372 AAGCCCACAAGTCAGTGGCAACCTTTAG
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
3479400 AAGCCCACA
1 AAGCCCACA
3479409 CAAGTTGGTG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 35 0.61
29 2 0.04
30 20 0.35
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.18
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:3479537 original size:82 final size:84
Alignment explanation
Indices: 3479437--3479597 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 84
3479427 TTCTAAGTCC
* * * *
3479437 AATATCGCTAGCCTTGAATCAGTATATTGGCA-C-CTTTAAGTCCAATGTCATTGGCCTTGAATC
1 AATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTTAAGACCAATGTCACTGGCCATGAATC
3479500 AGCACATTGGCATAAGCCT
66 AGCACATTGGCATAAGCCT
*
3479519 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCATGA
1 AATATCGCTAGCCTTGAATCAGCATATTGGCACC---TCTTTAAGACCAATGTCACTGGCCATGA
*
3479584 ATCAGCATATTGGC
63 ATCAGCACATTGGC
3479598 GCCTTAACCA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
82 30 0.44
83 1 0.01
87 37 0.54
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (84 bp):
AATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTTAAGACCAATGTCACTGGCCATGAATC
AGCACATTGGCATAAGCCT
Found at i:3479680 original size:49 final size:49
Alignment explanation
Indices: 3479523--3479751 Score: 235
Period size: 52 Copynumber: 4.6 Consensus size: 49
3479513 AAGCCTAATA
*
3479523 TCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
* * *
3479571 TCACTGGCCATGAATCAGCATATTGGCGCCTTAACCATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTT---CATCTTTAAGACCAATG
* * *
3479623 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
* * * * * * * *
3479672 TTGTTGGCCTTGAATCAGTATACTGGCATCTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGACCAATG
** *
3479724 TCGCTGGCCTTGTCTCAGCACATTGGCA
1 TCGCTGGCCTTGAATCAGCATATTGGCA
3479752 TTTTTCTTCA
Statistics
Matches: 147, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
48 29 0.20
49 43 0.29
50 2 0.01
52 73 0.50
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
Found at i:3479722 original size:101 final size:100
Alignment explanation
Indices: 3479512--3479751 Score: 277
Period size: 101 Copynumber: 2.4 Consensus size: 100
3479502 CACATTGGCA
* * * * *
3479512 TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTG
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGACCAATATCACTG
* *
3479577 GCCATGAATCAGCATATTGGCGCCTTAACCATCTT
66 GCCATGAATCAGCATACTGGCGCCTTAACCATCTC
* * ***
3479612 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTGTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGACCAATATCACT
* * * *
3479677 GGCCTTGAATCAGTATACTGGCATCTTTAA-CAT-TCC
65 GGCCATGAATCAGCATACTGGC-GCCTTAACCATCT-C
**
3479713 TAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
3479752 TTTTTCTTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
100 40 0.34
101 73 0.62
102 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (100 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGACCAATATCACTG
GCCATGAATCAGCATACTGGCGCCTTAACCATCTC
Found at i:3480542 original size:40 final size:36
Alignment explanation
Indices: 3480498--3480583 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 36
3480488 TTTCAACAAT
3480498 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
1 TTGTATCGATACAAACA-T---TGTATCGATACATAAGTG
3480538 TTGTATCGAT----ACATTGTATCGATACATAAGTG
1 TTGTATCGATACAAACATTGTATCGATACATAAGTG
*
3480570 TTGTATCAATACAA
1 TTGTATCGATACAA
3480584 TGTATCGCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
32 27 0.66
35 1 0.02
36 3 0.07
40 10 0.24
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (36 bp):
TTGTATCGATACAAACATTGTATCGATACATAAGTG
Found at i:3480544 original size:19 final size:19
Alignment explanation
Indices: 3480520--3480582 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
3480510 AAACAGTAAA
3480520 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
3480539 TGTATCGATAC---A---T
1 TGTATCGATACATAAGTGT
3480552 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
3480571 TGTATCAATACA
1 TGTATCGATACA
3480583 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 12 0.32
16 2 0.05
19 23 0.62
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:3480556 original size:13 final size:13
Alignment explanation
Indices: 3480538--3480564 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3480528 TACATAAGTG
3480538 TTGTATCGATACA
1 TTGTATCGATACA
3480551 TTGTATCGATACA
1 TTGTATCGATACA
3480564 T
1 T
3480565 AAGTGTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3480561 original size:32 final size:32
Alignment explanation
Indices: 3480518--3480595 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
3480508 ACAAACAGTA
*
3480518 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
*
3480550 ATTGTATCGATACATAAGTGTTGTATCAATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
*
3480582 AATGTATCGCTACA
1 AATGTATCGATACA
3480596 AAGCTACTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCAATAC
Found at i:3480632 original size:13 final size:13
Alignment explanation
Indices: 3480614--3480641 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3480604 GCCAAGGAAA
3480614 TGTATCGATACAT
1 TGTATCGATACAT
3480627 TGTATCGATACAT
1 TGTATCGATACAT
3480640 TG
1 TG
3480642 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3484638 original size:33 final size:33
Alignment explanation
Indices: 3484601--3484667 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3484591 TTCAACGATT
3484601 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3484634 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3484667 T
1 T
3484668 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3484639 original size:13 final size:13
Alignment explanation
Indices: 3484621--3484645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3484611 CATAAAATGT
3484621 TGTATCGATACAA
1 TGTATCGATACAA
3484634 TGTATCGATACA
1 TGTATCGATACA
3484646 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3484729 original size:13 final size:13
Alignment explanation
Indices: 3484711--3484735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3484701 ATTACTCACA
3484711 TGTATCGATACAT
1 TGTATCGATACAT
3484724 TGTATCGATACA
1 TGTATCGATACA
3484736 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3484872 original size:52 final size:52
Alignment explanation
Indices: 3484744--3484864 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
3484734 CACTGATCTT
*
3484744 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3484796 TGTATCGATACATGCCGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3484848 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
3484865 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3487999 original size:564 final size:564
Alignment explanation
Indices: 3486931--3488058 Score: 2256
Period size: 564 Copynumber: 2.0 Consensus size: 564
3486921 AATGCTTTTA
3486931 CATCTTTAGCGTCTTCATTCACATCGTTTCCCACAATAAAAATATCAAAAATTTTATTCATCAGG
1 CATCTTTAGCGTCTTCATTCACATCGTTTCCCACAATAAAAATATCAAAAATTTTATTCATCAGG
3486996 GATACTCCAACCCCATTCCTCCGAGGGGACACTCCAACCCCGTTTTCAATCAAAAATTATATTCC
66 GATACTCCAACCCCATTCCTCCGAGGGGACACTCCAACCCCGTTTTCAATCAAAAATTATATTCC
3487061 ATTTTCTCTTCCACATTTCGAGTCAAACTCGTTTTCGGACTTCAGTTAATCAACGAATCCGGACA
131 ATTTTCTCTTCCACATTTCGAGTCAAACTCGTTTTCGGACTTCAGTTAATCAACGAATCCGGACA
3487126 AATCTCTAAATTGTCAATTCAATTATTTCAAAATAATTGATGGCAATTACGGGATACATCACGAT
196 AATCTCTAAATTGTCAATTCAATTATTTCAAAATAATTGATGGCAATTACGGGATACATCACGAT
3487191 GACCATTTTCTTTCTTCTTTCTTGTGCAGCATAATTAATTCATTTGCATGAAATATTATATGCTT
261 GACCATTTTCTTTCTTCTTTCTTGTGCAGCATAATTAATTCATTTGCATGAAATATTATATGCTT
3487256 TCATTGTCGTATTAACATGTTTCTTTTATGTCAATCTTGACGGCATTCATATTTTAAAACTGGTT
326 TCATTGTCGTATTAACATGTTTCTTTTATGTCAATCTTGACGGCATTCATATTTTAAAACTGGTT
3487321 TACAAAAAACCGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAG
391 TACAAAAAACCGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAG
3487386 TTTTCAAAGTGAAATCCAGAGAGCTTTTATGTCTCTATGTTTCCCATCTCTCCGGGGCGCATATG
456 TTTTCAAAGTGAAATCCAGAGAGCTTTTATGTCTCTATGTTTCCCATCTCTCCGGGGCGCATATG
3487451 AGATGAAAACTTTTATCAAAACCTGGATTTATTTTCAACACAAT
521 AGATGAAAACTTTTATCAAAACCTGGATTTATTTTCAACACAAT
3487495 CATCTTTAGCGTCTTCATTCACATCGTTTCCCACAATAAAAATATCAAAAATTTTATTCATCAGG
1 CATCTTTAGCGTCTTCATTCACATCGTTTCCCACAATAAAAATATCAAAAATTTTATTCATCAGG
3487560 GATACTCCAACCCCATTCCTCCGAGGGGACACTCCAACCCCGTTTTCAATCAAAAATTATATTCC
66 GATACTCCAACCCCATTCCTCCGAGGGGACACTCCAACCCCGTTTTCAATCAAAAATTATATTCC
3487625 ATTTTCTCTTCCACATTTCGAGTCAAACTCGTTTTCGGACTTCAGTTAATCAACGAATCCGGACA
131 ATTTTCTCTTCCACATTTCGAGTCAAACTCGTTTTCGGACTTCAGTTAATCAACGAATCCGGACA
3487690 AATCTCTAAATTGTCAATTCAATTATTTCAAAATAATTGATGGCAATTACGGGATACATCACGAT
196 AATCTCTAAATTGTCAATTCAATTATTTCAAAATAATTGATGGCAATTACGGGATACATCACGAT
3487755 GACCATTTTCTTTCTTCTTTCTTGTGCAGCATAATTAATTCATTTGCATGAAATATTATATGCTT
261 GACCATTTTCTTTCTTCTTTCTTGTGCAGCATAATTAATTCATTTGCATGAAATATTATATGCTT
3487820 TCATTGTCGTATTAACATGTTTCTTTTATGTCAATCTTGACGGCATTCATATTTTAAAACTGGTT
326 TCATTGTCGTATTAACATGTTTCTTTTATGTCAATCTTGACGGCATTCATATTTTAAAACTGGTT
3487885 TACAAAAAACCGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAG
391 TACAAAAAACCGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAG
3487950 TTTTCAAAGTGAAATCCAGAGAGCTTTTATGTCTCTATGTTTCCCATCTCTCCGGGGCGCATATG
456 TTTTCAAAGTGAAATCCAGAGAGCTTTTATGTCTCTATGTTTCCCATCTCTCCGGGGCGCATATG
3488015 AGATGAAAACTTTTATCAAAACCTGGATTTATTTTCAACACAAT
521 AGATGAAAACTTTTATCAAAACCTGGATTTATTTTCAACACAAT
3488059 TCATACATTC
Statistics
Matches: 564, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
564 564 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (564 bp):
CATCTTTAGCGTCTTCATTCACATCGTTTCCCACAATAAAAATATCAAAAATTTTATTCATCAGG
GATACTCCAACCCCATTCCTCCGAGGGGACACTCCAACCCCGTTTTCAATCAAAAATTATATTCC
ATTTTCTCTTCCACATTTCGAGTCAAACTCGTTTTCGGACTTCAGTTAATCAACGAATCCGGACA
AATCTCTAAATTGTCAATTCAATTATTTCAAAATAATTGATGGCAATTACGGGATACATCACGAT
GACCATTTTCTTTCTTCTTTCTTGTGCAGCATAATTAATTCATTTGCATGAAATATTATATGCTT
TCATTGTCGTATTAACATGTTTCTTTTATGTCAATCTTGACGGCATTCATATTTTAAAACTGGTT
TACAAAAAACCGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAG
TTTTCAAAGTGAAATCCAGAGAGCTTTTATGTCTCTATGTTTCCCATCTCTCCGGGGCGCATATG
AGATGAAAACTTTTATCAAAACCTGGATTTATTTTCAACACAAT
Found at i:3488682 original size:233 final size:234
Alignment explanation
Indices: 3488272--3488736 Score: 718
Period size: 233 Copynumber: 2.0 Consensus size: 234
3488262 CTCAAGACAT
*
3488272 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCACAATCTCGGT
1 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATCTCGGT
**
3488337 CACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTATTAATCTTCCCCCCTTAA
66 CACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACCAATCTTCCCCCCTTAA
* * * * *
3488402 TCAACACACTTCCCATCATGCCACATAAATCCCTAATCACGAGGGATA-CTAAGTCGAGCGTGCC
131 TCAACACACTTCCCATCATGCCACAAAAATCCCCAATCACAAGGGATAGC-AAGTCCAGCGCGCC
3488466 TCATTTGCCCTATCG-CCGGGGTCGAGCACACGTTACGAC
195 TCATTTGCCCTATCGTCCGGGGTCGAGCACACGTTACGAC
* * *
3488505 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTTGGT
1 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATCTCGGT
* * * * *
3488570 CACTTCGTAGTGACCATTGAAGATCAGTTAGATGGGTGATTCATCTACCGATCTTCCCTCTTTAA
66 CACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACCAATCTTCCCCCCTTAA
* * *
3488635 TCAACATACTTCCCATCATGCCATAAAAATCCCCAATCGCAAGGGATAGCAAGTCCAGCGCGCCT
131 TCAACACACTTCCCATCATGCCACAAAAATCCCCAATCACAAGGGATAGCAAGTCCAGCGCGCCT
* *
3488700 CATTTGCCCTATCGTCGGGGGTCGAGCGCACGTTACG
196 CATTTGCCCTATCGTCCGGGGTCGAGCACACGTTACG
3488737 GCAGTTATTT
Statistics
Matches: 209, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
233 188 0.90
234 21 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (234 bp):
AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATCTCGGT
CACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACCAATCTTCCCCCCTTAA
TCAACACACTTCCCATCATGCCACAAAAATCCCCAATCACAAGGGATAGCAAGTCCAGCGCGCCT
CATTTGCCCTATCGTCCGGGGTCGAGCACACGTTACGAC
Found at i:3489930 original size:739 final size:739
Alignment explanation
Indices: 3488505--3490217 Score: 2982
Period size: 739 Copynumber: 2.3 Consensus size: 739
3488495 ACGTTACGAC
3488505 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTTGGT
1 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTTGGT
* *
3488570 CACTTCGTAGTGACCATTGAAGATCAGTTAGATGGGTGATTCATCTACCGATCTTCCCTCTTTAA
66 CACTTCGTAGTGACCATTGAAGATCGGTTAGATGGGTGATTCATCTACCGATCTTCCCCCTTTAA
3488635 TCAACATACTTCCCATCATGCCATAAAAATCCCCAATCGCAAGGGATAGCAAGTCCAGCGCGCCT
131 TCAACATACTTCCCATCATGCCATAAAAATCCCCAATCGCAAGGGATAGCAAGTCCAGCGCGCCT
*
3488700 CATTTGCCCTATCGTCGGGGGTCGAGCGCACGTTACGGCAGTTATTTTTTGAATAATCGAGGACA
196 CATTTGCCCTATCGTCGGGGGTCGAGCGCACGTTACGACAGTTATTTTTTGAATAATCGAGGACA
3488765 ATTGCGAGACAAATTCTAATAGTATGTTCCTTCTCTTTATCATTGAATGATCAATGATCACTCAC
261 ATTGCGAGACAAATTCTAATAGTATGTTCCTTCTCTTTATCATTGAATGATCAATGATCACTCAC
3488830 TTCCATATTTTCAAGATTTATTCTTAAAAATTATAAAGGTAATGTTCCATGTCAGTATCTCTCTA
326 TTCCATATTTTCAAGATTTATTCTTAAAAATTATAAAGGTAATGTTCCATGTCAGTATCTCTCTA
3488895 GTGCTTGACACGGAATATCCAATTTTCAAAGTGAAATCCAGAGAGCATTTTATGTCTTTATGTTC
391 GTGCTTGACACGGAATATCCAATTTTCAAAGTGAAATCCAGAGAGCATTTTATGTCTTTATGTTC
3488960 CCCATCTCTCCGGGATTCATATGAGATTAAAATTTTTATCAAAACCTAGATTTATTGTTTTTATA
456 CCCATCTCTCCGGGATTCATATGAGATTAAAATTTTTATCAAAACCTAGATTTATTGTTTTTATA
* *
3489025 CAAAATTTATACATTCAAAGGAGATCATATCGAACTAATGATAAACTGAAGCCAATGAAATCACT
521 CAAAATTCATACATTCAAAGGAGATCATATCGAACTAATGATAAACTGAAGCCAATGAAATCAAT
3489090 ATCGAGTCAAAACACATCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTTGTACCTCTTT
586 ATCGAGTCAAAACACATCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTTGTACCTCTTT
* *
3489155 GCACGCAACCAACTCCCGAACCCAACCGACGAATCTCTGAATTACGTAAACCATGGGATGGATGT
651 GCACGCAACCAACTCCCGAACCCAACCGACGAATCTCTGAATTACGTAAACCATGAGATCGATGT
* *
3489220 TTTGAGTTTCATAACTCAAGACAT
716 CTCGAGTTTCATAACTCAAGACAT
3489244 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTTGGT
1 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTTGGT
* *
3489309 CACTTCATAGTGACCATTAAAGATCGGTTAGATGGGCT-ATTCATCTACCGATCTTCCCCCTTTA
66 CACTTCGTAGTGACCATTGAAGATCGGTTAGATGGG-TGATTCATCTACCGATCTTCCCCCTTTA
3489373 ATCAACATACTTCCCATCATGCCATAAAAATCCCCAATCGCAAGGGATAGCAAGTCCAGCGCGCC
130 ATCAACATACTTCCCATCATGCCATAAAAATCCCCAATCGCAAGGGATAGCAAGTCCAGCGCGCC
3489438 TCATTTGCCCTATCGTCGGGGGTCGAGCGCACGTTACGACAGTTATTTTTTGAATAATCGAGGAC
195 TCATTTGCCCTATCGTCGGGGGTCGAGCGCACGTTACGACAGTTATTTTTTGAATAATCGAGGAC
3489503 AATTGCGAGACAAATTCTAATAGTATGTTCCTTCTCTTTATCATTGAATGATCAATGATCACTCA
260 AATTGCGAGACAAATTCTAATAGTATGTTCCTTCTCTTTATCATTGAATGATCAATGATCACTCA
*
3489568 CTTCCATATTTTCAAGATTTATTCTTAAAAATTATAAAGGTAATGTTCCGTGTCAGTATCTCTCT
325 CTTCCATATTTTCAAGATTTATTCTTAAAAATTATAAAGGTAATGTTCCATGTCAGTATCTCTCT
3489633 AGTGCTTGACACGGAATATCCAATTTTCAAAGTGAAATCCAGAGAGCATTTTATGTCTTTATGTT
390 AGTGCTTGACACGGAATATCCAATTTTCAAAGTGAAATCCAGAGAGCATTTTATGTCTTTATGTT
*
3489698 CCCCATCTCTCTGGGATTCATATGAGATTAAAATTTTTATCAAAACCTAGATTTATTGTTTTTAT
455 CCCCATCTCTCCGGGATTCATATGAGATTAAAATTTTTATCAAAACCTAGATTTATTGTTTTTAT
3489763 ACAAAATTCATACATTCAAAGGAGATCATATCGAACTAATGATAAACTGAAGCCAATGAAATCAA
520 ACAAAATTCATACATTCAAAGGAGATCATATCGAACTAATGATAAACTGAAGCCAATGAAATCAA
3489828 TATCGAGTCAAAACACATCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTTGTACCTCTT
585 TATCGAGTCAAAACACATCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTTGTACCTCTT
* * * *
3489893 TGCACGCAACCAACTCCCGAACCCAACC-AGTGAATCTCTTAATTATGTAGACCATGAGATCGAT
650 TGCACGCAACCAACTCCCGAACCCAACCGA-CGAATCTCTGAATTACGTAAACCATGAGATCGAT
** *
3489957 GTCTCGAGTTTTGTAACTCAAGATAT
714 GTCTCGAGTTTCATAACTCAAGACAT
* * *
3489983 AGATTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTTAGT
1 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTTGGT
* ** * * **
3490048 CACTTCGTCGTGACTGTCGAAGATCGCTTAGATGGGTGATTCATCTACCGATCTTTTCCCTTTCA
66 CACTTCGTAGTGACCATTGAAGATCGGTTAGATGGGTGATTCATCTACCGATCTTCCCCCTTT-A
* ** * * * ** ** * *
3490113 ATCAACATATTTCTTATCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTCGGGCACACC
130 ATCAACATACTTCCCATCATGCCATAAAAATCCCCAATCGCAAGGGATAGCAAGTCCAGCGCGCC
* *
3490178 TCATTTGCCCTATCGTC-GGGGTCGAGCGCATGTTGCGACA
195 TCATTTGCCCTATCGTCGGGGGTCGAGCGCACGTTACGACA
3490218 ATTTGCAATA
Statistics
Matches: 924, Mismatches: 46, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
738 2 0.00
739 850 0.92
740 72 0.08
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (739 bp):
AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTTGGT
CACTTCGTAGTGACCATTGAAGATCGGTTAGATGGGTGATTCATCTACCGATCTTCCCCCTTTAA
TCAACATACTTCCCATCATGCCATAAAAATCCCCAATCGCAAGGGATAGCAAGTCCAGCGCGCCT
CATTTGCCCTATCGTCGGGGGTCGAGCGCACGTTACGACAGTTATTTTTTGAATAATCGAGGACA
ATTGCGAGACAAATTCTAATAGTATGTTCCTTCTCTTTATCATTGAATGATCAATGATCACTCAC
TTCCATATTTTCAAGATTTATTCTTAAAAATTATAAAGGTAATGTTCCATGTCAGTATCTCTCTA
GTGCTTGACACGGAATATCCAATTTTCAAAGTGAAATCCAGAGAGCATTTTATGTCTTTATGTTC
CCCATCTCTCCGGGATTCATATGAGATTAAAATTTTTATCAAAACCTAGATTTATTGTTTTTATA
CAAAATTCATACATTCAAAGGAGATCATATCGAACTAATGATAAACTGAAGCCAATGAAATCAAT
ATCGAGTCAAAACACATCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTTGTACCTCTTT
GCACGCAACCAACTCCCGAACCCAACCGACGAATCTCTGAATTACGTAAACCATGAGATCGATGT
CTCGAGTTTCATAACTCAAGACAT
Found at i:3492588 original size:17 final size:17
Alignment explanation
Indices: 3492552--3492584 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3492542 GGATTTTCTA
*
3492552 AAATTAAAAATTAATAT
1 AAATTAAAAATTAAAAT
3492569 AAATT-AAAATTAAAAT
1 AAATTAAAAATTAAAAT
3492585 TAAAGATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTAAAAATTAAAAT
Found at i:3499437 original size:13 final size:13
Alignment explanation
Indices: 3499419--3499446 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3499409 CATTATTCAA
3499419 TGTATCGATACAT
1 TGTATCGATACAT
3499432 TGTATCGATACAT
1 TGTATCGATACAT
3499445 TG
1 TG
3499447 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3499443 original size:33 final size:33
Alignment explanation
Indices: 3499401--3499464 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
3499391 CAAGGAAATA
3499401 TATCGATACATT-ATTCAATGTATCGATACATTG
1 TATCGATACATTGA-TCAATGTATCGATACATTG
**
3499434 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
3499465 CTGGGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTG
Found at i:3501974 original size:13 final size:13
Alignment explanation
Indices: 3501956--3501981 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3501946 CAATTTTTTG
3501956 TGTATCGATACAT
1 TGTATCGATACAT
3501969 TGTATCGATACAT
1 TGTATCGATACAT
3501982 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3503099 original size:28 final size:28
Alignment explanation
Indices: 3502995--3503861 Score: 1068
Period size: 28 Copynumber: 30.0 Consensus size: 28
3502985 GAATGTTCAT
3502995 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3503023 CTCTTTTTAAAACCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3503052 CTCTTTTTAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
3503081 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3503109 CTCTTTTCAAAGCCCACAAGTTAGTGACA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
3503138 TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
3503166 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3503194 CCTTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
* *
3503224 CCCTTTCAAAGCCTACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3503252 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3503281 TCCTTTCAAAGCCCACAAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
3503309 CCCTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
*
3503339 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3503367 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
** *
3503396 TTCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3503424 CCCTTTCAAAGCCCACGTAAGTCAATGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
* *
3503454 CCTTTTCAAAGCCCACATAAGTTAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
*
3503484 CCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3503512 CCCTTTCAAAGCCCACAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3503540 CCCTTTCAAAGCCCACGTAAGTTAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
*
3503570 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3503598 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3503627 TCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
3503655 CCCTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
*
3503685 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
3503713 CTTTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3503742 CCCTTTCAAAGCTCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3503770 CCCTTTTAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * **
3503798 CTCTTTTCACAGCCCACACAAGTTGGTGGCAA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
* *
3503830 CTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGCA
3503861 C
1 C
3503862 TATTTTTTTT
Statistics
Matches: 748, Mismatches: 71, Indels: 37
0.87 0.08 0.04
Matches are distributed among these distances:
28 362 0.48
29 183 0.24
30 161 0.22
31 13 0.02
32 29 0.04
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3503221 original size:143 final size:141
Alignment explanation
Indices: 3502996--3503860 Score: 1162
Period size: 143 Copynumber: 6.0 Consensus size: 141
3502986 AATGTTCATC
* * * * *
3502996 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAACCCACAAATCAGTGGCACTCTTTTTA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCA
*
3503061 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
64 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
*
3503126 AAGTTAGTGACAT
129 AAGTTAGTGGCAT
3503139 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
* *
3503204 GCCCACGTAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCACTCTTTTCAAAGCCCAC
66 GCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
3503269 AAGTTAGTGGCAT
129 AAGTTAGTGGCAT
* *
3503282 CCTTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACGTAAGTCAGTGGCACCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCACCTTTTCA
* * * *
3503347 AAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATTC-TTTCAAAGCCCA
64 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA
*
3503411 CAAGTTAGTGGCAC
128 CAAGTTAGTGGCAT
* * *
3503425 CCTTTCAAAGCCCACGTAAGTCAATGGCACCTTTTCAAAGCCCACATAAGTTAGTGGCACCTTTT
1 CCTTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCACCTTTT
* *
3503490 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCAC-CCTTTCAAAGCCC
62 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
*
3503554 ACGTAAGTTAGTGGCAC
127 AC--AAGTTAGTGGCAT
* * * *
3503571 CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
*
3503636 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCAC-CCTTTCAAAGCCCA
65 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCACTCTTTTCAAAGCCCA
3503700 CAAGTTAGTGGCACT
128 CAAGTTAGTGGCA-T
** * *
3503715 TTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCATAAGTCAGTGGCACCCTTTT-AA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * * **
3503779 AGCCCATAAGTCAGTGGCACTCTTTTCACAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCC
65 AGCCCACAAGTCAGTGGCAC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAG-C
3503844 CACACAAGTTAGTGGCA
125 C-CACAAGTTAGTGGCA
3503861 CTATTTTTTT
Statistics
Matches: 654, Mismatches: 46, Indels: 39
0.88 0.06 0.05
Matches are distributed among these distances:
141 14 0.02
142 24 0.04
143 300 0.46
144 122 0.19
145 137 0.21
146 40 0.06
147 2 0.00
148 15 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (141 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
GTTAGTGGCAT
Found at i:3503278 original size:115 final size:115
Alignment explanation
Indices: 3502995--3503861 Score: 1296
Period size: 115 Copynumber: 7.5 Consensus size: 115
3502985 GAATGTTCAT
* * * * * *
3502995 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAACCCACAAATCAGTGGCACTCTTTTT
1 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
*
3503060 AAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
* * *
3503109 CTCTTTTCAAAGCCCACAAGTTAGTGACA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
1 C-CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*
3503173 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACGTAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
* * *
3503224 CCCTTTCAAAGCCTACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
*
3503289 AAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
* **
3503339 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATTCTTTCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* *
3503404 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGTAAGTCAATGGCA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
*
3503454 CCTTTTCAAAGCCCACATAAGTTAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
1 CCCTTTCAAAGCCCAC--AAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
* *
3503518 CAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACGTAAGTTAGTGGCA
64 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
* * *
3503570 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
3503635 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
*
3503685 CCCTTTCAAAGCCCACAAGTTAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * *
3503750 AAGCTCATAAGTCAGTGGCACCCTTTTAAAGCCCA--TAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
* * * *
3503798 CTCTTTTCACAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCAC
1 C-CCTTTCAAAG-CC-CACAAGTTAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGCAC
3503862 TATTTTTTTT
Statistics
Matches: 690, Mismatches: 50, Indels: 21
0.91 0.07 0.03
Matches are distributed among these distances:
113 53 0.08
114 71 0.10
115 418 0.61
116 106 0.15
117 25 0.04
118 2 0.00
119 15 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (115 bp):
CCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCA
Found at i:3504453 original size:20 final size:20
Alignment explanation
Indices: 3504425--3504498 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
3504415 TTTTACCCAG
3504425 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
3504445 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
3504465 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
3504485 ATGTATCGATACAT
1 ATGTATCGATACAT
3504499 CTAGTTAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3507866 original size:19 final size:21
Alignment explanation
Indices: 3507841--3507900 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
3507831 AGGTTCAACT
3507841 AAAAAAA-AGAAAGAAAAGAG
1 AAAAAAAGAGAAAGAAAAGAG
3507861 AAAAAAAGAGAAAGAAAAGAG
1 AAAAAAAGAGAAAGAAAAGAG
* *
3507882 AAAAGAAATAGAAACAAAA
1 AAAA-AAAGAGAAAGAAAA
3507901 AGGTAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.19
21 17 0.47
22 12 0.33
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAGAAAGAAAAGAG
Found at i:3507874 original size:16 final size:16
Alignment explanation
Indices: 3507845--3507900 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 16
3507835 TCAACTAAAA
3507845 AAAAGAAAGAAAAGAG
1 AAAAGAAAGAAAAGAG
*
3507861 AAAA-AAAGAGAA-AG
1 AAAAGAAAGAAAAGAG
3507875 AAAAG--AGAAAAGA-
1 AAAAGAAAGAAAAGAG
* *
3507888 AATAGAAACAAAA
1 AAAAGAAAGAAAA
3507901 AGGTAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 12 0.38
16 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (16 bp):
AAAAGAAAGAAAAGAG
Found at i:3507895 original size:11 final size:11
Alignment explanation
Indices: 3507843--3507889 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
3507833 GTTCAACTAA
*
3507843 AAAAAAGAAAG
1 AAAAGAGAAAG
3507854 AAAAGAGAAA-
1 AAAAGAGAAAG
3507864 AAAAGAGAAAG
1 AAAAGAGAAAG
3507875 AAAAGAGAAAAG
1 AAAAGAG-AAAG
3507887 AAA
1 AAA
3507890 TAGAAACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
10 10 0.30
11 16 0.48
12 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:3509749 original size:97 final size:96
Alignment explanation
Indices: 3509590--3509829 Score: 309
Period size: 97 Copynumber: 2.5 Consensus size: 96
3509580 AATTTTATTT
*
3509590 ATCGGGGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCC-ATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
**
3509655 GTTTAAATCTTATTCTCACTTAAATTGTCACC
65 GTTTAAATCTTATTCTCACAAAAATTGTCACC
* * * **
3509687 ATCGGGGACACTTCAACCTCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAATGCATCAAA
1 ATCGGGGACACTCCAACC-CATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAA
* **
3509752 GTTTAAATTTTATTCTCACAAAAATTGTCATT
65 GTTTAAATCTTATTCTCACAAAAATTGTCACC
* * * * *
3509784 ATCGAGGACACTCCAACCCCATTTCTCCAAGGAGATACTCTAACCC
1 ATCGGGGACACTCCAA-CCCATTCCTCCGAGGGGATACTCCAACCC
3509830 TGTTTTTTAA
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
97 120 0.98
98 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.28
Consensus pattern (96 bp):
ATCGGGGACACTCCAACCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAG
TTTAAATCTTATTCTCACAAAAATTGTCACC
Found at i:3514012 original size:22 final size:22
Alignment explanation
Indices: 3513982--3514033 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
3513972 TTTTTAGTTA
*
3513982 TAAGACCTCTAA-GAGAAATCTT
1 TAAGACCTCAAATG-GAAATCTT
* *
3514004 TAAGTCCTCAAATGGCAATCTT
1 TAAGACCTCAAATGGAAATCTT
3514026 TAAGACCT
1 TAAGACCT
3514034 TTATACATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (22 bp):
TAAGACCTCAAATGGAAATCTT
Found at i:3514435 original size:54 final size:53
Alignment explanation
Indices: 3514376--3514501 Score: 146
Period size: 53 Copynumber: 2.4 Consensus size: 53
3514366 GGTTTTTTTA
* * *
3514376 ATATGATTTGTTTAAAATATTCAGATATCATTTTAAAAACTCT-AGGTAGCTATG
1 ATATGATTTGTGTAAAAT-TACAAATATCATTTTAAAAACT-TAAGGTAGCTATG
** * * *
3514430 ATATGATTTGTGTAAGCTTACAAATATCATTTTAAAATCTTAAGGTATCTTTG
1 ATATGATTTGTGTAAAATTACAAATATCATTTTAAAAACTTAAGGTAGCTATG
*
3514483 ATATGATTGGTGTAAAATT
1 ATATGATTTGTGTAAAATT
3514502 TCTCGGCATA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.02
53 44 0.73
54 15 0.25
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (53 bp):
ATATGATTTGTGTAAAATTACAAATATCATTTTAAAAACTTAAGGTAGCTATG
Found at i:3514635 original size:22 final size:21
Alignment explanation
Indices: 3514581--3514648 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
3514571 AAACCTTGTA
3514581 TATCATTTCAAAACCTTCAAG
1 TATCATTTCAAAACCTTCAAG
3514602 TATCATTTCAAAACCTTCAAG
1 TATCATTTCAAAACCTTCAAG
* *
3514623 TATCATTTTCAAAACCTCCGAG
1 TATCA-TTTCAAAACCTTCAAG
3514645 TATC
1 TATC
3514649 TTTAGTATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 26 0.59
22 18 0.41
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (21 bp):
TATCATTTCAAAACCTTCAAG
Found at i:3517144 original size:10 final size:9
Alignment explanation
Indices: 3517130--3517171 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
3517120 TTTAAATTTA
3517130 AAAAAATAT
1 AAAAAATAT
3517139 ATAAAAATAT
1 A-AAAAATAT
**
3517149 TCAAAA-AT
1 AAAAAATAT
3517157 AAAAAATAT
1 AAAAAATAT
3517166 AAAAAA
1 AAAAAA
3517172 AATACAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 13 0.48
10 8 0.30
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATAT
Found at i:3517405 original size:36 final size:37
Alignment explanation
Indices: 3517358--3517430 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
3517348 GAAATAGGTG
*
3517358 ATTTCATTTTATATTTTTATTTTTAAATTATG-ATAA
1 ATTTCATTTTATATTTTTATCTTTAAATTATGTATAA
3517394 ATTTCATTTTATATTTTTATCTTTAAATTATGTATAA
1 ATTTCATTTTATATTTTTATCTTTAAATTATGTATAA
3517431 TTCTTACTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 31 0.89
37 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (37 bp):
ATTTCATTTTATATTTTTATCTTTAAATTATGTATAA
Found at i:3517656 original size:124 final size:123
Alignment explanation
Indices: 3517431--3517658 Score: 273
Period size: 124 Copynumber: 1.8 Consensus size: 123
3517421 TTATGTATAA
* * * * * *
3517431 TTCTTACTAGATTATTAAATTTCTTAAATATTTTGATATCATATATTATAGTTTTATTTACCTTT
1 TTCTTACTAGATTACTAAATTTCTTAAATAGTTTCATAACATATATTATAATTTCATTTACCTTT
* *
3517496 TGAATATGTGATAAAAAGAATTGTGTAAATTTCATTTTACATTTTTTTATACATATTT
66 TAAATATGTGATAAAAAGAATTGTATAAATTTCATTTTACATTTTTTTATACATATTT
* * * *
3517554 TTCTTACTAGATTACTAAATTTTTTTAAATGGTTTCATAACATATCTTGTAATTTCATTTACCTT
1 TTCTTACTAGATTACTAAA-TTTCTTAAATAGTTTCATAACATATATTATAATTTCATTTACCTT
* *
3517619 TGTAAATA-GATGATAAGAAA-ACTT-TATAATTTTCATTTTA
65 T-TAAATATG-TGATAA-AAAGAATTGTATAAATTTCATTTTA
3517659 TATCTATTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
123 18 0.21
124 52 0.60
125 14 0.16
126 3 0.03
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (123 bp):
TTCTTACTAGATTACTAAATTTCTTAAATAGTTTCATAACATATATTATAATTTCATTTACCTTT
TAAATATGTGATAAAAAGAATTGTATAAATTTCATTTTACATTTTTTTATACATATTT
Found at i:3519091 original size:27 final size:27
Alignment explanation
Indices: 3519053--3519107 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3519043 CACTCGTAGA
*
3519053 TGTAAATTTATATTTGAGGAAAAATAC
1 TGTAAATTTATATTTAAGGAAAAATAC
3519080 TGTAAATTTATATTTAAGGAAAAATAC
1 TGTAAATTTATATTTAAGGAAAAATAC
3519107 T
1 T
3519108 AGTTTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (27 bp):
TGTAAATTTATATTTAAGGAAAAATAC
Found at i:3519242 original size:19 final size:19
Alignment explanation
Indices: 3519206--3519256 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 19
3519196 TAAATATAAA
*
3519206 AATTAATATTCTATTATTT
1 AATTAATATTCTAATATTT
3519225 AATTAATTATT-TAATATTAT
1 AATTAA-TATTCTAATATT-T
3519245 AAATTGAATATT
1 -AATT-AATATT
3519257 ATATAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 12 0.44
20 5 0.19
21 8 0.30
22 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
AATTAATATTCTAATATTT
Found at i:3519996 original size:13 final size:13
Alignment explanation
Indices: 3519978--3520003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3519968 TACACCAAGT
3519978 ATGTATCGATACA
1 ATGTATCGATACA
3519991 ATGTATCGATACA
1 ATGTATCGATACA
3520004 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3522223 original size:21 final size:21
Alignment explanation
Indices: 3522190--3522234 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3522180 TTGCAAGTTG
*
3522190 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3522212 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3522232 AAA
1 AAA
3522235 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3524062 original size:16 final size:15
Alignment explanation
Indices: 3524029--3524058 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3524019 GAGCAAGATA
*
3524029 AAAATGAGGAAGCTC
1 AAAATGAAGAAGCTC
3524044 AAAATGAAGAAGCTC
1 AAAATGAAGAAGCTC
3524059 CAAACGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AAAATGAAGAAGCTC
Found at i:3526155 original size:13 final size:13
Alignment explanation
Indices: 3526137--3526175 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
3526127 ACATTTTTCT
3526137 TTGTATCGATACA
1 TTGTATCGATACA
3526150 TTGTATCGATACA
1 TTGTATCGATACA
3526163 TTGTATCGATACA
1 TTGTATCGATACA
3526176 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3526339 original size:20 final size:20
Alignment explanation
Indices: 3526296--3526341 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3526286 AAATCTTTTG
3526296 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3526317 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3526337 CAAAA
1 CAAAA
3526342 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3528737 original size:13 final size:13
Alignment explanation
Indices: 3528719--3528744 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3528709 TACACCAAGT
3528719 ATGTATCGATACA
1 ATGTATCGATACA
3528732 ATGTATCGATACA
1 ATGTATCGATACA
3528745 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3537127 original size:12 final size:12
Alignment explanation
Indices: 3537110--3537143 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3537100 TAACACAAAA
*
3537110 TTATATTATTAG
1 TTATATTATTAC
3537122 TTATATTATTAC
1 TTATATTATTAC
3537134 TTAATATTAT
1 TT-ATATTAT
3537144 ATTATCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (12 bp):
TTATATTATTAC
Found at i:3545466 original size:9 final size:9
Alignment explanation
Indices: 3545452--3545491 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
3545442 TCTTTGTATA
3545452 TTAGGTGTG
1 TTAGGTGTG
3545461 TTAGGTG-G
1 TTAGGTGTG
3545469 -T-GGTGTG
1 TTAGGTGTG
*
3545476 TTAGTTGTG
1 TTAGGTGTG
3545485 TTAGGTG
1 TTAGGTG
3545492 AGAATATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
6 4 0.15
7 2 0.08
8 2 0.08
9 18 0.69
ACGTcount: A:0.10, C:0.00, G:0.45, T:0.45
Consensus pattern (9 bp):
TTAGGTGTG
Found at i:3545519 original size:34 final size:34
Alignment explanation
Indices: 3545467--3545550 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 34
3545457 TGTGTTAGGT
* *
3545467 GGTGGTGTGTTAGTTGTGTTAGGTGAGAATATTA
1 GGTGGTGTGTTAGGTGTGTTAGATGAGAATATTA
*
3545501 GGTGGTGTATTAGGTGTGTTAGATGAGAATATTA
1 GGTGGTGTGTTAGGTGTGTTAGATGAGAATATTA
3545535 GGTGGTGTGTTAGGTG
1 GGTGGTGTGTTAGGTG
3545551 AGCATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.39
Consensus pattern (34 bp):
GGTGGTGTGTTAGGTGTGTTAGATGAGAATATTA
Found at i:3548870 original size:88 final size:88
Alignment explanation
Indices: 3548772--3548950 Score: 331
Period size: 88 Copynumber: 2.0 Consensus size: 88
3548762 TGACACATGA
* *
3548772 TGACTCATGGATTATGCCATTTTTTTGAAAATAGTAGTCTCTAGCATTGTTAGACCTTAGTCTTT
1 TGACTCATGGATTATGCCATTTTTTTAAAAATAGTAGTCTCTAGCATTGTTAGACCTGAGTCTTT
3548837 TTATTATAACACCTAACTGATTT
66 TTATTATAACACCTAACTGATTT
*
3548860 TGACTCATGGATTATGCCCTTTTTTTAAAAATAGTAGTCTCTAGCATTGTTAGACCTGAGTCTTT
1 TGACTCATGGATTATGCCATTTTTTTAAAAATAGTAGTCTCTAGCATTGTTAGACCTGAGTCTTT
3548925 TTATTATAACACCTAACTGATTT
66 TTATTATAACACCTAACTGATTT
3548948 TGA
1 TGA
3548951 ACCATATTAT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (88 bp):
TGACTCATGGATTATGCCATTTTTTTAAAAATAGTAGTCTCTAGCATTGTTAGACCTGAGTCTTT
TTATTATAACACCTAACTGATTT
Found at i:3553984 original size:23 final size:21
Alignment explanation
Indices: 3553958--3554007 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 21
3553948 TTAAATATTC
3553958 TTAATATATTTTTATATATTAAA
1 TTAATATATTTTTA-ATA-TAAA
3553981 TTAATTATATTTTTAATATAAA
1 TTAA-TATATTTTTAATATAAA
3554003 -TAATA
1 TTAATA
3554008 AAATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 4 0.15
23 7 0.27
24 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAATATATTTTTAATATAAA
Found at i:3554222 original size:21 final size:21
Alignment explanation
Indices: 3554198--3554241 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3554188 CAAAATTCTT
*
3554198 TTTTTATATAAAT-ATTTTTTA
1 TTTTT-TATAAATAATTATTTA
*
3554219 TTTTTTATTAATAATTATTTA
1 TTTTTTATAAATAATTATTTA
3554240 TT
1 TT
3554242 AAAATAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTATAAATAATTATTTA
Found at i:3555397 original size:16 final size:16
Alignment explanation
Indices: 3555320--3555402 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
3555310 TTCAGGTTGC
* * *
3555320 TTTTGGATTTGGATCG
1 TTTTGGGTTCGGATCA
3555336 TTTTGGGTTCAGG-TCA
1 TTTTGGGTTC-GGATCA
* ** * *
3555352 CTTAAGGTTAGGGTCA
1 TTTTGGGTTCGGATCA
* *
3555368 TTTTGGATTTGGATCA
1 TTTTGGGTTCGGATCA
*
3555384 TTTTGGGTTCGGATTA
1 TTTTGGGTTCGGATCA
3555400 TTT
1 TTT
3555403 CAAGTTTAGG
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
15 2 0.04
16 45 0.92
17 2 0.04
ACGTcount: A:0.16, C:0.08, G:0.29, T:0.47
Consensus pattern (16 bp):
TTTTGGGTTCGGATCA
Found at i:3559011 original size:31 final size:31
Alignment explanation
Indices: 3558968--3559036 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
3558958 CAATGTGTCG
*
3558968 ATACATTTTGTCTTTTTACCTAGATGTATCA
1 ATACATTATGTCTTTTTACCTAGATGTATCA
** *
3558999 ATACATTATGTCTTTTTTTCTAGATGTATCG
1 ATACATTATGTCTTTTTACCTAGATGTATCA
3559030 ATACATT
1 ATACATT
3559037 TCTTAATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.49
Consensus pattern (31 bp):
ATACATTATGTCTTTTTACCTAGATGTATCA
Found at i:3564103 original size:16 final size:16
Alignment explanation
Indices: 3564082--3564123 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
3564072 GTGGAGTTTA
*
3564082 ATTTTTCATTCACTAT
1 ATTTTTAATTCACTAT
3564098 ATTTTTAATTCACTAT
1 ATTTTTAATTCACTAT
3564114 ATTTTTAATT
1 ATTTTTAATT
3564124 TGCTTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTAATTCACTAT
Found at i:3565263 original size:227 final size:227
Alignment explanation
Indices: 3564864--3565294 Score: 781
Period size: 227 Copynumber: 1.9 Consensus size: 227
3564854 CCTTACTAGC
3564864 AATGTTTTGACTCGATATTGGTTACATTGGTTTCGATTCAACATTATTTCAATATGATCCTCAAA
1 AATGTTTTGACTCGATATTGGTTACATTGGTTTCGATTCAACATTATTTCAATATGATCCTCAAA
3564929 TGCATGAATTTTGTATTAAAAACAAATTCGGGTTTTTGACAAACGTTTTCATCTCATATGCACCC
66 TGCATGAATTTTGTATTAAAAACAAATTCGGGTTTTTGACAAACGTTTTCATCTCATATGCACCC
* * *
3564994 CGGAGAAATGGGGAACATAGAGACATAAAATGCTCTCAGGATTTCACTTTGAAAACTGGATATTC
131 CCGAGAAATGGGGAACATAGAGACATAAAATACTCACAGGATTTCACTTTGAAAACTGGATATTC
3565059 CATGTCAAGTTATTGGTTACATAAAGACATAA
196 CATGTCAAGTTATTGGTTACATAAAGACATAA
*
3565091 AATGTTTTGACTCGATATTGGTTACGTTGGTTTCGATTCAACATTATTTCAATATGATCCTCAAA
1 AATGTTTTGACTCGATATTGGTTACATTGGTTTCGATTCAACATTATTTCAATATGATCCTCAAA
* * *
3565156 TGCATGAATTTTGTATTAAAAATAAATTCGGGTTTTTGATAAACGTTTTCATCTCATATGCGCCC
66 TGCATGAATTTTGTATTAAAAACAAATTCGGGTTTTTGACAAACGTTTTCATCTCATATGCACCC
3565221 CCGAGAAATGGGGAACATAGAGACATAAAATACTCACAGGATTTCACTTTGAAAACTGGATATTC
131 CCGAGAAATGGGGAACATAGAGACATAAAATACTCACAGGATTTCACTTTGAAAACTGGATATTC
**
3565286 TGTGTCAAG
196 CATGTCAAG
3565295 CACTGGAGAG
Statistics
Matches: 195, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
227 195 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (227 bp):
AATGTTTTGACTCGATATTGGTTACATTGGTTTCGATTCAACATTATTTCAATATGATCCTCAAA
TGCATGAATTTTGTATTAAAAACAAATTCGGGTTTTTGACAAACGTTTTCATCTCATATGCACCC
CCGAGAAATGGGGAACATAGAGACATAAAATACTCACAGGATTTCACTTTGAAAACTGGATATTC
CATGTCAAGTTATTGGTTACATAAAGACATAA
Found at i:3567968 original size:13 final size:13
Alignment explanation
Indices: 3567950--3567974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3567940 ACAAAGATCA
3567950 ATGTATCGATACT
1 ATGTATCGATACT
3567963 ATGTATCGATAC
1 ATGTATCGATAC
3567975 ATTGAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACT
Found at i:3567972 original size:33 final size:33
Alignment explanation
Indices: 3567930--3567994 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3567920 AAATTCCCAG
3567930 ATGTATCGATACAAAG-ATCAATGTATCGATACT
1 ATGTATCGATACAAAGAAT-AATGTATCGATACT
**
3567963 ATGTATCGATACATTGAATAATGTATCGATAC
1 ATGTATCGATACAAAGAATAATGTATCGATAC
3567995 ATTTCCTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACT
Found at i:3568759 original size:49 final size:49
Alignment explanation
Indices: 3568687--3568922 Score: 225
Period size: 49 Copynumber: 4.9 Consensus size: 49
3568677 AAGAGTGATA
* * * *
3568687 AAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTAAAGATG
1 AAGGTGCTAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATG
* * *
3568736 AAGGTGCTAATGTGCTGATTCAAGGCCAATAACATTGGACTTAAAGATG
1 AAGGTGCTAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATG
* *
3568785 ACAAAG-GCGTCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
1 --AAGGTGC-T-AATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATG
* * *** *
3568837 AAGGTGCTAATGTGTTGATTCAAGGCCAGCAACATTGGACTT----A--
1 AAGGTGCTAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATG
* **
3568880 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGTGCTAATATGCTGATTCAAGGCCAATGATATTGGACTTA
3568923 GAATGCCACC
Statistics
Matches: 158, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
43 37 0.23
45 1 0.01
49 71 0.45
50 6 0.04
51 6 0.04
52 37 0.23
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (49 bp):
AAGGTGCTAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATG
Found at i:3568861 original size:101 final size:101
Alignment explanation
Indices: 3568694--3568882 Score: 315
Period size: 101 Copynumber: 1.9 Consensus size: 101
3568684 ATAAAGGTGC
** *
3568694 CAATATGCTGATTCAAGACCAGTGATATTGGGCTTAAAGATGAAGGTGCTAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGACCAACGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAA
*
3568759 GGCCAATAACATTGGACTTAAAGATGACAAAGGCGT
66 GGCCAACAACATTGGACTTAAAGATGACAAAGGCGT
* *
3568795 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCTAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGACCAACGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAA
*
3568860 GGCCAGCAACATTGGACTTAAAG
66 GGCCAACAACATTGGACTTAAAG
3568883 GTGCCAATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 81 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.26
Consensus pattern (101 bp):
CAATATGCTGATTCAAGACCAACGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAA
GGCCAACAACATTGGACTTAAAGATGACAAAGGCGT
Done.