Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015269.1 Kokia drynarioides strain JFW-HI SEQ_130314, whole genome shotgun sequence
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: 664642
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 122 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:186 original size:18 final size:18
Alignment explanation
Indices: 165--204 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
155 TCAGTATTAA
* *
165 TAATAGTCATAATGACAT
1 TAATAGTAATAATAACAT
*
183 TAATGGTAATAATAACAT
1 TAATAGTAATAATAACAT
201 TAAT
1 TAAT
205 TAATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (18 bp):
TAATAGTAATAATAACAT
Found at i:3129 original size:2 final size:2
Alignment explanation
Indices: 3122--3146 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3112 AAAATTATGA
3122 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3147 CATGTATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3435 original size:37 final size:37
Alignment explanation
Indices: 3380--3707 Score: 388
Period size: 37 Copynumber: 8.8 Consensus size: 37
3370 CATCTAAAAA
* * * *
3380 TTCAAGCTATATGCCTAGTAGGCTTTGTGCCAGTGAT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTT
* *
3417 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCTGTGAT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTT
*
3454 TTCAAGCTATGTGCCTAGTAGGCTTCGTGCC-GTTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAG-TGTT
3491 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTG-TT
* * * * *
3529 TTTAAGCTTTGTGCCTAGTAGGCTTCATGTCAGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTT
* * * *
3566 TTCAGGTTTTGTACCTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTT
** * ***
3603 TTCAGGCTATGTATCTAGTAGGTTTCGTGTTGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTT
* * *
3640 TTCAGGCTATGTGCCTAGTAAGCTTCATTCCAGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTT
* *
3677 TTCAGGCTATGTGCCTAGCAGGCTTTGTGCC
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCC
3708 GGTAATCCAA
Statistics
Matches: 249, Mismatches: 39, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
36 1 0.00
37 215 0.86
38 33 0.13
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.38
Consensus pattern (37 bp):
TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCAGTGTT
Found at i:3653 original size:149 final size:148
Alignment explanation
Indices: 3380--3701 Score: 419
Period size: 149 Copynumber: 2.2 Consensus size: 148
3370 CATCTAAAAA
* ** *
3380 TTCAAGCTATATGCCTAGTAGGCTTTGTGCCAGTGATTTCAGGCTATGTGCCTAGTAGGCTTCGT
1 TTCAAGCTATGTGCCTAGTAGGCTTCATGCCAGTGATTTCAGGCTATGTACCTAGTAGGCTTCGT
* * *
3445 GCCTGTGATTTCAAGCTATGTGCCTAGTAGGCTTCGTGCCGTTGTTTTCAGGCTATGTGCCTAGT
66 GCCGGTGATTTCAAGCTATGTACCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTATGTGCCTAGT
* *
3510 AGGCTTCGTGCCAGTGTTT
131 AAGCTTCATGCCAGTG-TT
* * * * * *
3529 TTTAAGCTTTGTGCCTAGTAGGCTTCATGTCAGTGTTTTCAGGTTTTGTACCTAGTAGGCTTCGT
1 TTCAAGCTATGTGCCTAGTAGGCTTCATGCCAGTGATTTCAGGCTATGTACCTAGTAGGCTTCGT
* * * * **
3594 GCCGGTGTTTTCAGGCTATGTATCTAGTAGGTTTCGTGTTGGTGTTTTCAGGCTATGTGCCTAGT
66 GCCGGTGATTTCAAGCTATGTACCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTATGTGCCTAGT
*
3659 AAGCTTCATTCCAGTGTT
131 AAGCTTCATGCCAGTGTT
* *
3677 TTCAGGCTATGTGCCTAGCAGGCTT
1 TTCAAGCTATGTGCCTAGTAGGCTT
3702 TGTGCCGGTA
Statistics
Matches: 147, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
148 23 0.16
149 124 0.84
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.39
Consensus pattern (148 bp):
TTCAAGCTATGTGCCTAGTAGGCTTCATGCCAGTGATTTCAGGCTATGTACCTAGTAGGCTTCGT
GCCGGTGATTTCAAGCTATGTACCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTATGTGCCTAGT
AAGCTTCATGCCAGTGTT
Found at i:8867 original size:19 final size:19
Alignment explanation
Indices: 8843--8880 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8833 AACTGAACTG
8843 AACTATTGA-CTGTTGACTT
1 AACTATTGATCT-TTGACTT
8862 AACTATTGATCTTTGACTT
1 AACTATTGATCTTTGACTT
8881 TTTGGGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (19 bp):
AACTATTGATCTTTGACTT
Found at i:13845 original size:41 final size:41
Alignment explanation
Indices: 13795--14134 Score: 272
Period size: 41 Copynumber: 8.6 Consensus size: 41
13785 AAACGACGTA
**
13795 AAAGGT-AGAGCAATAGCAACGCTTATGGGAAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* *
13835 AAAAGTTAGAGCAATAGCGGCGCTTAT----------C-CT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* *
13865 AAAGGTCAGAGCAATAGCGGCGCTTATTGGCAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * * ** ** *
13906 AAATGTGAGATCAATAGCTCCGCTTATGATAAAGAGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* ** * *
13947 AAAGGTTAGAGCAATAGTAGCGCTTATGAGAAAGCCCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * * *
13988 AAAGGTCAGATCAATAGCGGCACTTATGGGCAAGCGTCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
** ** * *
14029 AAAGGTCAGATTAATAGCAACGCTTATGGGCAAGCGCCGTT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
** * *
14070 AAAGGTCAGAGCAATAGCGATGCTTATGAGAAAGCGCCGGT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * *
14111 AAAGGTTAGAGCAGTAACGGCGCT
1 AAAGGTCAGAGCAATAGCGGCGCT
14135 AAAAGTCAGA
Statistics
Matches: 237, Mismatches: 51, Indels: 23
0.76 0.16 0.07
Matches are distributed among these distances:
30 27 0.11
31 1 0.00
40 6 0.03
41 203 0.86
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.19
Consensus pattern (41 bp):
AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
Found at i:13867 original size:30 final size:30
Alignment explanation
Indices: 13833--13891 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
13823 GAAAGCGCCG
*
13833 CTAAAAGTTAGAGCAATAGCGGCGCTTATC
1 CTAAAAGTCAGAGCAATAGCGGCGCTTATC
*
13863 CTAAAGGTCAGAGCAATAGCGGCGCTTAT
1 CTAAAAGTCAGAGCAATAGCGGCGCTTAT
13892 TGGCAAGCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (30 bp):
CTAAAAGTCAGAGCAATAGCGGCGCTTATC
Found at i:13879 original size:71 final size:70
Alignment explanation
Indices: 13795--13932 Score: 186
Period size: 71 Copynumber: 2.0 Consensus size: 70
13785 AAACGACGTA
* *
13795 AAAGGTAGAGCAATAGCAACGCTTATGGGAAAGCGCCGCTAAAAGTTAGAGCAATAGCGGCGCTT
1 AAAGGTAGAGCAATAGCAACGCTTATGGGAAAGCGCCGCTAAAAGTGAGAGCAATAGCGCCGCTT
13860 ATCCT
66 ATCCT
** * * * * *
13865 AAAGGTCAGAGCAATAGCGGCGCTTATTGGCAAGCGCCGCTAAATGTGAGATCAATAGCTCCGCT
1 AAAGGT-AGAGCAATAGCAACGCTTATGGGAAAGCGCCGCTAAAAGTGAGAGCAATAGCGCCGCT
13930 TAT
65 TAT
13933 GATAAAGAGC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
70 6 0.10
71 52 0.90
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (70 bp):
AAAGGTAGAGCAATAGCAACGCTTATGGGAAAGCGCCGCTAAAAGTGAGAGCAATAGCGCCGCTT
ATCCT
Found at i:14082 original size:123 final size:123
Alignment explanation
Indices: 13863--14123 Score: 326
Period size: 123 Copynumber: 2.1 Consensus size: 123
13853 GGCGCTTATC
* * * * **
13863 CTAAAGGTCAGAGCAATAGCGGCGCTTATTGGCAAGCGCCGCTAAATGTGAGATCAATAGCTCCG
1 CTAAAGGTCAGAGCAATAGCGGCACTTATGGGCAAGCGCCGCTAAAGGTCAGATCAATAGCAACG
* *
13928 CTTATGATAAAGAGCCGCTAAAGGTTAGAGCAATAGTAG-CGCTTATGAGAAAGCCCCG
66 CTTATGAGAAAGAGCCGCTAAAGGTCAGAGCAATAG-AGACGCTTATGAGAAAGCCCCG
* * *
13986 CTAAAGGTCAGATCAATAGCGGCACTTATGGGCAAGCGTCGCTAAAGGTCAGATTAATAGCAACG
1 CTAAAGGTCAGAGCAATAGCGGCACTTATGGGCAAGCGCCGCTAAAGGTCAGATCAATAGCAACG
* * * * * * *
14051 CTTATGGGCAAGCGCCGTTAAAGGTCAGAGCAATAGCGATGCTTATGAGAAAGCGCCG
66 CTTATGAGAAAGAGCCGCTAAAGGTCAGAGCAATAGAGACGCTTATGAGAAAGCCCCG
* *
14109 GTAAAGGTTAGAGCA
1 CTAAAGGTCAGAGCA
14124 GTAACGGCGC
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
122 1 0.01
123 115 0.99
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (123 bp):
CTAAAGGTCAGAGCAATAGCGGCACTTATGGGCAAGCGCCGCTAAAGGTCAGATCAATAGCAACG
CTTATGAGAAAGAGCCGCTAAAGGTCAGAGCAATAGAGACGCTTATGAGAAAGCCCCG
Found at i:14245 original size:54 final size:53
Alignment explanation
Indices: 14139--14245 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
14129 GGCGCTAAAA
* * *
14139 GTCAGAGCAATAGCGACGCTTATGGGCAAACGCCGCTAAAGGTTACATCAATAT
1 GTCAGAGCAATAGCGACGCTTAT-GGCAAAAGCCGCTAAAGGTCACAGCAATAT
* * *
14193 GTCAGAGCAATAGCGGCGCTTAT-GTAAAAGCACAGCTAAAGGTCAGAGCAATA
1 GTCAGAGCAATAGCGACGCTTATGGCAAAAGC-C-GCTAAAGGTCACAGCAATA
14246 GTGATGCTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 6 0.13
53 1 0.02
54 38 0.84
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (53 bp):
GTCAGAGCAATAGCGACGCTTATGGCAAAAGCCGCTAAAGGTCACAGCAATAT
Found at i:19172 original size:52 final size:52
Alignment explanation
Indices: 19083--19326 Score: 407
Period size: 52 Copynumber: 4.7 Consensus size: 52
19073 ATTTCATTTC
* **
19083 ATTCATATACTCACGATGACACATAGCCACCAAACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* *
19135 ATTCATATACTCACGATGACACATAACCATCGGACCTCATAATTCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* *
19187 ATTCATATACTCACGATGACACATAGCCGTCGGACCTCATAATCTGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
19239 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAAG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
19291 ATTCATATACTTACGATGACACATAGCCATCGGACC
1 ATTCATATACTCACGATGACACATAGCCATCGGACC
19327 CTTTTTCATT
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 179 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
Found at i:21420 original size:22 final size:22
Alignment explanation
Indices: 21394--21451 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
21384 TATACTAAAT
21394 TTTAATTCAATAATTAAAATTC
1 TTTAATTCAATAATTAAAATTC
21416 TTTAATTCAATAATTAAAATTC
1 TTTAATTCAATAATTAAAATTC
21438 TTTAATTCAA-AATT
1 TTTAATTCAATAATT
21452 TCATATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.11
22 32 0.89
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTAATTCAATAATTAAAATTC
Found at i:27223 original size:21 final size:21
Alignment explanation
Indices: 27194--27244 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
27184 CTACAACTTA
*
27194 AAGCGAAGGCAACAGCGAGGG
1 AAGCGAAGGCAACAGCGAGGC
*
27215 AAGCAAAGGCAACAGCGAGGC
1 AAGCGAAGGCAACAGCGAGGC
27236 AAGCGAAGG
1 AAGCGAAGG
27245 AAGCAGAGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.39, T:0.00
Consensus pattern (21 bp):
AAGCGAAGGCAACAGCGAGGC
Found at i:27671 original size:43 final size:43
Alignment explanation
Indices: 27623--27736 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
27613 GAAAGTGTCG
* * * *
27623 CTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGGTAAGCGCCA
1 CTAAAGACCATGTTCTTTAGCGGCGTTTGTAGGGAAAACGCCA
* *
27666 TTAAAGACCATGTTCTTTAGCGGCGTTTGTAGGGAAAACGCCG
1 CTAAAGACCATGTTCTTTAGCGGCGTTTGTAGGGAAAACGCCA
*
27709 CTAAAAACCATGTTCTTTAGCGGCGTTT
1 CTAAAGACCATGTTCTTTAGCGGCGTTT
27737 ATGAGAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
CTAAAGACCATGTTCTTTAGCGGCGTTTGTAGGGAAAACGCCA
Found at i:27755 original size:43 final size:43
Alignment explanation
Indices: 27622--27773 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 43
27612 GGAAAGTGTC
* * * ** **
27622 GCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGGTAAGCGCCA
1 GCTAAAGACCATGTTCTTTAGCGGCGTTTATAGGAAAAAAG-CA
* * * * *
27666 -TTAAAGACCATGTTCTTTAGCGGCGTTTGTAGGGAAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGTTTATAGGAAAAAAGCA
* *
27708 GCTAAAAACCATGTTCTTTAGCGGCGTTTAT-GAGAAAAAAGTA
1 GCTAAAGACCATGTTCTTTAGCGGCGTTTATAG-GAAAAAAGCA
*
27751 GCTAAAGACCATGTTCTATAGCG
1 GCTAAAGACCATGTTCTTTAGCG
27774 TCATTTTTTC
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
42 2 0.02
43 89 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
GCTAAAGACCATGTTCTTTAGCGGCGTTTATAGGAAAAAAGCA
Found at i:36355 original size:19 final size:19
Alignment explanation
Indices: 36331--36391 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
36321 AAGAAAGGTA
36331 AACTTATCTCTGCAATTTC
1 AACTTATCTCTGCAATTTC
* * ** *
36350 AACTTATCTGCAGAAAGGTA
1 AACTTATCT-CTGCAATTTC
36370 AACTTATCTCTGCAATTTC
1 AACTTATCTCTGCAATTTC
36389 AAC
1 AAC
36392 ATATTTATCA
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (19 bp):
AACTTATCTCTGCAATTTC
Found at i:36375 original size:20 final size:20
Alignment explanation
Indices: 36310--36378 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
36300 TTGCAAATTC
36310 AACTTATCTGCAAGAAAGGTA
1 AACTTATCTGC-AGAAAGGTA
* * ** *
36331 AACTTATCT-CTGCAATTTC
1 AACTTATCTGCAGAAAGGTA
36350 AACTTATCTGCAGAAAGGTA
1 AACTTATCTGCAGAAAGGTA
36370 AACTTATCT
1 AACTTATCT
36379 CTGCAATTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
19 13 0.35
20 15 0.41
21 9 0.24
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (20 bp):
AACTTATCTGCAGAAAGGTA
Found at i:36376 original size:39 final size:40
Alignment explanation
Indices: 36301--36391 Score: 166
Period size: 39 Copynumber: 2.3 Consensus size: 40
36291 CAATTTACTT
*
36301 TGCAAATTCAACTTATCTGCAAGAAAGGTAAACTTATCTC
1 TGCAATTTCAACTTATCTGCAAGAAAGGTAAACTTATCTC
36341 TGCAATTTCAACTTATCTGC-AGAAAGGTAAACTTATCTC
1 TGCAATTTCAACTTATCTGCAAGAAAGGTAAACTTATCTC
36380 TGCAATTTCAAC
1 TGCAATTTCAAC
36392 ATATTTATCA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 31 0.62
40 19 0.38
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (40 bp):
TGCAATTTCAACTTATCTGCAAGAAAGGTAAACTTATCTC
Found at i:39565 original size:17 final size:17
Alignment explanation
Indices: 39543--39575 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
39533 CAAACACTTA
39543 TTAAATTAAAA-TAAAAC
1 TTAAA-TAAAATTAAAAC
39560 TTAAATAAAATTAAAA
1 TTAAATAAAATTAAAA
39576 AATCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAATAAAATTAAAAC
Found at i:47186 original size:7 final size:7
Alignment explanation
Indices: 47174--47205 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
47164 GATTTAACTG
47174 TCATATT
1 TCATATT
47181 TCATATT
1 TCATATT
47188 TCATATT
1 TCATATT
47195 TCATATT
1 TCATATT
47202 TCAT
1 TCAT
47206 TCATATAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (7 bp):
TCATATT
Found at i:48182 original size:20 final size:18
Alignment explanation
Indices: 48159--48201 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
48149 ATTGACTTTC
48159 ATTTGAGCACTTTTGCAAAG
1 ATTTGAGCA-TTTTG-AAAG
*
48179 ATTTGATCATTTTGAAAG
1 ATTTGAGCATTTTGAAAG
*
48197 GTTTG
1 ATTTG
48202 GCTCTTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 8 0.38
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (18 bp):
ATTTGAGCATTTTGAAAG
Found at i:54070 original size:54 final size:51
Alignment explanation
Indices: 53999--54146 Score: 139
Period size: 50 Copynumber: 2.9 Consensus size: 51
53989 ATGAACAAAC
*
53999 ATTTATGATTATGTAAAAAACA-CTAAATCTTAAACAAAA-ACAATTTAAATAAAT
1 ATTTAT-ATTATTTAAAAAACATC-AAAT-TTAAACAAAATA-AA-TTAAATAAAT
*
54053 ATTTATATCTATTT--AAAACATCATATTTAAACAAAATAAATTAAATAAAT
1 ATTTATAT-TATTTAAAAAACATCAAATTTAAACAAAATAAATTAAATAAAT
* * *
54103 ATTTATATTTATTT--AAAACTTCAAATCTAAA-AAAATTAATTAAA
1 ATTTATA-TTATTTAAAAAACATCAAATTTAAACAAAATAAATTAAA
54147 ATAAGATCTG
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
49 12 0.14
50 36 0.43
51 13 0.15
52 10 0.12
53 3 0.04
54 10 0.12
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.36
Consensus pattern (51 bp):
ATTTATATTATTTAAAAAACATCAAATTTAAACAAAATAAATTAAATAAAT
Found at i:54150 original size:50 final size:50
Alignment explanation
Indices: 54015--54146 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 50
54005 GATTATGTAA
54015 AAAACA-CTAAATCTTAAACAAAA-ACAATTTAAATAAATATTTATATCTATTT
1 AAAACATC-AAATC-TAAACAAAATA-AA-TTAAATAAATATTTATATCTATTT
* * *
54067 AAAACATCATATTTAAACAAAATAAATTAAATAAATATTTATATTTATTT
1 AAAACATCAAATCTAAACAAAATAAATTAAATAAATATTTATATCTATTT
* *
54117 AAAACTTCAAATCTAAA-AAAATTAATTAAA
1 AAAACATCAAATCTAAACAAAATAAATTAAA
54147 ATAAGATCTG
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
49 12 0.17
50 37 0.52
51 11 0.15
52 10 0.14
53 1 0.01
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (50 bp):
AAAACATCAAATCTAAACAAAATAAATTAAATAAATATTTATATCTATTT
Found at i:68369 original size:2 final size:2
Alignment explanation
Indices: 68362--68386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68352 GGATATTAAT
68362 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
68387 TATGAGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71758 original size:3 final size:3
Alignment explanation
Indices: 71750--71813 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
71740 TAGGGCAACA
* *
71750 TCT TCT TCT TCT TCCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TAT
1 TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
71796 T-T TCTT TCT CCT TCT TCT
1 TCT TC-T TCT TCT TCT TCT
71814 ATTTTAATAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 46 0.85
4 6 0.11
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:75354 original size:12 final size:12
Alignment explanation
Indices: 75337--75364 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
75327 CAATAACAAC
75337 AAGATAAAGTTG
1 AAGATAAAGTTG
75349 AAGATAAAGTTG
1 AAGATAAAGTTG
75361 AAGA
1 AAGA
75365 CTTACTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (12 bp):
AAGATAAAGTTG
Found at i:85311 original size:35 final size:35
Alignment explanation
Indices: 85272--85343 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
85262 GAATTACGAG
85272 AAATGTCATTTTATGGTAGATAAAGGTTTAATTCT
1 AAATGTCATTTTATGGTAGATAAAGGTTTAATTCT
85307 AAATGTCATTTTATGGTAGATAAAGGTTTAATTCT
1 AAATGTCATTTTATGGTAGATAAAGGTTTAATTCT
85342 AA
1 AA
85344 GTAATATAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (35 bp):
AAATGTCATTTTATGGTAGATAAAGGTTTAATTCT
Found at i:93912 original size:18 final size:17
Alignment explanation
Indices: 93889--93932 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
93879 GCAACCTAAT
*
93889 TTTTATTTTTATTTTTAC
1 TTTTATTTTTATTATT-C
*
93907 TTTTATATTTATTATTC
1 TTTTATTTTTATTATTC
93924 TATTTATTT
1 T-TTTATTT
93933 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTATTATTC
Found at i:93927 original size:12 final size:11
Alignment explanation
Indices: 93912--93945 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
93902 TTTACTTTTA
93912 TATTTATTATT
1 TATTTATTATT
93923 CTATTTATTTATT
1 -TATTTA-TTATT
93936 TATTTATTAT
1 TATTTATTAT
93946 ATGTTCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 12 0.57
13 5 0.24
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTTATTATT
Found at i:96597 original size:59 final size:59
Alignment explanation
Indices: 96554--97053 Score: 578
Period size: 59 Copynumber: 8.5 Consensus size: 59
96544 TTTTCGAACA
* * * * *
96554 TTCGAGGG-CAAAATATTAATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTTTGAAG
1 TTCGAGGGTAAAAATA-GAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
* * *
96613 TTC-AGGGGTTAAAATTA-AATTTTTGGAAGTTTTGGGGTCGAAAATGGGATTTTTAGAAG
1 TTCGA-GGG-TAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
* * * *
96672 TTCGAGGGTAAAAATGGAATTTTTGAAAGTTTCGAGGTCAAAAATGGGA-TTTTGGAAG
1 TTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
* *
96730 TTCGAGGGTAAAAATAGAATTTTTGGTAGTTTTGGGGTTAAAAATGGGATTTTTGGAAG
1 TTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
* * * * ***
96789 TT-TAGGGGAAAAAATGGAATTTTTTGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAG
1 TTCGA-GGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
* *
96848 TTCGAGGGTAAAAATAGAATTTTTGGTAGTTTTGGGGTTAAAAATGGGATTTTTGGAAG
1 TTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
** * * * *** * *
96907 TTTAAGGGAAAAAATGGAATTTTTTGAAGTTTCAAGTTTAAAAATGGGATTTTTGGAAG
1 TTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
* * * *
96966 TTCGAGGGTAAAAATGGAATTTTTGTAAGTTTTGGGGTCGAAAATGGGATTTTTGGAAA
1 TTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
* *
97025 TTTGGGGGTAAAAATAGAATTTTTGGAAG
1 TTCGAGGGTAAAAATAGAATTTTTGGAAG
97054 ATTTAGGGAC
Statistics
Matches: 370, Mismatches: 63, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
58 59 0.16
59 304 0.82
60 2 0.01
61 5 0.01
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (59 bp):
TTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAG
Found at i:96606 original size:29 final size:30
Alignment explanation
Indices: 96571--97061 Score: 401
Period size: 29 Copynumber: 16.7 Consensus size: 30
96561 GCAAAATATT
96571 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * * **
96601 GATTTTTTGAAG-TTCAGGGGTT-AAAATTA
1 AATTTTTGGAAGTTTTA-GGGTTAAAAATGG
* **
96630 AATTTTTGGAAGTTTTGGGGTCGAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * **
96660 GATTTTTAGAAGTTCGAGGG-TAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * *
96689 AATTTTTGAAAG-TTTCGAGGTCAAAAATGG
1 AATTTTTGGAAGTTTTAG-GGTTAAAAATGG
* ** *
96719 GA-TTTTGGAAGTTCGAGGG-TAAAAATAG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* *
96747 AATTTTTGGTAGTTTTGGGGTTAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* **
96777 GATTTTTGGAAG-TTTAGGGGAAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * * *
96806 AATTTTTTGAAGTTTCAAGGTCAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* ** *
96836 GATTTTTGGAAGTTCGAGGG-TAAAAATAG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* *
96865 AATTTTTGGTAGTTTTGGGGTTAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * *
96895 GATTTTTGGAAGTTTAAGGG-AAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * * *
96924 AATTTTTTGAAGTTTCAAGTTTAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* **
96954 GATTTTTGGAAGTTCGAGGG-TAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * **
96983 AATTTTTGTAAGTTTTGGGGTCGAAAATGG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
* * * * *
97013 GATTTTTGGAA-ATTTGGGGGTAAAAATAG
1 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
*
97042 AATTTTTGGAAGATTTAGGG
1 AATTTTTGGAAGTTTTAGGG
97062 ACCTTCAGGG
Statistics
Matches: 352, Mismatches: 96, Indels: 26
0.74 0.20 0.05
Matches are distributed among these distances:
28 10 0.03
29 179 0.51
30 163 0.46
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (30 bp):
AATTTTTGGAAGTTTTAGGGTTAAAAATGG
Found at i:96891 original size:118 final size:118
Alignment explanation
Indices: 96571--97053 Score: 663
Period size: 118 Copynumber: 4.1 Consensus size: 118
96561 GCAAAATATT
* * * * * *
96571 AATTTTTGGAAGTTTTAGGGTTAAAAATGGGATTTTTTGAAGTTC-AGGGGTTAAAATTA-AATT
1 AATTTTTTGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGA-GGG-TAAAAATAGAATT
* * * * *
96634 TTTGGAAGTTTTGGGGTCGAAAATGGGATTTTTAGAAG-TTCGAGGGTAAAAATGG
64 TTTGGTAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTAG-GGGAAAAAATGG
*
96689 AA-TTTTTGAAAGTTTCGAGGTCAAAAATGGGA-TTTTGGAAGTTCGAGGGTAAAAATAGAATTT
1 AATTTTTTG-AAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTT
*
96752 TTGGTAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTAGGGGAAAAAATGG
65 TTGGTAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGAAAAAATGG
96806 AATTTTTTGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTTT
1 AATTTTTTGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTTT
* *
96871 TGGTAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTAAGGGAAAAAATGG
66 TGGTAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGAAAAAATGG
* * *
96924 AATTTTTTGAAGTTTCAAGTTTAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTT
1 AATTTTTTGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTTT
* * * * *
96989 T-GTAAGTTTTGGGGTCGAAAATGGGATTTTTGGAAATTTGGGGGTAAAAATAG
66 TGGT-AGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGAAAAAATGG
*
97042 AATTTTTGGAAG
1 AATTTTTTGAAG
97054 ATTTAGGGAC
Statistics
Matches: 332, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
116 7 0.02
117 94 0.28
118 231 0.70
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (118 bp):
AATTTTTTGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTTT
TGGTAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGAAAAAATGG
Found at i:102814 original size:95 final size:94
Alignment explanation
Indices: 102681--102870 Score: 362
Period size: 95 Copynumber: 2.0 Consensus size: 94
102671 GGTGATTTAG
102681 GTAAGGAACCTTGAGGGTATTGACAAATAACATTACTGTCTCTTTTTCTGTTAGCAGTGGTTGTA
1 GTAAGGAACCTTGAGGGTATTGACAAATAACATTACTGTCTCTTTTTCTGTTAGCAGTGGTTGTA
102746 CTTGGGCTGCCACCTCGCGCCATCTATGT
66 CTTGGGCTGCCACCTCGCGCCATCTATGT
*
102775 GNTAAGGAACCTTGAGGGTATTGACAAATAACATTACTGTCTCTTTTTCTGTTAGCGGTGGTTGT
1 G-TAAGGAACCTTGAGGGTATTGACAAATAACATTACTGTCTCTTTTTCTGTTAGCAGTGGTTGT
102840 ACTTGGGCTGCCACCTCGCGCCATCTATGT
65 ACTTGGGCTGCCACCTCGCGCCATCTATGT
102870 G
1 G
102871 CATATGTTCT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 1 0.01
95 93 0.99
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (94 bp):
GTAAGGAACCTTGAGGGTATTGACAAATAACATTACTGTCTCTTTTTCTGTTAGCAGTGGTTGTA
CTTGGGCTGCCACCTCGCGCCATCTATGT
Found at i:107343 original size:345 final size:345
Alignment explanation
Indices: 106705--107390 Score: 1309
Period size: 345 Copynumber: 2.0 Consensus size: 345
106695 TTACTTGGTT
106705 TGATTGGACCACCACAAAACACTTTTAAAGAAACCGTTTTGAAAACATGTTGGTCTTCGAAATCC
1 TGATTGGACCACCACAAAACACTTTTAAAGAAACCGTTTTGAAAACATGTTGGTCTTCGAAATCC
106770 AGAAAAATAGGTTCGGGAGTCAGTTACGCATGAGGAAGGATTAGCACCCTCATGCGCCCAAAATT
66 AGAAAAATAGGTTCGGGAGTCAGTTACGCATGAGGAAGGATTAGCACCCTCATGCGCCCAAAATT
106835 GGTACCGTATTGATTATTTTCAGGTCTTAATTTGTAACATTTATAAGCTCGAATAAAGTTTAAAA
131 GGTACCGTATTGATTATTTTCAGGTCTTAATTTGTAACATTTATAAGCTCGAATAAAGTTTAAAA
106900 CACGATCCTTGAATGCATGAGTTAGGTTTAAAAGAAACAGGTTTGTTTGGAAATACGTCGTTTCA
196 CACGATCCTTGAATGCATGAGTTAGGTTTAAAAGAAACAGGTTTGTTTGGAAATACGTCGTTTCA
* *
106965 AAGTGATCGAGGAAGAAAGTTACTTCTAGTGAGTTAGGACATGACATTTTAAGGTTTAGAAATAA
261 AAGTGATCGAGGAAGAAAGTTACGTCCAGTGAGTTAGGACATGACATTTTAAGGTTTAGAAATAA
107030 CGGGTTTTCCTTCGTAGGTG
326 CGGGTTTTCCTTCGTAGGTG
107050 TGATTGGACCACCACAAAACACTTTTAAAGAAACCGTTTTGAAAACATGTTGGTCTTCGAAATCC
1 TGATTGGACCACCACAAAACACTTTTAAAGAAACCGTTTTGAAAACATGTTGGTCTTCGAAATCC
107115 AGAAAAATAGGTTCGGGAGTCAGTTACGCATGAGGAAGGATTAGCACCCTCATGCGCCCAAAATT
66 AGAAAAATAGGTTCGGGAGTCAGTTACGCATGAGGAAGGATTAGCACCCTCATGCGCCCAAAATT
* *
107180 GGTACCGTATTGATTATTTTCAGGTCTTAATTTGTAACATTTATAAGCTCTAATAAAGTTTAAGA
131 GGTACCGTATTGATTATTTTCAGGTCTTAATTTGTAACATTTATAAGCTCGAATAAAGTTTAAAA
* *
107245 CACGATCCTTGAATGCATGAGTTAGGTTTAAAAGAAACAGGTTTGTTTGGAAATCCGTTGTTTCA
196 CACGATCCTTGAATGCATGAGTTAGGTTTAAAAGAAACAGGTTTGTTTGGAAATACGTCGTTTCA
*
107310 AAGTGATTGAGGAAGAAAGTTACGTCCAGTGAGTTAGGACATGACATTTTAAGGTTTAGAAATAA
261 AAGTGATCGAGGAAGAAAGTTACGTCCAGTGAGTTAGGACATGACATTTTAAGGTTTAGAAATAA
107375 CGGGTTTTCCTTCGTA
326 CGGGTTTTCCTTCGTA
107391 AAACTTCTTG
Statistics
Matches: 334, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
345 334 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (345 bp):
TGATTGGACCACCACAAAACACTTTTAAAGAAACCGTTTTGAAAACATGTTGGTCTTCGAAATCC
AGAAAAATAGGTTCGGGAGTCAGTTACGCATGAGGAAGGATTAGCACCCTCATGCGCCCAAAATT
GGTACCGTATTGATTATTTTCAGGTCTTAATTTGTAACATTTATAAGCTCGAATAAAGTTTAAAA
CACGATCCTTGAATGCATGAGTTAGGTTTAAAAGAAACAGGTTTGTTTGGAAATACGTCGTTTCA
AAGTGATCGAGGAAGAAAGTTACGTCCAGTGAGTTAGGACATGACATTTTAAGGTTTAGAAATAA
CGGGTTTTCCTTCGTAGGTG
Found at i:107596 original size:96 final size:96
Alignment explanation
Indices: 107430--107603 Score: 255
Period size: 96 Copynumber: 1.8 Consensus size: 96
107420 TCGACTATCC
* * **
107430 CGATTTGATGAAAGATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGATAAGGAAA
1 CGATTTGAAGAAAGATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAAATAAAAAAA
107495 CATTGCCTCGATTAAGATTATTCGATTATTT
66 CATTGCCTCGATTAAGATTATTCGATTATTT
107526 CGATTTGAAGAAA-AGTTGCACCTAGTAAGTTAAGGCGCAAATTTTC-GAAACTC-AAAATAAAA
1 CGATTTGAAGAAAGA-TTGCACCTAGTAAGTTAAGGCGCAAATTTTCAG-AA-TCGAAAATAAAA
*
107588 AAATATTGCCTCGATT
63 AAACATTGCCTCGATT
107604 TAAAAGTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
95 2 0.03
96 66 0.94
97 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (96 bp):
CGATTTGAAGAAAGATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAAATAAAAAAA
CATTGCCTCGATTAAGATTATTCGATTATTT
Found at i:107983 original size:29 final size:29
Alignment explanation
Indices: 107951--108269 Score: 297
Period size: 30 Copynumber: 10.8 Consensus size: 29
107941 CGGACATCCA
107951 GGGGT-AAAATGGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGG-AATTTTTGGAAGTTTT
*
107980 GGGGTTAAAAATGGGATTTTTGGAAG-TTT
1 GGGG-TAAAAATGGAATTTTTGGAAGTTTT
*
108009 GAGGGTAAAAATGGATTTTTTGGAAGTTTT
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTT
* * * **
108039 AGGGTCAAAAATGGAATTGTTGAAAGTTCG
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTT
*
108069 GGGGT-AAAATGGAATTTTTGGAAGTTTC
1 GGGGTAAAAATGGAATTTTTGGAAGTTTT
* * * *
108097 GAGGTCAAAAATGGTATTTTTTAGAA-ATTT
1 GGGGT-AAAAATGG-AATTTTTGGAAGTTTT
* **
108127 GAGGGTAAAAATGCG-ATTTATGGAAGTTCG
1 G-GGGTAAAAATG-GAATTTTTGGAAGTTTT
*
108157 GGGGTAAAAATGGAATTTTTGGAAGTTTC
1 GGGGTAAAAATGGAATTTTTGGAAGTTTT
* * *
108186 GAGGTTAAAAATGGTATTTTTGGAAGTTTA
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTT
* *
108216 GGGGTAAAAATGGGATTTTTGGAAGTTTC
1 GGGGTAAAAATGGAATTTTTGGAAGTTTT
* * *
108245 GAGGTCGAAAATGGGATTTTTGGAA
1 GGGGT-AAAAATGGAATTTTTGGAA
108270 ATTCGAGAGT
Statistics
Matches: 239, Mismatches: 37, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
28 24 0.10
29 91 0.38
30 104 0.44
31 20 0.08
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTTT
Found at i:107991 original size:59 final size:59
Alignment explanation
Indices: 107834--108242 Score: 237
Period size: 59 Copynumber: 6.9 Consensus size: 59
107824 GGATACCTGA
* * * *
107834 GGGTAAAATGGTAATTTTGGGAAAG-TTCGGGGTTAAGAATGGAATCTTTAGACA-TTCAG
1 GGGTAAAATGGTAATTTTTGG-AAGTTTTGGGGTTAAAAATGGAAT-TTTGGACAGTTCAG
* * * * *
107893 GAGTAAAAAGGGTAA-TTTT-GAGAG-TTTGAGGTTAAAAAATGGAGTTTTCGGACA-TCCAG
1 GGGT-AAAATGGTAATTTTTGGA-AGTTTTGGGGTT-AAAAATGGAATTTT-GGACAGTTCAG
* *
107952 GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGA-AGTT-TG
1 GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAAT-GGAATTTTGGACAGTTCAG
* * * * *
108010 AGGGTAAAAATGG-ATTTTTTGGAAGTTTTAGGGTCAAAAATGGAATTGTT-GAAAGTTCGG
1 -GGGT-AAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATT-TTGGACAGTTCAG
* * * * * * * *
108070 GGGTAAAATGG-AATTTTTGGAAGTTTCGAGGTCAAAAATGGTATTTTTTAGAAATTTGA-
1 GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGG-A-ATTTTGGACAGTTCAG
* * *
108129 GGGTAAAAATGCG--ATTTATGGAAG-TTCGGGGGTAAAAATGGAATTTTTGGA-AGTTTC-G
1 GGGT-AAAATG-GTAATTTTTGGAAGTTTTGGGGTTAAAAATGGAA-TTTTGGACAG-TTCAG
* * *
108187 AGGTTAAAAATGGT-ATTTTTGGAAGTTTAGGGG-TAAAAATGGGATTTTTGGA-AGTT
1 -GGGT-AAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAAT-GGAATTTTGGACAGTT
108243 TCGAGGTCGA
Statistics
Matches: 284, Mismatches: 40, Indels: 53
0.75 0.11 0.14
Matches are distributed among these distances:
57 2 0.01
58 76 0.27
59 138 0.49
60 67 0.24
61 1 0.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTGGACAGTTCAG
Found at i:108030 original size:118 final size:115
Alignment explanation
Indices: 107834--108265 Score: 364
Period size: 118 Copynumber: 3.7 Consensus size: 115
107824 GGATACCTGA
* * * * *
107834 GGGTAAAATGGTAATTTTGGGAAAG-TTCGGGGTTAAGAATGGAATCTTTAGACA--TTCAGGAG
1 GGGTAAAATGGTAATTTTTGG-AAGTTTCGGGGTTAAAAATGGGATTTTTAGA-AGTTTGAGG-G
* * * * *
107896 TAAAAA-GGGTAATTTTGAGAGTTTGAGGTTAAAAAATGGAGTTTTCGGACA-TCCAG
63 TAAAAATGGAT-TTTTTGAGAGTTTGAGGGT-AAAAATGGAATTTT-GGA-AGTTC-G
* *
107952 GGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTGAGGGTAA
1 GGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTTAAAAATGGGATTTTTAGAAGTTTGAGGGTAA
* *
108017 AAATGGATTTTTTG-GAAGTTTTAGGGTCAAAAATGGAATTGTTGAAAGTTCGG
66 AAATGGATTTTTTGAG-AGTTTGAGGGT-AAAAATGGAATT-TTGGAAGTTC-G
* * * *
108070 GGGTAAAATGG-AATTTTTGGAAGTTTCGAGGTCAAAAATGGTATTTTTTAGAAATTTGAGGGTA
1 GGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTTAAAAATGGGA-TTTTTAGAAGTTTGAGGGTA
* * * *
108134 AAAATGCGATTTATGGA-AGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCG
65 AAAATG-GATTTTTTGAGAGTTTGAGGGTAAAAATGGAA-TTTTGGAAG-TTCG
* * *
108187 AGGTTAAAAATGGT-ATTTTTGGAAGTTTAGGGG-TAAAAATGGGATTTTTGGAAGTTTCGA-GG
1 -GGGT-AAAATGGTAATTTTTGGAAGTTTCGGGGTTAAAAATGGGATTTTTAGAAGTTT-GAGGG
*
108249 TCGAAAATGGGATTTTT
63 T-AAAAAT-GGATTTTT
108266 GGAAATTCGA
Statistics
Matches: 259, Mismatches: 37, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
117 65 0.25
118 152 0.59
119 42 0.16
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (115 bp):
GGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTTAAAAATGGGATTTTTAGAAGTTTGAGGGTAA
AAATGGATTTTTTGAGAGTTTGAGGGTAAAAATGGAATTTTGGAAGTTCG
Found at i:108243 original size:59 final size:58
Alignment explanation
Indices: 107952--108269 Score: 326
Period size: 59 Copynumber: 5.4 Consensus size: 58
107942 GGACATCCAG
* *
107952 GGGT-AAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTT-GA
1 GGGTAAAAATGG--ATTTTTGGAAGTTTAGGGG-TAAAAATGGAATTTTTGGAAGTTTCGA
* * *
108011 GGGTAAAAATGGATTTTTTGGAAGTTTTA-GGGTCAAAAATGGAATTGTTGAAAG-TTCGG
1 GGGTAAAAATGGA-TTTTTGGAAG-TTTAGGGGT-AAAAATGGAATTTTTGGAAGTTTCGA
* * * * *
108070 GGGT-AAAATGGAATTTTTGGAAGTTTCGAGGTCAAAAATGGTATTTTTTAGAAATTT-GA
1 GGGTAAAAATGG-ATTTTTGGAAGTTTAGGGGT-AAAAATGG-AATTTTTGGAAGTTTCGA
* **
108129 GGGTAAAAATGCGATTTATGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGA
1 GGGTAAAAATG-GATTTTTGGAAGTTTAGGGGTAAAAATGGAATTTTTGGAAGTTTCGA
* *
108188 GGTTAAAAATGGTATTTTTGGAAGTTTAGGGGTAAAAATGGGATTTTTGGAAGTTTCGA
1 GGGTAAAAATGG-ATTTTTGGAAGTTTAGGGGTAAAAATGGAATTTTTGGAAGTTTCGA
*
108247 -GGTCGAAAATGGGATTTTTGGAA
1 GGGT-AAAAAT-GGATTTTTGGAA
108270 ATTCGAGAGT
Statistics
Matches: 217, Mismatches: 27, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
57 3 0.01
58 48 0.22
59 129 0.59
60 36 0.17
61 1 0.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.35
Consensus pattern (58 bp):
GGGTAAAAATGGATTTTTGGAAGTTTAGGGGTAAAAATGGAATTTTTGGAAGTTTCGA
Found at i:108275 original size:29 final size:28
Alignment explanation
Indices: 107956--108298 Score: 228
Period size: 29 Copynumber: 11.6 Consensus size: 28
107946 ATCCAGGGGT
* * *
107956 AAAATGGTAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGG-GATTTTTGGAA-TTTCGAGG-TA
107987 AAAATGGGATTTTTGGAAGTTT-GAGGGTA
1 AAAATGGGATTTTTGGAA-TTTCGA-GGTA
*
108016 AAAAT-GGATTTTTTGGAAGTTT-TAGGGTCA
1 AAAATGGGA-TTTTTGGAA-TTTCGA-GGT-A
* * * * *
108046 AAAATGGAATTGTTGAAAGTTCGGGGGT-
1 AAAATGGGATTTTTGGAATTTC-GAGGTA
*
108074 AAAATGGAATTTTTGGAAGTTTCGAGGTCA
1 AAAATGGGATTTTTGGAA-TTTCGAGGT-A
* *
108104 AAAATGGTATTTTTTAGAAATTT-GAGGGTA
1 AAAATGGGA-TTTTT-GGAATTTCGA-GGTA
* * * *
108134 AAAATGCGATTTATGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTGGAATTTC-GAGGTA
*
108163 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
1 AAAATGGGATTTTTGGAA-TTTCGAGG-TA
* * *
108193 AAAATGGTATTTTTGGAAGTTTAGGGGTA
1 AAAATGGGATTTTTGGAA-TTTCGAGGTA
*
108222 AAAATGGGATTTTTGGAAGTTTCGAGGTCG
1 AAAATGGGATTTTTGGAA-TTTCGAGGT-A
*
108252 AAAATGGGATTTTTGGAAATTCGAGAGTA
1 AAAATGGGATTTTTGGAATTTCGAG-GTA
* **
108281 AAAACGAAATTTTTGGAA
1 AAAATGGGATTTTTGGAA
108299 GGTTTAGGGA
Statistics
Matches: 256, Mismatches: 38, Indels: 38
0.77 0.11 0.11
Matches are distributed among these distances:
28 28 0.11
29 105 0.41
30 100 0.39
31 20 0.08
32 3 0.01
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (28 bp):
AAAATGGGATTTTTGGAATTTCGAGGTA
Found at i:110040 original size:6 final size:6
Alignment explanation
Indices: 110029--110086 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
110019 CTTTATTTAT
** * *
110029 TTTAAA TTTAAA AATAAA TTTAAA CTTAAA -ATAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
110077 --TAAA TTTAAA
1 TTTAAA TTTAAA
110087 ATTTTAAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
4 1 0.02
5 7 0.17
6 32 0.78
7 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:110061 original size:17 final size:17
Alignment explanation
Indices: 110029--110103 Score: 96
Period size: 17 Copynumber: 4.3 Consensus size: 17
110019 CTTTATTTAT
110029 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
*
110047 TTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
110064 TTTAAATTTAAGATAAA
1 TTTAAATTTAAAATAAA
* *
110081 TTTAAAATTTTAAACAAA
1 TTT-AAATTTAAAATAAA
110099 TTTAA
1 TTTAA
110104 GATGAGTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
17 28 0.56
18 22 0.44
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:110100 original size:35 final size:35
Alignment explanation
Indices: 110029--110103 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
110019 CTTTATTTAT
*
110029 TTTAAATTTAAAAATAAATTTAAACTTAAAATAAA
1 TTTAAATTTAAAAATAAATTTAAACTTAAAACAAA
* * *
110064 TTTAAATTT-AAGATAAATTTAAAATTTTAAACAAA
1 TTTAAATTTAAAAATAAATTT-AAACTTAAAACAAA
110099 TTTAA
1 TTTAA
110104 GATGAGTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (35 bp):
TTTAAATTTAAAAATAAATTTAAACTTAAAACAAA
Found at i:110989 original size:16 final size:17
Alignment explanation
Indices: 110968--111004 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
110958 TCTTTGTCCG
110968 AAAAGA-AAAGAAA-AAA
1 AAAAGAGAAA-AAAGAAA
110984 AAAAGAGAAAAAAGAAA
1 AAAAGAGAAAAAAGAAA
111001 AAAA
1 AAAA
111005 TTTGATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAGAAAAAAGAAA
Found at i:112109 original size:3 final size:3
Alignment explanation
Indices: 112101--112137 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
112091 AAAAGCCCAA
* *
112101 ATT ATT ATT ATC ATT ACT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
112138 GAGTTTCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:112978 original size:150 final size:152
Alignment explanation
Indices: 112681--113225 Score: 728
Period size: 150 Copynumber: 3.6 Consensus size: 152
112671 GTTTTTTTAG
* * *
112681 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATT
1 AAAAATTTAAAATTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATT
* * *
112746 TTTAAG-AAAATAGTGATTTTCATTAAAAAAAAAAAGGAGAAAATTTATATTTTTAAAAATAAAA
66 TTTAAGTAAAGTAGTGATTTTCATT-AAAAAAAGAA--AGAAAGTTTATATTTTTAAAAATAAAA
*
112810 ATATGTTTTTTAGTTATTTTCAAGA
128 ATATGTTTTTTAGTTATTTTAAAGA
* * * *
112835 AAAAGTTCAAATTTTTAAATAAAGTTTTG-TTTTTTTTAACTATTTCGAAATAAAA-TTTTGAAT
1 AAAAATTTAAAATTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAG-AT
*
112898 TTTTAAGTAAAGTAGTGATTTTCATT-AAAAAAGAAAGAAAGTTTATATGTTTAAAAATAAAAAT
65 TTTTAAGTAAAGTAGTGATTTTCATTAAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAAT
*
112962 TTGTTTTTTAGTTATTTTAAAGA
130 ATGTTTTTTAGTTATTTTAAAGA
*
112985 AAAAATTTAAAATTTTAAATAAAGTTTTGA-TTTTTTTAATTATTTCGAAATAAAAGTTTAGATT
1 AAAAATTTAAAATTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATT
* * *
113049 TTTAAGTAGAA-TAGTGGTTTTTATTAAAAAAAAAAGAAAGAAAGTTTAGATTTTTAAAAAATAA
66 TTTAAGTA-AAGTAGTGATTTTCATT---AAAAAAAGAAAGAAAGTTTATATTTTT-AAAAATAA
* * * *
113113 AAATCTATATTTTAGTGATTTTAAAGAA
126 AAATATGTTTTTTAGTTATTTTAAAG-A
*
113141 AAAAATTTAAAATTTTAAA-AAAGTTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTTA-AT
1 AAAAATTTAAAATTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAG-TTTAGAT
*
113204 TTTGAAGTAAAGTAGTGATTTT
65 TTTTAAGTAAAGTAGTGATTTT
113226 ATTTTAATCA
Statistics
Matches: 351, Mismatches: 26, Indels: 26
0.87 0.06 0.06
Matches are distributed among these distances:
150 121 0.34
151 6 0.02
152 12 0.03
153 35 0.10
154 68 0.19
155 42 0.12
156 63 0.18
157 4 0.01
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (152 bp):
AAAAATTTAAAATTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTAGATT
TTTAAGTAAAGTAGTGATTTTCATTAAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAATA
TGTTTTTTAGTTATTTTAAAGA
Found at i:113052 original size:51 final size:51
Alignment explanation
Indices: 112681--113053 Score: 155
Period size: 51 Copynumber: 7.4 Consensus size: 51
112671 GTTTTTTTAG
* *
112681 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTTTTAATTATTTCGAAAT
* ** * ***** *
112733 AAAAGTTTAGATTTTTAAGA-AAA-TAGTGATTTTCATTAA--AAAAAAAAAGG
1 AAAAGTTTAAATTTTTAA-ATAAAGTTTTGATTTT-TTTAATTATTTCGAAA-T
* * ** * *
112783 AGAAAATTTATATTTTTAAAAATAAAAATATG--TTTTTTAGTTATTTTC-AAGA-
1 A-AAAGTTTAAATTTTT--AAATAAAGTTTTGATTTTTTTAATTA-TTTCGAA-AT
* * *
112835 AAAAGTTCAAATTTTTAAATAAAGTTTTGTTTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAATTATTTCGAAAT
* * * ** * ***
112886 AAAATTTTGAATTTTTAAGTAAAGTAGTGATTTTCATTAA--A-AAAGAAA-
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTT-TTTAATTATTTCGAAAT
* * * ** * * *
112934 GAAAGTTTATATGTTTAAAAATAAAAATTTG--TTTTTTAGTTATTT-TAAAGA
1 AAAAGTTTAAAT-TTT-TAAATAAAGTTTTGATTTTTTTAATTATTTCGAAA-T
* *
112985 AAAAATTTAAAATTTTAAATAAAGTTTTGATTTTTTTAATTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAATTATTTCGAAAT
*
113036 AAAAGTTTAGATTTTTAA
1 AAAAGTTTAAATTTTTAA
113054 GTAGAATAGT
Statistics
Matches: 226, Mismatches: 68, Indels: 55
0.65 0.19 0.16
Matches are distributed among these distances:
47 3 0.01
48 11 0.05
49 36 0.16
50 22 0.10
51 110 0.49
52 32 0.14
53 9 0.04
54 3 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (51 bp):
AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAATTATTTCGAAAT
Found at i:121191 original size:2 final size:2
Alignment explanation
Indices: 121184--121215 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
121174 AATCCCTCCC
*
121184 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121216 TCCCAATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121885 original size:2 final size:2
Alignment explanation
Indices: 121872--121906 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
121862 ATTTGTACAT
*
121872 AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
121907 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:122567 original size:29 final size:30
Alignment explanation
Indices: 122535--122648 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 30
122525 AAAATTATGT
*
122535 TTTGACCCCT-AAACTTTCAAAAATTTAGA
1 TTTGACCCCTCAAACTTCCAAAAATTTAGA
* * *
122564 TTTGA-CCCTCGAACTTCCTAAAAATTCAAA
1 TTTGACCCCTCAAACTTCC-AAAAATTTAGA
* * *
122594 TTTGACGCC-CGAACTTCCTAAAATTT-GAA
1 TTTGACCCCTCAAACTTCCAAAAATTTAG-A
*
122623 TTTG-GCCCTCAAACTTTCCAAAAATT
1 TTTGACCCCTCAAAC-TTCCAAAAATT
122649 CATTTTTGAC
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
28 6 0.09
29 26 0.39
30 33 0.49
31 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (30 bp):
TTTGACCCCTCAAACTTCCAAAAATTTAGA
Found at i:122589 original size:30 final size:30
Alignment explanation
Indices: 122553--122648 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 30
122543 CTAAACTTTC
122553 AAAAATTTAGATTTGACCCTCGAACTTCCT
1 AAAAATTTAGATTTGACCCTCGAACTTCCT
* *
122583 AAAAATTCAAATTTGACGCC-CGAACTTCCT
1 AAAAATTTAGATTTGAC-CCTCGAACTTCCT
* *
122613 -AAAATTT-GAATTTGGCCCTCAAACTTTCC-
1 AAAAATTTAG-ATTTGACCCTCGAAC-TTCCT
122642 AAAAATT
1 AAAAATT
122649 CATTTTTGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
28 2 0.04
29 16 0.29
30 35 0.64
31 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (30 bp):
AAAAATTTAGATTTGACCCTCGAACTTCCT
Found at i:122589 original size:59 final size:59
Alignment explanation
Indices: 122523--122662 Score: 153
Period size: 59 Copynumber: 2.4 Consensus size: 59
122513 TTGTTTTATT
* *
122523 TAAAAATT-ATGTTTTGACCCCTAAACTTTCAAAAATTT-AGATTTGACCCTCGAAC-TTCC
1 TAAAAATTCAT-TTTTGACCCC-AAACTTCCAAAAATTTGA-ATTTGACCCTCAAACTTTCC
** * * *
122582 TAAAAATTCAAATTTGACGCCCGAACTTCCTAAAATTTGAATTTGGCCCTCAAACTTTCC
1 TAAAAATTCATTTTTGAC-CCCAAACTTCCAAAAATTTGAATTTGACCCTCAAACTTTCC
122642 -AAAAATTCATTTTTGACCCCA
1 TAAAAATTCATTTTTGACCCCA
122663 TTTTTCCTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
58 3 0.04
59 55 0.82
60 9 0.13
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.34
Consensus pattern (59 bp):
TAAAAATTCATTTTTGACCCCAAACTTCCAAAAATTTGAATTTGACCCTCAAACTTTCC
Found at i:123783 original size:16 final size:17
Alignment explanation
Indices: 123755--123797 Score: 70
Period size: 16 Copynumber: 2.6 Consensus size: 17
123745 TGAGAAGCTA
123755 CTCCTTCGTGAGGTTTT
1 CTCCTTCGTGAGGTTTT
123772 CTCCTT-GTGAGGTTTT
1 CTCCTTCGTGAGGTTTT
*
123788 CACCTTCGTG
1 CTCCTTCGTG
123798 CAGGATAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.07, C:0.26, G:0.23, T:0.44
Consensus pattern (17 bp):
CTCCTTCGTGAGGTTTT
Found at i:126027 original size:13 final size:14
Alignment explanation
Indices: 126009--126038 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
125999 GTCAATGCAA
126009 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
126022 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
126036 TCA
1 TCA
126039 ATATACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:127575 original size:21 final size:23
Alignment explanation
Indices: 127548--127700 Score: 125
Period size: 23 Copynumber: 6.6 Consensus size: 23
127538 TATACAGAAC
*
127548 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTACT
* *
127570 -AACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTACT
*
127591 AGGCAACAGAGAGCACACACAA-TGCT
1 A---AACAGAGAGCACACA-AAGTACT
*
127617 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTACT
* **
127640 AATCAGAGAGCACACAAAGTGTT
1 AAACAGAGAGCACACAAAGTACT
* * *
127663 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTACT
127686 AATAACAGAGAGCAC
1 -A-AACAGAGAGCAC
127701 GAGACGTGCT
Statistics
Matches: 108, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
21 17 0.16
22 2 0.02
23 57 0.53
24 1 0.01
25 24 0.22
26 5 0.05
27 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTACT
Found at i:127621 original size:23 final size:23
Alignment explanation
Indices: 127595--127721 Score: 116
Period size: 23 Copynumber: 5.4 Consensus size: 23
127585 AGTGCTAGGC
127595 AACAGAGAGCACACACAATGCTA
1 AACAGAGAGCACACACAATGCTA
* *
127618 AACAGAGAGTACACA-AAGTACTA
1 AACAGAGAGCACACACAA-TGCTA
* *
127641 ATCAGAGAGCACACA-AAGTGTTA
1 AACAGAGAGCACACACAA-TGCTA
* *
127664 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACACAATGCT-A
* *
127688 TAACAGAGAGCACGAGAC-GTGCTA
1 -AACAGAGAGCAC-ACACAATGCTA
127712 AACAGAGAGC
1 AACAGAGAGC
127722 GCACTAGTGT
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.02
23 65 0.73
24 3 0.03
25 16 0.18
26 3 0.03
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACACAATGCTA
Found at i:127626 original size:25 final size:24
Alignment explanation
Indices: 127573--127721 Score: 98
Period size: 23 Copynumber: 6.3 Consensus size: 24
127563 AAGTACTAAC
*
127573 AGAGAGCACATA-AGTGCTAGGCAAC-
1 AGAGAGCACACACAGTGCTA---AACA
*
127598 AGAGAGCACACACAATGCTAAAC-
1 AGAGAGCACACACAGTGCTAAACA
* * * *
127621 AGAGAGTACACAAAGTACTAATC-
1 AGAGAGCACACACAGTGCTAAACA
* * *
127644 AGAGAGCACACAAAGTGTTAATC-
1 AGAGAGCACACACAGTGCTAAACA
127667 AGAGAGCACACACAGTGCTAATA-A
1 AGAGAGCACACACAGTGCTAA-ACA
*
127691 CAGAGAGCACGAGAC-GTGCTAAAC-
1 -AGAGAGCAC-ACACAGTGCTAAACA
127715 AGAGAGC
1 AGAGAGC
127722 GCACTAGTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
23 67 0.64
24 1 0.01
25 27 0.26
26 9 0.09
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (24 bp):
AGAGAGCACACACAGTGCTAAACA
Found at i:127626 original size:48 final size:44
Alignment explanation
Indices: 127570--127721 Score: 128
Period size: 48 Copynumber: 3.2 Consensus size: 44
127560 CCAAAGTACT
127570 AACAGAGAGCACATAAGTGCTAGGCAACAGAGAGCACACACAATGCTA
1 AACAGAGAGCACA-AAGTGCTA---AACAGAGAGCACACACAATGCTA
* * *
127618 AACAGAGAGTACACAAAGTACTAATCAGAGAGCACACA-AAGTGTTA
1 AACAGAGAG--CACAAAGTGCTAAACAGAGAGCACACACAA-TGCTA
* * *
127664 ATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGAC-GTGCTA
1 AACAGAGAGCACA-A-AGTGCT-A-AACAGAGAGCAC-ACACAATGCTA
127712 AACAGAGAGC
1 AACAGAGAGC
127722 GCACTAGTGT
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
44 4 0.05
45 3 0.04
46 31 0.36
47 1 0.01
48 33 0.39
49 9 0.11
50 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACAAAGTGCTAAACAGAGAGCACACACAATGCTA
Found at i:127647 original size:46 final size:47
Alignment explanation
Indices: 127596--127721 Score: 141
Period size: 46 Copynumber: 2.7 Consensus size: 47
127586 GTGCTAGGCA
*
127596 ACAGAGAGCACACACAATGCTAAACAGAGAGTACACAAAGTACTAAT
1 ACAGAGAGCACACACAATGCTAAACAGAGAGCACACAAAGTACTAAT
* * * *
127643 -CAGAGAGCACACA-AAGTGTTAATCAGAGAGCACACACAGTGCTAAT
1 ACAGAGAGCACACACAA-TGCTAAACAGAGAGCACACAAAGTACTAAT
* *
127689 AACAGAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 -ACAGAGAGCAC-ACACAATGCTAAACAGAGAGC
127722 GCACTAGTGT
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.03
46 38 0.58
48 23 0.35
49 2 0.03
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (47 bp):
ACAGAGAGCACACACAATGCTAAACAGAGAGCACACAAAGTACTAAT
Found at i:127670 original size:69 final size:68
Alignment explanation
Indices: 127548--127697 Score: 196
Period size: 69 Copynumber: 2.1 Consensus size: 68
127538 TATACAGAAC
*
127548 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTAGGCAACAGAGAGCACACACAA
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTA-G-AACAGAGAGCACACACAA
127613 TGCT-
64 TGCTA
* *
127617 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGTTA-ATCAGAGAGCACACACA
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTAGAACAGAGAGCACACACA
*
127681 GTGCTA
63 ATGCTA
127687 ATAACAGAGAG
1 A-AACAGAGAG
127698 CACGAGACGT
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
69 33 0.46
70 12 0.17
71 20 0.28
72 7 0.10
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (68 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTAGAACAGAGAGCACACACAATG
CTA
Found at i:132880 original size:34 final size:34
Alignment explanation
Indices: 132837--132907 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
132827 TGCATATGTC
* *
132837 CTTGGTCTCCGAGACTCTGATCTATTAGCCCTAT
1 CTTGGTCTCCGAGACTCTGATCTATCAGCCCCAT
132871 CTTGGTCTCCGAGACTCTGATCTATCAGCCCCAT
1 CTTGGTCTCCGAGACTCTGATCTATCAGCCCCAT
132905 CTT
1 CTT
132908 TTGTCGATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (34 bp):
CTTGGTCTCCGAGACTCTGATCTATCAGCCCCAT
Found at i:134522 original size:23 final size:23
Alignment explanation
Indices: 134448--134622 Score: 144
Period size: 23 Copynumber: 7.5 Consensus size: 23
134438 ATATACAGAA
* *
134448 TAAACAGAGAGTAC-CAAAGTAC
1 TAAACAGAGAGCACACAAAGTGC
*
134470 T-AACAGAGAGCACA-TAAGTGC
1 TAAACAGAGAGCACACAAAGTGC
* *
134491 TGGGCAACAGAGAGCACACATAGTGC
1 T---AAACAGAGAGCACACAAAGTGC
*
134517 TAAACAGAGAGCACACAAAGTAC
1 TAAACAGAGAGCACACAAAGTGC
*
134540 TAATCAGAGAGCACACAAAGTG-
1 TAAACAGAGAGCACACAAAGTGC
* *
134562 AAAATCAGAGAGCACACATAGTGC
1 TAAA-CAGAGAGCACACAAAGTGC
* * *
134586 TAATAATAGAGAGCACGA-GACGTGC
1 T-A-AACAGAGAGCAC-ACAAAGTGC
134611 TAAACAGAGAGC
1 TAAACAGAGAGC
134623 GCGCTAGTGT
Statistics
Matches: 123, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
21 17 0.14
22 3 0.02
23 65 0.53
24 1 0.01
25 28 0.23
26 9 0.07
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (23 bp):
TAAACAGAGAGCACACAAAGTGC
Found at i:134571 original size:69 final size:69
Alignment explanation
Indices: 134448--134588 Score: 189
Period size: 69 Copynumber: 2.0 Consensus size: 69
134438 ATATACAGAA
* * * **
134448 TAAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACATA
1 TAAACAGAGAGCACCAAAGTACTAACAGAGAGCACACAAGAGCTGGAAAACAGAGAGCACACATA
134513 GTGC
66 GTGC
134517 TAAACAGAGAGCACACAAAGTACTAATCAGAGAGCACACAA-AG-T-GAAAATCAGAGAGCACAC
1 TAAACAGAGAGCAC-CAAAGTACTAA-CAGAGAGCACACAAGAGCTGGAAAA-CAGAGAGCACAC
134579 ATAGTGC
63 ATAGTGC
134586 TAA
1 TAA
134589 TAATAGAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
68 3 0.05
69 36 0.56
70 12 0.19
71 13 0.20
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (69 bp):
TAAACAGAGAGCACCAAAGTACTAACAGAGAGCACACAAGAGCTGGAAAACAGAGAGCACACATA
GTGC
Found at i:135055 original size:11 final size:10
Alignment explanation
Indices: 135040--135087 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
135030 TAACCATATA
135040 ATTTTTCTAT
1 ATTTTTCTAT
*
135050 ATTTTTTTAT
1 ATTTTTCTAT
135060 ATTTTTCTAT
1 ATTTTTCTAT
135070 ATTTTTCTAT
1 ATTTTTCTAT
135080 GATTTTTC
1 -ATTTTTC
135088 AAAGCTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
10 28 0.80
11 7 0.20
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTTTCTAT
Found at i:137495 original size:18 final size:17
Alignment explanation
Indices: 137472--137505 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
137462 AGGGATGTAG
137472 TGACAAAATAAAATGCAA
1 TGACAAAA-AAAATGCAA
*
137490 TGACAATAAAAATGCA
1 TGACAAAAAAAATGCA
137506 TGAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
TGACAAAAAAAATGCAA
Found at i:137627 original size:3 final size:3
Alignment explanation
Indices: 137619--137650 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
137609 TGGTGTTTCT
137619 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
137651 TTCTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:145191 original size:13 final size:14
Alignment explanation
Indices: 145173--145202 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
145163 GTCAATGCAA
145173 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
145186 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
145200 TCA
1 TCA
145203 ATATACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:145625 original size:15 final size:17
Alignment explanation
Indices: 145595--145626 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
145585 GTCAAAATCT
145595 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
145612 TTTTAT-CA-TTATATA
1 TTTTATGCATTTATATA
145627 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:149898 original size:14 final size:15
Alignment explanation
Indices: 149859--149899 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
149849 TTTGGGGAAC
149859 GAAGATGAAAATAAA
1 GAAGATGAAAATAAA
149874 GAAGATGAAAATAAA
1 GAAGATGAAAATAAA
149889 GAAG-TGAAAAT
1 GAAGATGAAAAT
149900 TGGGACAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (15 bp):
GAAGATGAAAATAAA
Found at i:155421 original size:124 final size:124
Alignment explanation
Indices: 155201--156549 Score: 1620
Period size: 124 Copynumber: 10.9 Consensus size: 124
155191 AATATTTCTA
* * * * *
155201 ATGAGATACAGAGAAGTGAATCAAGATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCC
1 ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAACC
* * *
155266 CCATCTTCTTGATGAGATACAGAGAAGTGGATCAGAATAAAGAAGCGGTCATCTTCCTG
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* * * * * * * * **
155325 ATGAGATGCAGAGAAGCGAACCAAGACATTGAAACAAAGCTCAATTTGAGTGAAAATTCAATCCC
1 ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAACC
* * * * * *
155390 CCATCTTCCTGATGAGATATAAAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTA
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* *
155449 ATGAGATACAGAGAAGTGGACCAAAACAATAAAGCGAAGCTCTAATGTGAGTGAAACTTCAAAAC
1 ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTCAAAAC
* * * * * * * *
155514 TCTATCTTCCTGATAAGATACAAAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCTTA
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* * * * *
155574 ATGAAATACAGAGAAGT-AGACCAAAACAATGAAGCGAA-CTTCAACGTGGGTGAAACTTCACAC
1 ATGAGATACAGAGAAGTGA-ACCAAAACAATGAAGCGAAGC-TCAATGTGAGTGAAACTTCAAAA
* * * * *
155637 CCCCATCCTCTTGATGAGATACAGAGAAGTGGATCAAAATGATGAAGCAGTTATCTTCCTG
64 CCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* * * * * * *
155698 ATGAGATACAAAGATGTGGACCAAAACATTGAAGCAAAGCTCAATGTTAATGAAACTTCAAAACC
1 ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAACC
* * * * *
155763 CTATCTTCCTGATGAGATACAGAGAAGTGAATCGAAATAATGAAGTGGTCATATTCCTG
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* * * * *
155822 ATGGGATATAGAGAAGTGGATCAAAACAATGAAGTGAAGCTCAAATGTGAGTGAAACTTCAAAAC
1 ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTCAAAAC
* *
155887 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTG
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* * * *
155947 ATGAGATACAGAGAAGT-AGACCAAAACAATGAAGCGAAGCTTAACGTGAGTGAAACTTCACACC
1 ATGAGATACAGAGAAGTGA-ACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAAC
* * * *
156011 CCCATCTTCCTGATGAGATATAGAAAAGTGGATCAAAATGATGAAGCGATCATCTTCCTG
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* * *
156071 ATGAGATA-A-AGAAGTGGACCAAAATAATGAAGCAAAGCTCAAATGTGAGTGAAACTTCAAAAC
1 ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTCAAAAC
* * * * ** *
156134 TCAATCTTCCTGATAAGATACAGAGAAGTGGATCAAAACAATGAAGTAGTCACCTTCCTG
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
** * * * *
156194 ATGAGATTTAGAGACGT-AGACCAAAACAATGGAGCGAAGCTCAATGTGAGTGAAACTTCACACC
1 ATGAGATACAGAGAAGTGA-ACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAAC
*
156258 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATGATGAAGCGGTCATCTTCCTG
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
*
156318 ATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTC-AAACC
1 ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAACC
* * * * * *
156382 CCATCTTCCTGATGAGATATAGAGAATTGGATCAAGATAATGAAACGATCATCTTCTTG
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
* * * *
156441 ATGAGATACAGAGAAGT-AGACCAAAATAATGAAGCGGAGCTTAATGAGAGTGAAACTTC-AAAC
1 ATGAGATACAGAGAAGTGA-ACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAAC
* * * * *
156504 CTCATCTTCCAGATGAGATACAGAGAAATGGACCAAAA-GATGAAGC
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGC
156550 TACAACACCA
Statistics
Matches: 1040, Mismatches: 171, Indels: 30
0.84 0.14 0.02
Matches are distributed among these distances:
122 32 0.03
123 220 0.21
124 546 0.52
125 242 0.23
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (124 bp):
ATGAGATACAGAGAAGTGAACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAACC
CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTG
Found at i:155704 original size:249 final size:247
Alignment explanation
Indices: 155201--156549 Score: 1679
Period size: 249 Copynumber: 5.4 Consensus size: 247
155191 AATATTTCTA
* * * *
155201 ATGAGATACAGAGAAGT-GAATCAAGATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACC
1 ATGAGATACAGAGAAGTAG-ACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACC
* * *
155265 CCCATCTTCTTGATGAGATACAGAGAAGTGGATCAGAATAAAGAAGCGGTCATCTTCCTGATGAG
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGATGAG
* * * * * * * * * *
155330 ATGCAGAGAAGCGAACCAAGACATTGAAACAAAGCTCAATTTGAGTGAAAATTCAATCCCCCATC
130 ATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAA-ACCCCATC
* * * * * *
155395 TTCCTGATGAGATATAAAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTA
194 TTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGTAGTCATCTTCCTG
* * *
155449 ATGAGATACAGAGAAGTGGACCAAAACAATAAAGCGAAGCTCTAATGTGAGTGAAACTTCAAAAC
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTCAAACC
* * * * * * * * *
155514 TCTATCTTCCTGATAAGATACAAAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCTTAATGAA
65 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGATGAG
* * * *
155579 ATACAGAGAAGTAGACCAAAACAATGAAGCGAA-CTTCAACGTGGGTGAAACTTCACACCCCCAT
130 ATACAGAGAAGTGGACCAAAACAATGAAGCGAAGC-TCAATGTGAGTGAAACTTCA-AACCCCAT
* * * * *
155643 CCTCTTGATGAGATACAGAGAAGTGGATCAAAATGATGAAGCAGTTATCTTCCTG
193 CTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGTAGTCATCTTCCTG
* * * * * * * *
155698 ATGAGATACAAAGATGTGGACCAAAACATTGAAGCAAAGCTCAATGTTAATGAAACTTCAAAACC
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCC
* * * * * *
155763 CTATCTTCCTGATGAGATACAGAGAAGTGAATCGAAATAATGAAGTGGTCATATTCCTGATGGGA
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGATGAGA
* * *
155828 TATAGAGAAGTGGATCAAAACAATGAAGTGAAGCTCAAATGTGAGTGAAACTTCAAAACCCCATC
131 TACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTC-AAACCCCATC
* *
155893 TTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTG
194 TTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGTAGTCATCTTCCTG
* * *
155947 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTTAACGTGAGTGAAACTTCACACCC
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCC
* * * *
156012 CCATCTTCCTGATGAGATATAGAAAAGTGGATCAAAATGATGAAGCGATCATCTTCCTGATGAGA
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGATGAGA
* * * *
156077 TA-A-AGAAGTGGACCAAAATAATGAAGCAAAGCTCAAATGTGAGTGAAACTTCAAAACTCAATC
131 TACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTC-AAACCCCATC
* * *
156140 TTCCTGATAAGATACAGAGAAGTGGATCAAAACAATGAAGTAGTCACCTTCCTG
194 TTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGTAGTCATCTTCCTG
** * * *
156194 ATGAGATTTAGAGACGTAGACCAAAACAATGGAGCGAAGCTCAATGTGAGTGAAACTTCACACCC
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCC
*
156259 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATGATGAAGCGGTCATCTTCCTGATGAGA
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGATGAGA
156324 TACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTT
131 TACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTT
* * * *
156389 CCTGATGAGATATAGAGAATTGGATCAAGATAATGAA--ACGATCATCTTCTTG
196 CCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGTA-G-TCATCTTCCTG
* * * *
156441 ATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGGAGCTTAATGAGAGTGAAACTTCAAA-CC
1 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCC
* * * * *
156505 TCATCTTCCAGATGAGATACAGAGAAATGGACCAAAA-GATGAAGC
66 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGC
156550 TACAACACCA
Statistics
Matches: 954, Mismatches: 136, Indels: 25
0.86 0.12 0.02
Matches are distributed among these distances:
245 9 0.01
246 36 0.04
247 332 0.35
248 160 0.17
249 415 0.44
250 2 0.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (247 bp):
ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCC
CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGTCATCTTCCTGATGAGA
TACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTT
CCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGTAGTCATCTTCCTG
Found at i:155896 original size:373 final size:372
Alignment explanation
Indices: 155198--156535 Score: 1774
Period size: 373 Copynumber: 3.6 Consensus size: 372
155188 GATAATATTT
* * * * * *
155198 CTAATGAGATACAGAGAAGT-GAATCAAGATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAA
1 CTAATGAGATACAGAGAAGTAG-ACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCAC
* * * *
155262 ACCCCCATCTTCTTGATGAGATACAGAGAAGTGGATCAGAATAAAGAAGCGGTCATCTTCCTGAT
65 ACCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGATCATCTTCCTGAT
* * * * * * * * * ** *
155327 GAGATGCAGAGAAGCGAACCAAGACATTGAAACAAAGCTCAATTTGAGTGAAAATTCAATCCCCC
130 GAGATACAAAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAACCCT
* * *
155392 ATCTTCCTGATGAGATATAAAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTAATGAGATA
195 ATCTTCCTGATGAGATACAGAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTGATGAGATA
* * * *
155457 CAGAGAAGTGGACCAAAACAATAAAGCGAAGCTCTAATGTGAGTGAAACTTCAAAACTCTATCTT
260 TAGAGAAGTGGACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTCAAAACCCCATCTT
* *
155522 CCTGATAAGATACAAAGAAGTGGATCAAAACAATGAAGTGGTCATCTTC
324 CCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTC
* * *
155571 TTAATGAAATACAGAGAAGTAGACCAAAACAATGAAGCGAA-CTTCAACGTGGGTGAAACTTCAC
1 CTAATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGC-TCAACGTGAGTGAAACTTCAC
* * * *
155635 ACCCCCATCCTCTTGATGAGATACAGAGAAGTGGATCAAAATGATGAAGC-AGTTATCTTCCTGA
65 ACCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGA-TCATCTTCCTGA
* * * *
155699 TGAGATACAAAGATGTGGACCAAAACATTGAAGCAAAGCTCAATGTTAATGAAACTTCAAAACCC
129 TGAGATACAAAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAACCC
* *
155764 TATCTTCCTGATGAGATACAGAGAAGTGAATCGAAATAATGAAGTGGTCATATTCCTGATGGGAT
194 TATCTTCCTGATGAGATACAGAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTGATGAGAT
* *
155829 ATAGAGAAGTGGATCAAAACAATGAAGTGAAGCTCAAATGTGAGTGAAACTTCAAAACCCCATCT
259 ATAGAGAAGTGGACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAAACTTCAAAACCCCATCT
155894 TCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTC
323 TCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTC
* *
155944 CTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTTAACGTGAGTGAAACTTCACA
1 CTAATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACA
* * *
156009 CCCCCATCTTCCTGATGAGATATAGAAAAGTGGATCAAAATGATGAAGCGATCATCTTCCTGATG
66 CCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGATCATCTTCCTGATG
* * *
156074 AGAT--AAAGAAGTGGACCAAAATAATGAAGCAAAGCTCAAATGTGAGTGAAACTTCAAAACTCA
131 AGATACAAAGAAGTGGACCAAAACAATGAAGCAAAGCTC-AATGTGAGTGAAACTTCAAAACCCT
* * * * ** *
156137 ATCTTCCTGATAAGATACAGAGAAGTGGATCAAAACAATGAAGTAGTCACCTTCCTGATGAGATT
195 ATCTTCCTGATGAGATACAGAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTGATGAGATA
* * * * *
156202 TAGAGACGTAGACCAAAACAATGGAGCGAAGCTCAATGTGAGTGAAACTTCACACCCCCATCTTC
260 TAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAACCCCATCTTC
** *
156267 CTGATGAGATACAGAGAAGTGGATCAAAATGATGAAGCGGTCATCTTC
325 CTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTC
* * *
156315 CTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCA-A
1 CTAATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACA
* * * * * *
156379 ACCCCATCTTCCTGATGAGATATAGAGAATTGGATCAAGATAATGAAACGATCATCTTCTTGATG
66 CCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGATCATCTTCCTGATG
* * * ** * *
156444 AGATACAGAGAAGTAGACCAAAATAATGAAGCGGAGCTTAATGAGAGTGAAACTTC-AAA-CCTC
131 AGATACAAAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAACCCT-
* *
156507 ATCTTCCAGATGAGATACAGAGAAATGGA
195 ATCTTCCTGATGAGATACAGAGAAGTGGA
156536 CCAAAAGATG
Statistics
Matches: 856, Mismatches: 100, Indels: 21
0.88 0.10 0.02
Matches are distributed among these distances:
369 1 0.00
370 92 0.11
371 180 0.21
372 135 0.16
373 445 0.52
374 3 0.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (372 bp):
CTAATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACA
CCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGATCATCTTCCTGATG
AGATACAAAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAACCCTA
TCTTCCTGATGAGATACAGAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTGATGAGATAT
AGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAAACCCCATCTTCC
TGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTC
Found at i:155960 original size:48 final size:48
Alignment explanation
Indices: 155889--155980 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
155879 TTCAAAACCC
* *
155889 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGT
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGTGGT
155937 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAG
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAG
155981 CGAAGCTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGTGGT
Found at i:156101 original size:46 final size:48
Alignment explanation
Indices: 156013--156103 Score: 141
Period size: 46 Copynumber: 1.9 Consensus size: 48
156003 TTCACACCCC
* *
156013 CATCTTCCTGATGAGATATAGAAAAGTGGATCAAAATGATGAAGCGAT
1 CATCTTCCTGATGAGATATAGAAAAGTGGACCAAAATAATGAAGCGAT
*
156061 CATCTTCCTGATGAGATA-A-AGAAGTGGACCAAAATAATGAAGC
1 CATCTTCCTGATGAGATATAGAAAAGTGGACCAAAATAATGAAGC
156104 AAAGCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 21 0.52
47 1 0.03
48 18 0.45
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (48 bp):
CATCTTCCTGATGAGATATAGAAAAGTGGACCAAAATAATGAAGCGAT
Found at i:156331 original size:48 final size:48
Alignment explanation
Indices: 156260--156353 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
156250 TTCACACCCC
* **
156260 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATGATGAAGCGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGGT
156308 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCG
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCG
156354 AAGCTCAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGGT
Found at i:158118 original size:30 final size:30
Alignment explanation
Indices: 158097--158184 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
158087 CTATTTTATT
158097 TAAAAAATATATTTTGACCCCTAAACTTTC
1 TAAAAAATATATTTTGACCCCTAAACTTTC
* * *
158127 TAAAAAATATGTTTTGACCCTTGAACTTTC
1 TAAAAAATATATTTTGACCCCTAAACTTTC
* * *
158157 CAAAAATTA-AGTTTTGATCCCTAAACTT
1 TAAAAAATATA-TTTTGACCCCTAAACTT
158185 CCCAAAATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (30 bp):
TAAAAAATATATTTTGACCCCTAAACTTTC
Found at i:158190 original size:30 final size:29
Alignment explanation
Indices: 158108--158222 Score: 115
Period size: 30 Copynumber: 3.9 Consensus size: 29
158098 AAAAAATATA
* * * *
158108 TTTTGACCCCTAAACTTTCTAAAAAATATG
1 TTTTGA-CCCTAAACTTCCCAAAAATTAAG
* *
158138 TTTTGACCCTTGAACTTTCCAAAAATTAAG
1 TTTTGACCC-TAAACTTCCCAAAAATTAAG
*
158168 TTTTGATCCCTAAACTTCCCAAAATTTAA-
1 TTTTGA-CCCTAAACTTCCCAAAAATTAAG
* *
158197 ATTTGACCCCAAACTTCCCAAAAATT
1 TTTTGACCCTAAACTTCCCAAAAATT
158223 CAAATTTGGC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.25
29 8 0.11
30 44 0.60
31 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (29 bp):
TTTTGACCCTAAACTTCCCAAAAATTAAG
Found at i:158227 original size:29 final size:28
Alignment explanation
Indices: 158150--158249 Score: 110
Period size: 30 Copynumber: 3.4 Consensus size: 28
158140 TTGACCCTTG
* * *
158150 AACTTTCCAAAAATTAAGTTTTGATCCCTA
1 AACTTCCCAAAAATTAA-ATTTGA-CCCCA
*
158180 AACTTCCCAAAATTTAAATTTGACCCCA
1 AACTTCCCAAAAATTAAATTTGACCCCA
*
158208 AACTTCCCAAAAATTCAAATTTGGCCTCCA
1 AACTTCCCAAAAATT-AAATTTGACC-CCA
*
158238 AACTTTCCAAAA
1 AACTTCCCAAAA
158250 TTTTGTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 18 0.30
29 14 0.23
30 29 0.48
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (28 bp):
AACTTCCCAAAAATTAAATTTGACCCCA
Found at i:158250 original size:29 final size:28
Alignment explanation
Indices: 158169--158251 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
158159 AAAATTAAGT
* *
158169 TTTGATCCCTAAACTTCCCAAAATTTAAA
1 TTTGA-CCCCAAACTTCCCAAAATTCAAA
158198 TTTGACCCCAAACTTCCCAAAAATTCAAA
1 TTTGACCCCAAACTTCCC-AAAATTCAAA
* *
158227 TTTGGCCTCCAAACTTTCCAAAATT
1 TTTGACC-CCAAACTTCCCAAAATT
158252 TTGTTTTTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.25
29 26 0.54
30 10 0.21
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (28 bp):
TTTGACCCCAAACTTCCCAAAATTCAAA
Found at i:161584 original size:17 final size:17
Alignment explanation
Indices: 161562--161595 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
161552 GTTCGCTCAT
161562 ACTATGCATATGCGAAC
1 ACTATGCATATGCGAAC
*
161579 ACTATGCATATGTGAAC
1 ACTATGCATATGCGAAC
161596 CCATACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (17 bp):
ACTATGCATATGCGAAC
Found at i:166581 original size:21 final size:21
Alignment explanation
Indices: 166556--166609 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
166546 TGAGTTTTTA
* * *
166556 GTATCGGTAGAAGTTTGATTT
1 GTATCGGTAGAAGTCTCACTT
**
166577 GTATCGGTAGTTGTCTCACTT
1 GTATCGGTAGAAGTCTCACTT
166598 GTATCGGTAGAA
1 GTATCGGTAGAA
166610 CTATCAAGGG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (21 bp):
GTATCGGTAGAAGTCTCACTT
Found at i:167939 original size:31 final size:30
Alignment explanation
Indices: 167891--167950 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
167881 CAACAATTTG
*
167891 ACTCTTTTTAAAAGGTTGATG-GTCAAATTA
1 ACTCATTTTAAAAGGTTGA-GAGTCAAATTA
*
167921 ACTCATTTTATAATGGTTGAGAGTCAAATT
1 ACTCATTTTA-AAAGGTTGAGAGTCAAATT
167951 TAGCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (30 bp):
ACTCATTTTAAAAGGTTGAGAGTCAAATTA
Found at i:168714 original size:33 final size:31
Alignment explanation
Indices: 168633--168715 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 31
168623 TATGAAATAT
*
168633 TAATTTTAAATATTTCTAAGTAATTAATATTAA
1 TAATTTTAAATA-TT-TAAGTAATTAATATAAA
*
168666 TAATTTATAAA-ATTTAATTAAATT-ATATAAA
1 TAATTT-TAAATATTTAAGT-AATTAATATAAA
168697 CTATATTTTAAATATTTAA
1 -TA-ATTTTAAATATTTAA
168716 ATGTTAGCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
31 10 0.23
32 12 0.28
33 17 0.40
34 4 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (31 bp):
TAATTTTAAATATTTAAGTAATTAATATAAA
Found at i:170552 original size:72 final size:72
Alignment explanation
Indices: 170350--170527 Score: 302
Period size: 72 Copynumber: 2.5 Consensus size: 72
170340 TTTTATGTCC
* * * *
170350 AAAATCAAATATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAAAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
170415 ATATCCA
66 ATATCCA
*
170422 AAAACCAGACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
*
170487 ATATTCA
66 ATATCCA
170494 AAAACCAAACATAAACAACTATTGATAAAACTAG
1 AAAACCAAACATAAACAACTATTGATAAAACTAG
170528 TTTAGCATTA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 99 1.00
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:170971 original size:18 final size:18
Alignment explanation
Indices: 170942--171011 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
170932 CGTTTCCATC
170942 AATGTTAACATCATTTAA
1 AATGTTAACATCATTTAA
*
170960 AAT-TTGAACATCATTTGA
1 AATGTT-AACATCATTTAA
*
170978 AGTGTTAACATCATTTAA
1 AATGTTAACATCATTTAA
170996 AATGTTAACATCATTT
1 AATGTTAACATCATTT
171012 CCTATATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
AATGTTAACATCATTTAA
Found at i:177849 original size:153 final size:152
Alignment explanation
Indices: 177592--178131 Score: 528
Period size: 153 Copynumber: 3.6 Consensus size: 152
177582 TAATTAAAAC
* * *
177592 AAAATCACTATTTTATTTCAAAATC-AAACCTTTTATTTCGAAATAGTTAAAAAAAATCAAAATT
1 AAAATCACTACTTTACTTAAAAATCTAAA-CTTTTATTTCGAAATAGTTAAAAAAAATCAAAATT
* * * * * **
177656 TTGTTTAAAAATTTAAATTTTTTCTTTAGAATCACCAAAAAACAAATTTCTATTTTTTTTTAAA-
65 TTATTTAAAAATTTAAACTTTTTCTTTAAAATAACCAAAAAACAAATTT-T-TATTTTTAAAAAT
*
177720 A-AAA-TCTAAAT-TTTTTTTAATG
128 ATAAATTCTAAATCTTTTTTTAATA
* *
177742 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCAAAATAGTTTTAAAAAAAATTTAAAA
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAG--TTAAAAAAAA-TCAAAA
* ** *
177807 CTTTATTTAAAAATTTAAACTTTTTCTTTAAAATAATTAAAAAACAGATTTTTATTTTTAAAAAT
63 TTTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACCAAAAAACAAATTTTTATTTTTAAAAAT
***
177872 ATAAATTTTCTTCTTCTTTTTTTAATA
128 ATAAA--TTCTAAATCTTTTTTTAATA
*
177899 AAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAATAGTT-AAAAAAATCAAAATTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
* *
177963 TATTTAAAAATTTAAACTTTTTC--T----T-----AAAAACAGATTGTTATTTTTAAAAATATA
66 TATTTAAAAATTTAAACTTTTTCTTTAAAATAACCAAAAAACAAATTTTTATTTTTAAAAATATA
* * *
178017 AACTT-T--CTCCTTTTTTAATG
131 AA-TTCTAAATCTTTTTTTAATA
* * * * * * *
178037 GAAATCACTAATTT-CTTAAAAATCTAGATTTTTATATCGAAATAGTTAAAAAAAATTAAAACTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
* *
178101 TATTTAAAAATTTAAATTTTTATTTTTAAAA
66 TATTTAAAAATTTAAACTTTT-TCTTTAAAA
178132 ATCTAAACTT
Statistics
Matches: 335, Mismatches: 37, Indels: 41
0.81 0.09 0.10
Matches are distributed among these distances:
137 31 0.09
138 57 0.17
139 1 0.00
140 1 0.00
141 3 0.01
142 30 0.09
147 1 0.00
150 38 0.11
151 13 0.04
152 12 0.04
153 81 0.24
154 7 0.02
155 2 0.01
156 4 0.01
157 54 0.16
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (152 bp):
AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
TATTTAAAAATTTAAACTTTTTCTTTAAAATAACCAAAAAACAAATTTTTATTTTTAAAAATATA
AATTCTAAATCTTTTTTTAATA
Found at i:178082 original size:137 final size:141
Alignment explanation
Indices: 177846--178121 Score: 418
Period size: 138 Copynumber: 2.0 Consensus size: 141
177836 AAAATAATTA
* * *
177846 AAAAACAGATTTTTATTTTTAAAAATATAAATTTTCTTCTTCTTTTTTTAATAAAAATCACTACT
1 AAAAACAGATTGTTATTTTTAAAAATATAAACTTTCTTC-TCTTTTTTTAATAAAAATCACTAAT
* *
177911 TTACTTAAAAATCTAAATTTTTATTTCGAAATAGTT-AAAAAAATCAAAATTTTATTTAAAAATT
65 TTACTTAAAAATCTAAATTTTTATATCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATT
177975 TAAACTTTTTCTT
130 TAAA-TTTTTCTT
**
177988 AAAAACAGATTGTTATTTTTAAAAATATAAACTTTC-TC-C-TTTTTTAATGGAAATCACTAATT
1 AAAAACAGATTGTTATTTTTAAAAATATAAACTTTCTTCTCTTTTTTTAATAAAAATCACTAATT
* *
178050 T-CTTAAAAATCTAGATTTTTATATCGAAATAGTTAAAAAAAATTAAAACTTTATTTAAAAATTT
66 TACTTAAAAATCTAAATTTTTATATCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTT
178114 AAATTTTT
131 AAATTTTT
178122 ATTTTTAAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
137 36 0.29
138 51 0.41
139 1 0.01
141 2 0.02
142 34 0.27
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (141 bp):
AAAAACAGATTGTTATTTTTAAAAATATAAACTTTCTTCTCTTTTTTTAATAAAAATCACTAATT
TACTTAAAAATCTAAATTTTTATATCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTT
AAATTTTTCTT
Found at i:178656 original size:3 final size:3
Alignment explanation
Indices: 178650--178745 Score: 174
Period size: 3 Copynumber: 32.0 Consensus size: 3
178640 CAACAACAAC
* *
178650 AAT AAT AAT AAC AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
178698 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
178746 TTGGGCCCTT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:179173 original size:42 final size:42
Alignment explanation
Indices: 179107--179606 Score: 546
Period size: 42 Copynumber: 11.9 Consensus size: 42
179097 AATAAATAAA
* ** * * *
179107 TAAATGGACCTCTATGCTTAGGCCTTTAATTGCAATGAAAAG
1 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* *
179149 TAAATGGACCTCTACACTTGGGCCT-TCGAATGCAA-GAAAAAG
1 TAAATGGACCTCCACACTTGGGCCTCT-AAATGCAATG-AAAAG
* * * *
179191 TAAATGGACTTCCACACGTAGGCCTCTAAATACAATGAAAAG
1 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* *
179233 TAAATAGG-CATCCACACCTGGGCCTCTAAATGCAATGAAAAG
1 TAAAT-GGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* *
179275 TAAATAGACCTCCACACTCGGGCCATCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACTTGGGCC-TCTAAATGCAATGAAAAG
*
179318 TAAATGGACCTGCACACTTGGGCCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* *
179360 TAAATGGACCTCCACACTTGGGCCTCTGAATGCAATGATAAG
1 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* * *
179402 TAAAT-GAGCCTCTACACTTGGGCCTCTGAATGCAGTGAAAAG
1 TAAATGGA-CCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* * * *
179444 TAAATGGACCTTCACACATGAGCCTCTAAATGTAATGAAAAG
1 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* * * **
179486 TAAATGAAACTCCACACCTGGGCCTCTAAATAAAATGAAAAG
1 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
* * * * * * *
179528 T--ACGGGCCTCCGCACCTGGGCCTTTGAATGCGATGAAAAG
1 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
*
179568 TAAATGGACCTCCACACCTT-GGCCTCTAAATGTAATGAA
1 TAAATGGACCTCCACA-CTTGGGCCTCTAAATGCAATGAA
179607 TTCTTTCCTT
Statistics
Matches: 386, Mismatches: 60, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.08
41 5 0.01
42 304 0.79
43 47 0.12
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
Found at i:179426 original size:169 final size:167
Alignment explanation
Indices: 179128--179606 Score: 542
Period size: 169 Copynumber: 2.9 Consensus size: 167
179118 CTATGCTTAG
* * *
179128 GCCTTTAATTGCAATGAAAAGTAAATGGACCTCTACACTTGGGCCT-TCGAATGCAA-GAAAAAG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTC-ACACTTGGGCCTCT-AAATGCAATG-AAAAG
* * * * * * *
179191 TAAATGGACTTCCACACGTAGGCCTCTAAATACAATGAAAAGTAAAT-AGGCATCCACACCTGGG
63 TAAATGGACCTCCACACCTGGGCCTCTGAATGCAATGAAAAGTAAATGA-GCCTCCACACTTGGG
*
179255 CCTCTAAATGCAATGAAAAGTAAATAGACCTCCACAC-TCGG
127 CCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACAT-GA
179296 GCCATCTAAATGCAATGAAAAGTAAATGGACCTGCACACTTGGGCCTCTAAATGCAATGAAAAGT
1 GCC-TCTAAATGCAATGAAAAGTAAATGGACCT-CACACTTGGGCCTCTAAATGCAATGAAAAGT
* * *
179361 AAATGGACCTCCACACTTGGGCCTCTGAATGCAATGATAAGTAAATGAGCCTCTACACTTGGGCC
64 AAATGGACCTCCACACCTGGGCCTCTGAATGCAATGAAAAGTAAATGAGCCTCCACACTTGGGCC
* * * *
179426 TCTGAATGCAGTGAAAAGTAAATGGACCTTCACACATGA
129 TCTAAATGCAATGAAAAGTAAATAGACCTCCACACATGA
* * * * **
179465 GCCTCTAAATGTAATGAAAAGTAAATGAAACTCCACACCTGGGCCTCTAAATAAAATGAAAAGT-
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCT-CACACTTGGGCCTCTAAATGCAATGAAAAGTA
* * * * *
179529 -ACGGGCCTCCGCACCTGGGCCTTTGAATGCGATGAAAAGTAAATG-GACCTCCACACCTT-GGC
65 AATGGACCTCCACACCTGGGCCTCTGAATGCAATGAAAAGTAAATGAG-CCTCCACA-CTTGGGC
*
179591 CTCTAAATGTAATGAA
128 CTCTAAATGCAATGAA
179607 TTCTTTCCTT
Statistics
Matches: 268, Mismatches: 35, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
165 1 0.00
166 61 0.23
167 3 0.01
168 57 0.21
169 141 0.53
170 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (167 bp):
GCCTCTAAATGCAATGAAAAGTAAATGGACCTCACACTTGGGCCTCTAAATGCAATGAAAAGTAA
ATGGACCTCCACACCTGGGCCTCTGAATGCAATGAAAAGTAAATGAGCCTCCACACTTGGGCCTC
TAAATGCAATGAAAAGTAAATAGACCTCCACACATGA
Found at i:180018 original size:22 final size:22
Alignment explanation
Indices: 179992--180043 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
179982 TCTTGCTCTC
179992 TTTTTCTAT-TTTTTTTTCTATT
1 TTTTTCT-TCTTTTTTTTCTATT
*
180014 TTTTTCTTCTTTTTTTTGTATT
1 TTTTTCTTCTTTTTTTTCTATT
180036 TTTTTCTT
1 TTTTTCTT
180044 GATTTAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTTCTTCTTTTTTTTCTATT
Found at i:180040 original size:12 final size:12
Alignment explanation
Indices: 179992--180030 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
179982 TCTTGCTCTC
179992 TTTTTCTATTTT
1 TTTTTCTATTTT
180004 TTTTTCTATTTT
1 TTTTTCTATTTT
180016 TTTCTTCT-TTTT
1 TTT-TTCTATTTT
180028 TTT
1 TTT
180031 GTATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTCTATTTT
Found at i:190243 original size:22 final size:21
Alignment explanation
Indices: 190205--190247 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
190195 GTCAATGAAG
190205 CATAAAAAATGCAAAATTAAAT
1 CATAAAAAATGCAAAA-TAAAT
*
190227 CATAAAACATTGC-AAATAAAT
1 CATAAAA-AATGCAAAATAAAT
190248 TCAAATACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.23
Consensus pattern (21 bp):
CATAAAAAATGCAAAATAAAT
Found at i:192167 original size:27 final size:26
Alignment explanation
Indices: 192137--192200 Score: 60
Period size: 27 Copynumber: 2.3 Consensus size: 26
192127 AAATGTAAAA
192137 AAAAAAAACATAAATAT-AAAT-AGACAT
1 AAAAAAAAC--AAATATGAAATAAGA-AT
*
192164 AAAAGTAAACAAATATGAAATAAGAAT
1 AAAA-AAAACAAATATGAAATAAGAAT
192191 AAATAAAAAC
1 AAA-AAAAAC
192201 TATGCAAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
26 6 0.19
27 17 0.55
28 8 0.26
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.17
Consensus pattern (26 bp):
AAAAAAAACAAATATGAAATAAGAAT
Found at i:192991 original size:50 final size:51
Alignment explanation
Indices: 192795--193030 Score: 152
Period size: 50 Copynumber: 4.7 Consensus size: 51
192785 AAAGGATTAA
* * * * *
192795 AAAAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTTCTTTAAAATCACT
1 AAAAAATCAAAATTTTATTTAAAAATCTAAACTTTTTTCTTTAAAATAACT
* * **
192846 -AAAAA-CAGATTTTTATTTTTTAAAAATCTAAACTTTCTTTCTTT--TTTAA-T
1 AAAAAATCAAAATTTTA---TTTAAAAATCTAAACTTT-TTTCTTTAAAATAACT
* ** * * *
192896 -GAAAATCACTATTTTACTTAAAAATCTAAACTTTTAT-TTTGAAAT-ACTT
1 AAAAAATCAAAATTTTATTTAAAAATCTAAACTTTTTTCTTTAAAATAAC-T
* *
192945 AAAAAATCAAAAGTTTATTTAAAAATTTAAA-TTTTTTCTTTAAAATAACT
1 AAAAAATCAAAATTTTATTTAAAAATCTAAACTTTTTTCTTTAAAATAACT
* * *
192995 AAAAAA-CATATTTTTATTTTTAAAAATATAAA-TTTT
1 AAAAAATCAAAATTTTA--TTTAAAAATCTAAACTTTT
193031 CTATTTTTTA
Statistics
Matches: 142, Mismatches: 29, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
46 3 0.02
47 3 0.02
48 18 0.13
49 19 0.13
50 48 0.34
51 28 0.20
52 16 0.11
53 7 0.05
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (51 bp):
AAAAAATCAAAATTTTATTTAAAAATCTAAACTTTTTTCTTTAAAATAACT
Found at i:193115 original size:149 final size:149
Alignment explanation
Indices: 192745--193242 Score: 555
Period size: 149 Copynumber: 3.4 Consensus size: 149
192735 TAATTAAAAC
* * *
192745 AAAATTACTATTTTACTTCAAAATCAAAACTTTTATTTCGAAA-GGATTAAAAAAAATCAAAACT
1 AAAATCACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAG-TTAAAAAAAATCAAAACT
* *
192809 TTGTTTAAAAATTTAAATTTTTTTCTTTAAAATCACT-AAAAACAGATTTTTATTTTTTAAAAAT
65 TTGTTTAAAAATTTAAA-TTTTTTCTTTAAAATAACTAAAAAACATATTTTTA-TTTTTAAAAAT
* *
192873 CTAAACTTTCTTTCTTTTTTAATG
128 CTAAA-TTT-TCTCTTTTTTAAAG
* * * *
192897 AAAATCACTATTTTACTTAAAAATCTAAACTTTTATTTTGAAATACTT--AAAAAATCAAAAGTT
1 AAAATCACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
* *
192960 TATTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATA
66 TGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATCTA
*
193025 AATTTTCTATTTTTTAAAG
131 AATTTTCTCTTTTTTAAAG
* * *
193044 AAAATCACTACTTTACTTAAAAATTC-AAATTTTTATTTTGAAATAGTTAAAAAAAATCAAAACT
1 AAAATCACTATTTTACTTAAAAA-TCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACT
* * *
193108 TTGTTTAAAAATATAAA-CTTTTC-------TAA--AAAAAGCATA-TTTT-TTTTTAAAAATCT
65 TTGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATCT
* *
193161 -AACTTTCTCGTTTTTAAAG
130 AAATTTTCTCTTTTTTAAAG
* * * * **
193180 AAAATCACTTTTTTACTTAAAAATCAAAGCTTTTTATTTCAAAATTGTTTTAAAAAATCAAAA
1 AAAATCACTATTTTACTTAAAAATCAAAAC-TTTTATTTCGAAATAGTTAAAAAAAATCAAAA
193243 ATTTTCCCAA
Statistics
Matches: 304, Mismatches: 35, Indels: 29
0.83 0.10 0.08
Matches are distributed among these distances:
135 2 0.01
136 39 0.13
137 39 0.13
138 4 0.01
139 9 0.03
141 3 0.01
147 53 0.17
148 10 0.03
149 61 0.20
150 43 0.14
152 41 0.13
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (149 bp):
AAAATCACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
TGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATCTA
AATTTTCTCTTTTTTAAAG
Found at i:193155 original size:137 final size:137
Alignment explanation
Indices: 192995--193242 Score: 340
Period size: 137 Copynumber: 1.8 Consensus size: 137
192985 TAAAATAACT
* *
192995 AAAAAACATATTTTTATTTTTAAAAATATAAATTTTCTATTTTTTAAAGAAAATCACTACTTTAC
1 AAAAAACATATTTTTATTTTTAAAAATAT-AACTTTCTAGTTTTTAAAGAAAATCACTACTTTAC
**
193060 TTAAAAATTCAAA-TTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATATAA
65 TTAAAAA-TCAAACTTTTTATTTCAAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATATAA
193124 ACTTTTCTA
129 ACTTTTCTA
* * **
193133 AAAAAAGCATA-TTTT-TTTTTAAAAATCTAACTTTCTCGTTTTTAAAGAAAATCACTTTTTTAC
1 AAAAAA-CATATTTTTATTTTTAAAAATATAACTTTCTAGTTTTTAAAGAAAATCACTACTTTAC
* **
193196 TTAAAAATCAAAGCTTTTTATTTCAAAATTGTTTTAAAAAATCAAAA
65 TTAAAAATCAAA-CTTTTTATTTCAAAATAGTTAAAAAAAATCAAAA
193243 ATTTTCCCAA
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
135 5 0.05
136 37 0.39
137 40 0.42
138 10 0.10
139 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (137 bp):
AAAAAACATATTTTTATTTTTAAAAATATAACTTTCTAGTTTTTAAAGAAAATCACTACTTTACT
TAAAAATCAAACTTTTTATTTCAAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATATAAAC
TTTTCTA
Found at i:193255 original size:136 final size:138
Alignment explanation
Indices: 192995--193255 Score: 325
Period size: 136 Copynumber: 1.9 Consensus size: 138
192985 TAAAATAACT
* *
192995 AAAAAACATATTTTTATTTTTAAAAATATAAATTTTCTATTTTTTAAAGAAAATCACTACTTTAC
1 AAAAAACATATTTTTATTTTTAAAAATATAAACTTTCTAGTTTTTAAAGAAAATCACTACTTTAC
** * **
193060 TTAAAAATTCAAATTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATATAAA
66 TTAAAAATTCAAATTTTTATTTCAAAATAGTTAAAAAAAATCAAAAATTTGTCCAAAAATATAAA
193125 CTTTTCTA
131 CTTTTCTA
* * **
193133 AAAAAAGCATA-TTTT-TTTTTAAAAATCT-AACTTTCTCGTTTTTAAAGAAAATCACTTTTTTA
1 AAAAAA-CATATTTTTATTTTTAAAAATATAAACTTTCTAGTTTTTAAAGAAAATCACTACTTTA
* ** *
193195 CTTAAAAA-TCAAAGCTTTTTATTTCAAAATTGTTTTAAAAAATCAAAAATTT-TCCCAAAAT
65 CTTAAAAATTCAAA--TTTTTATTTCAAAATAGTTAAAAAAAATCAAAAATTTGTCCAAAAAT
193256 CAAGCTATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
135 5 0.05
136 43 0.41
137 43 0.41
138 10 0.10
139 4 0.04
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.42
Consensus pattern (138 bp):
AAAAAACATATTTTTATTTTTAAAAATATAAACTTTCTAGTTTTTAAAGAAAATCACTACTTTAC
TTAAAAATTCAAATTTTTATTTCAAAATAGTTAAAAAAAATCAAAAATTTGTCCAAAAATATAAA
CTTTTCTA
Found at i:198534 original size:12 final size:12
Alignment explanation
Indices: 198517--198553 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
198507 ATGTGGAGAC
198517 AGAGGAAGGAAA
1 AGAGGAAGGAAA
*
198529 AGAGGAAGTAAA
1 AGAGGAAGGAAA
*
198541 AAAGGAAGGAAA
1 AGAGGAAGGAAA
198553 A
1 A
198554 TATGTCGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (12 bp):
AGAGGAAGGAAA
Found at i:203236 original size:13 final size:12
Alignment explanation
Indices: 203198--203238 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
203188 GGAGAGATTT
203198 TGGAAGAAAAAA
1 TGGAAGAAAAAA
*
203210 -GGAAGAAGAAA
1 TGGAAGAAAAAA
203221 TGGAAGAAAAAAA
1 TGGAAG-AAAAAA
203234 TGGAA
1 TGGAA
203239 ATAAAAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.40
12 5 0.20
13 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.07
Consensus pattern (12 bp):
TGGAAGAAAAAA
Found at i:204308 original size:40 final size:40
Alignment explanation
Indices: 204207--204470 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
204197 AGTCTAGCTA
* * ** *
204207 TGTTTACAGTGTCAC-GACTAGTTCAATAATAATATTGCAG
1 TGTTTACAGTGTCACTG-CCAGTTCAGTGGTAATATTACAG
* * * * * **
204247 TCTTT-CAGTGCCACTACCAGTTCAGTAGTAGTATTGTAG
1 TGTTTACAGTGTCACTGCCAGTTCAGTGGTAATATTACAG
* *
204286 TATTTACAGTGTCACTGTCAGTTCAGTGGTAATATTACAG
1 TGTTTACAGTGTCACTGCCAGTTCAGTGGTAATATTACAG
* *
204326 TGTTTACAGCGTCACTGCCAGTTCAGTGGTAATATTATAG
1 TGTTTACAGTGTCACTGCCAGTTCAGTGGTAATATTACAG
*
204366 TGTTTACAGTGTCACTGCCAGTTCAATGGTAATATTACAG
1 TGTTTACAGTGTCACTGCCAGTTCAGTGGTAATATTACAG
* * * * * *
204406 TGTTTACAATGTCACTACTAGTTCAGTTGCAATATCACAG
1 TGTTTACAGTGTCACTGCCAGTTCAGTGGTAATATTACAG
204446 TGTTTACAGTGTCACTGCCAGTTCA
1 TGTTTACAGTGTCACTGCCAGTTCA
204471 CACAATCCAG
Statistics
Matches: 189, Mismatches: 33, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
39 30 0.16
40 159 0.84
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (40 bp):
TGTTTACAGTGTCACTGCCAGTTCAGTGGTAATATTACAG
Found at i:208745 original size:14 final size:16
Alignment explanation
Indices: 208725--208761 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
208715 CATACCCAGA
208725 ATCAAATCAAA-CTCC
1 ATCAAATCAAAGCTCC
*
208740 -TCAAATGAAAGCTCC
1 ATCAAATCAAAGCTCC
208755 ATCAAAT
1 ATCAAAT
208762 TAGCCAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 9 0.47
15 4 0.21
16 6 0.32
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.22
Consensus pattern (16 bp):
ATCAAATCAAAGCTCC
Found at i:210300 original size:26 final size:26
Alignment explanation
Indices: 210270--210319 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
210260 TGCTACGTCA
210270 GATAACAGTTCAATCATAGATCAGTT
1 GATAACAGTTCAATCATAGATCAGTT
210296 GATAACAGTTCAATCATAGATCAG
1 GATAACAGTTCAATCATAGATCAG
210320 CTAACACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (26 bp):
GATAACAGTTCAATCATAGATCAGTT
Found at i:221181 original size:16 final size:16
Alignment explanation
Indices: 221160--221202 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
221150 GTCATCACAT
221160 TTTTATTGTC-ACTGCA
1 TTTTATTGTCAAC-GCA
221176 TTTTATTTGTCAACGCA
1 TTTTA-TTGTCAACGCA
221193 TTTATATTGT
1 TTT-TATTGT
221203 AGTTGCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 15 0.62
18 4 0.17
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTTATTGTCAACGCA
Found at i:223316 original size:35 final size:35
Alignment explanation
Indices: 223277--223357 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
223267 TCTTATTCAA
* *
223277 TTGCTCTGACATATTATATCATAGTATTCCAATAT
1 TTGCTCTGACATATTATATCACAGTATTACAATAT
223312 TTGCTCTGACATATTATATCACAGTATTACAATAT
1 TTGCTCTGACATATTATATCACAGTATTACAATAT
223347 TTGCTCTGACA
1 TTGCTCTGACA
223358 ATTTTAATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (35 bp):
TTGCTCTGACATATTATATCACAGTATTACAATAT
Found at i:226514 original size:20 final size:20
Alignment explanation
Indices: 226489--226551 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
226479 GACTAAAACT
226489 ATTGTTGCTTCTTTGAATCG
1 ATTGTTGCTTCTTTGAATCG
* *
226509 ATTGTTTG-TTGTTTTAAATCG
1 ATTG-TTGCTT-CTTTGAATCG
*
226530 ATTCTTTGCTTCTTTGAATCG
1 ATT-GTTGCTTCTTTGAATCG
226551 A
1 A
226552 ATCTTTATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 6 0.18
21 26 0.76
22 2 0.06
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.52
Consensus pattern (20 bp):
ATTGTTGCTTCTTTGAATCG
Found at i:226592 original size:20 final size:20
Alignment explanation
Indices: 226500--226592 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
226490 TTGTTGCTTC
* *
226500 TTTGAATCGATTGTTTGTTG
1 TTTGAATCGATTCTTTATTG
* * *
226520 TTTTAAATCGATTCTTTGCTTC
1 -TTTGAATCGATTCTTT-ATTG
*
226542 TTTGAATCGAATCTTTATTG
1 TTTGAATCGATTCTTTATTG
* *
226562 TTTGGATCGATTCATTATTG
1 TTTGAATCGATTCTTTATTG
226582 TTTGAATCGAT
1 TTTGAATCGAT
226593 CCTCTGTTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 29 0.49
21 28 0.47
22 2 0.03
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.52
Consensus pattern (20 bp):
TTTGAATCGATTCTTTATTG
Found at i:234714 original size:38 final size:38
Alignment explanation
Indices: 234663--234746 Score: 168
Period size: 38 Copynumber: 2.2 Consensus size: 38
234653 TTTCTATTTA
234663 TTTATTGGATCAATAAATGGAATATAAATTATTAAATT
1 TTTATTGGATCAATAAATGGAATATAAATTATTAAATT
234701 TTTATTGGATCAATAAATGGAATATAAATTATTAAATT
1 TTTATTGGATCAATAAATGGAATATAAATTATTAAATT
234739 TTTATTGG
1 TTTATTGG
234747 TAGTAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (38 bp):
TTTATTGGATCAATAAATGGAATATAAATTATTAAATT
Found at i:235327 original size:11 final size:11
Alignment explanation
Indices: 235311--235344 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
235301 GTATATTATT
235311 TAAAAATAATA
1 TAAAAATAATA
*
235322 TAAAAATTATA
1 TAAAAATAATA
235333 TAAATAATAATA
1 TAAA-AATAATA
235345 ATTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:235332 original size:27 final size:27
Alignment explanation
Indices: 235302--235382 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
235292 TCAATTTTTG
235302 TATATTATTTAAAAATAATATAAAAAT
1 TATATTATTTAAAAATAATATAAAAAT
** * *
235329 TATA-TAAATAATAATAATTAAAAAAAT
1 TATATTATTTAAAAATAA-TATAAAAAT
* *
235356 GAT-TTATTTAAAGACTAAT-TAAAAAT
1 TATATTATTTAAA-AATAATATAAAAAT
235382 T
1 T
235383 GAACCCAACG
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
26 16 0.40
27 20 0.50
28 4 0.10
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (27 bp):
TATATTATTTAAAAATAATATAAAAAT
Found at i:246441 original size:14 final size:14
Alignment explanation
Indices: 246422--246451 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
246412 AAATAATTCT
246422 TTAATTAAATAAAA
1 TTAATTAAATAAAA
*
246436 TTAATTAATTAAAA
1 TTAATTAAATAAAA
246450 TT
1 TT
246452 TTTAAACCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTAAATAAAA
Found at i:255149 original size:21 final size:20
Alignment explanation
Indices: 255124--255198 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
255114 ATATTTGAGG
*
255124 ATTGAGGATTGAAAATTCAAA
1 ATTGAAGATTGAAAATT-AAA
*
255145 ATTGAAAATTGAAAAATTAAA
1 ATTGAAGATTG-AAAATTAAA
*
255166 TTTGAAGATTGAAAATATAAA
1 ATTGAAGATTGAAAAT-TAAA
255187 ATTTGAA-ATTGA
1 A-TTGAAGATTGA
255199 GGATTGAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
20 5 0.11
21 30 0.65
22 11 0.24
ACGTcount: A:0.52, C:0.01, G:0.15, T:0.32
Consensus pattern (20 bp):
ATTGAAGATTGAAAATTAAA
Found at i:255162 original size:8 final size:7
Alignment explanation
Indices: 255131--255217 Score: 63
Period size: 7 Copynumber: 12.4 Consensus size: 7
255121 AGGATTGAGG
255131 ATTGAAA
1 ATTGAAA
*
255138 ATTCAAA
1 ATTGAAA
255145 ATTGAAA
1 ATTGAAA
255152 ATTGAAAA
1 ATTG-AAA
255160 ATT-AAA
1 ATTGAAA
* *
255166 TTTGAAG
1 ATTGAAA
255173 ATTGAAA
1 ATTGAAA
255180 ATAT-AAA
1 AT-TGAAA
255187 ATTTG-AA
1 A-TTGAAA
**
255194 ATTGAGG
1 ATTGAAA
*
255201 ATTGAAG
1 ATTGAAA
*
255208 ATTGAGA
1 ATTGAAA
255215 ATT
1 ATT
255218 TAGGAAGAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
6 8 0.13
7 47 0.75
8 8 0.13
ACGTcount: A:0.51, C:0.01, G:0.16, T:0.32
Consensus pattern (7 bp):
ATTGAAA
Found at i:255176 original size:28 final size:28
Alignment explanation
Indices: 255131--255212 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
255121 AGGATTGAGG
* *
255131 ATTGAAAATTCAAAATTGAAAATTGAAAA
1 ATTG-AAATTGAAGATTGAAAATTGAAAA
255160 ATT-AAATTTGAAGATTGAAAATAT-AAAA
1 ATTGAAA-TTGAAGATTGAAAAT-TGAAAA
* * *
255188 TTTGAAATTGAGGATTGAAGATTGA
1 ATTGAAATTGAAGATTGAAAATTGA
255213 GAATTTAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
27 4 0.09
28 33 0.75
29 7 0.16
ACGTcount: A:0.51, C:0.01, G:0.16, T:0.32
Consensus pattern (28 bp):
ATTGAAATTGAAGATTGAAAATTGAAAA
Found at i:255665 original size:17 final size:17
Alignment explanation
Indices: 255643--255677 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
255633 AAAGATGGAA
255643 AATAAT-ATATATTATAT
1 AATAATCATA-ATTATAT
255660 AATAATCATAATTATAT
1 AATAATCATAATTATAT
255677 A
1 A
255678 TTAGAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
AATAATCATAATTATAT
Found at i:263969 original size:25 final size:25
Alignment explanation
Indices: 263935--263999 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
263925 TAAATAAAAG
*
263935 ATTTAATATA-ATATCTAGTATATGA
1 ATTTAATATATATATATA-TATATGA
*
263960 ATTTGATATATATATATATATAT--
1 ATTTAATATATATATATATATATGA
*
263983 ATAT-ATATATATATATA
1 ATTTAATATATATATATA
264000 ATTTGGTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 14 0.39
26 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (25 bp):
ATTTAATATATATATATATATATGA
Found at i:263972 original size:2 final size:2
Alignment explanation
Indices: 263965--263999 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
263955 TATGAATTTG
263965 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
264000 ATTTGGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:264864 original size:36 final size:36
Alignment explanation
Indices: 264779--264867 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 36
264769 AAAACTGCTA
* *
264779 ATTGATGATATAAAATGCAAGAAGTGTAGACCAGAT
1 ATTGATGATATAAAATGAAAGAAGTGTAAACCAGAT
* * ** * *
264815 GTTAACCACATAAAATGAAAGAAGTGTAAACCA-TT
1 ATTGATGATATAAAATGAAAGAAGTGTAAACCAGAT
264850 CATTGATGATATAAAATG
1 -ATTGATGATATAAAATG
264868 TAAGCAATGC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (36 bp):
ATTGATGATATAAAATGAAAGAAGTGTAAACCAGAT
Found at i:265440 original size:19 final size:20
Alignment explanation
Indices: 265402--265457 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
265392 TTGAATTTTT
*
265402 AAAATTCAAAATAATA-TATA
1 AAAATT-AAAACAATATTATA
*
265422 AAAATTGAAA-AATATTATA
1 AAAATTAAAACAATATTATA
265441 AAAATTAAAACAATATT
1 AAAATTAAAACAATATT
265458 TCATGTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.12
19 16 0.50
20 12 0.38
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATTAAAACAATATTATA
Found at i:265872 original size:22 final size:23
Alignment explanation
Indices: 265822--265873 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
265812 TAATTTCACC
*
265822 TAATTTCTTTTCAATTTTTTGTA
1 TAATTTATTTTCAATTTTTTGTA
*
265845 T-CTTTATTTT-AATTTGTTT-TA
1 TAATTTATTTTCAATTT-TTTGTA
265866 TAATTTAT
1 TAATTTAT
265874 GTTTTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 8 0.33
22 15 0.62
23 1 0.04
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (23 bp):
TAATTTATTTTCAATTTTTTGTA
Done.