Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 149 of 167
Found at i:49211268 original size:82 final size:82
Alignment explanation
Indices: 49211077--49211400 Score: 315
Period size: 83 Copynumber: 3.9 Consensus size: 82
49211067 TATATCTCCA
* * * * * *
49211077 AAATAAAAACTTGGTGTGATTCAAGGCCAAAAGGTTTAAACTTTTTTCATACAAACCCCCCAATT
1 AAATCAAAACTTGGTCTTAATCAAGACCAAAA-G-TTAAAC-TTTTTCATACAAACCCCACAATT
49211142 TCCCTAACAAATT-AAATAAC
63 TCCCTAAC-AATTCAAATAAC
* *
49211162 AGA-CAAAAACTTGATCTTAATCAAGACCAAAAGATTAAAC-TTTTCATACAAACCCCA-AATTT
1 AAATC-AAAACTTGGTCTTAATCAAGACCAAAAG-TTAAACTTTTTCATACAAACCCCACAATTT
49211224 CCCTAACAATTCAAATAAC
64 CCCTAACAATTCAAATAAC
* * * * *
49211243 AAATCAGAACTTTGGTCTTAATCAAGGCTAAAAAGCTTACA-TTTTTCATTCAAA-CCCACAATT
1 AAATCAAAAC-TTGGTCTTAATCAAGAC-CAAAAG-TTAAACTTTTTCATACAAACCCCACAATT
*
49211306 TCCATAACAATTCAAATAA-
63 TCCCTAACAATTCAAATAAC
* * *
49211325 ACAATCACAACTTGGTTTTATTCAA-AGCC-AAAGTTCAAACTTTTTTCATACAAACCCCACAAT
1 A-AATCAAAACTTGGTCTTAATCAAGA-CCAAAAGTT-AAAC-TTTTTCATACAAACCCCACAAT
49211388 TTCCCTAACAATT
62 TTCCCTAACAATT
49211401 AAGACCAAAA
Statistics
Matches: 200, Mismatches: 26, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
79 2 0.01
80 10 0.05
81 25 0.12
82 62 0.31
83 70 0.35
84 7 0.04
85 24 0.12
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.29
Consensus pattern (82 bp):
AAATCAAAACTTGGTCTTAATCAAGACCAAAAGTTAAACTTTTTCATACAAACCCCACAATTTCC
CTAACAATTCAAATAAC
Found at i:49211542 original size:84 final size:79
Alignment explanation
Indices: 49211396--49211698 Score: 296
Period size: 84 Copynumber: 3.8 Consensus size: 79
49211386 ATTTCCCTAA
* * *
49211396 CAATTAAGACCAAAAGGTTAAACATTTCATACAAACCCCCCAATTTCCCTAACAATTCAAAT-AA
1 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAA--CCCCAATTTCCCTAACAATTCAAATAAA
49211460 CAAATCAGAACTTGGTCT
64 C-AATCAGAACTTGGT-T
* * *
49211478 CAATCAAGGCCAAAAGGTTTAAACTTTTTTCATACAAACCCTCAATTTCCTTCACAATCCAAATA
1 CAATCAAGGCCAAAAGG-TTAAAC--TTTTCATACAAACCC-CAATTTCCCTAACAATTCAAATA
*
49211543 AACAATCA-AATTTTGGTTT
62 AACAATCAGAA-CTTGG-TT
* * * * * * *
49211562 CAATCAAAGCC-AAAGTTTGAACTTTTAATAC-AACCCACAATTTCCTTCACGATTCAAATAAAC
1 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCC-CAATTTCCCTAACAATTCAAATAAAC
* *
49211625 AATCAGGACTTTGTT
65 AATCAGAACTTGGTT
49211640 ---TCAAGGCCAAAAGGTTAAACTTTTTCATACAAACCCCTAATTTCCCTAACAATTCAAAT
1 CAATCAAGGCCAAAAGGTTAAAC-TTTTCATACAAACCCC-AATTTCCCTAACAATTCAAAT
49211699 GAACCCTTTT
Statistics
Matches: 185, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
75 7 0.04
76 9 0.05
77 9 0.05
78 25 0.14
79 37 0.20
80 9 0.05
82 20 0.11
83 15 0.08
84 39 0.21
85 15 0.08
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.29
Consensus pattern (79 bp):
CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCCCAATTTCCCTAACAATTCAAATAAACA
ATCAGAACTTGGTT
Found at i:49211561 original size:219 final size:213
Alignment explanation
Indices: 49211184--49211606 Score: 589
Period size: 219 Copynumber: 2.0 Consensus size: 213
49211174 GATCTTAATC
*
49211184 AAGACCAAAAGATTAAACTTTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
1 AAGACCAAAAGATTAAACATTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
* * *
49211249 GAACTTTGGTCTTAATCAAGGCTAAAAAGCTTACATTTTTCATTCAAACCCACAATTTCCATAAC
66 GAACTTTGGTCTCAATCAAGGCCAAAAAGCTTACATTTTTCATACAAACCCACAATTTCCATAAC
* * * *
49211314 AATTCAAATAAACAATCACAACTTGGTTTTATTCAAAGCCAAAGTTCAAACTTTTTTCATACAAA
131 AATCCAAATAAACAATCACAACTTGGTTTCAATCAAAGCCAAAGTTCAAAC--TTTTAATAC-AA
49211379 CCCCACAATTTCCCTAACAATT
193 -CCCACAATTTCCCTAACAATT
* *
49211401 AAGACCAAAAGGTTAAACATTTCATACAAACCCCCCAATTTCCCTAACAATTCAAATAACAAATC
1 AAGACCAAAAGATTAAACATTTCATACAAA-CCCCAAATTTCCCTAACAATTCAAATAACAAATC
* * * * *
49211466 AGAAC-TTGGTCTCAATCAAGGCCAAAAGGTTTAAACTTTTTTCATACAAACCCTCAATTTCCTT
65 AGAACTTTGGTCTCAATCAAGGCCAAAAAGCTT--ACATTTTTCATACAAACCCACAATTTCCAT
* * **
49211530 CACAATCCAAATAAACAATCA-AATTTTGGTTTCAATCAAAGCCAAAGTTTGAACTTTTAATACA
128 AACAATCCAAATAAACAATCACAA-CTTGGTTTCAATCAAAGCCAAAGTTCAAACTTTTAATACA
49211594 ACCCACAATTTCC
192 ACCCACAATTTCC
49211607 TTCACGATTC
Statistics
Matches: 183, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
215 12 0.07
216 2 0.01
217 59 0.32
218 40 0.22
219 70 0.38
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (213 bp):
AAGACCAAAAGATTAAACATTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
GAACTTTGGTCTCAATCAAGGCCAAAAAGCTTACATTTTTCATACAAACCCACAATTTCCATAAC
AATCCAAATAAACAATCACAACTTGGTTTCAATCAAAGCCAAAGTTCAAACTTTTAATACAACCC
ACAATTTCCCTAACAATT
Found at i:49213367 original size:78 final size:78
Alignment explanation
Indices: 49213269--49213418 Score: 291
Period size: 78 Copynumber: 1.9 Consensus size: 78
49213259 TCTTTTTAAT
*
49213269 ATATATATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAGATTTTGACT
1 ATATATATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTTTGACT
49213334 ACTTAATATTTTA
66 ACTTAATATTTTA
49213347 ATATATATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTTTGACT
1 ATATATATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTTTGACT
49213412 ACTTAAT
66 ACTTAAT
49213419 TATACAATTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (78 bp):
ATATATATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTTTGACT
ACTTAATATTTTA
Found at i:49219035 original size:4 final size:4
Alignment explanation
Indices: 49219020--49219088 Score: 129
Period size: 4 Copynumber: 17.2 Consensus size: 4
49219010 CTGGTATGCA
*
49219020 TATG TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
49219068 TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG T
49219089 TTTTTAATGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:49228374 original size:35 final size:35
Alignment explanation
Indices: 49228330--49228433 Score: 190
Period size: 35 Copynumber: 3.0 Consensus size: 35
49228320 GGGTGTGTGA
* *
49228330 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAACATGGGAGAATGGGAG
49228365 TGGTGCTGGTGGCAGACAACATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAACATGGGAGAATGGGAG
49228400 TGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
1 TGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
49228434 AGAGGCAAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.24, C:0.12, G:0.47, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAACATGGGAGAATGGGAG
Found at i:49237940 original size:33 final size:33
Alignment explanation
Indices: 49237903--49237967 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
49237893 AAACTATTCA
* *
49237903 TAAAAATAT-TTAAAACTCAAATTAATTTAAAAT
1 TAAAAATATCTTAAAAC-AAAATTAACTTAAAAT
* *
49237936 TAAAATTATCTTAATACAAAATTAACTTAAAA
1 TAAAAATATCTTAAAACAAAATTAACTTAAAA
49237968 ATATTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (33 bp):
TAAAAATATCTTAAAACAAAATTAACTTAAAAT
Found at i:49237941 original size:17 final size:17
Alignment explanation
Indices: 49237910--49237967 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
49237900 TCATAAAAAT
*
49237910 ATTTAAAACTCAAATTA
1 ATTTAAAACTAAAATTA
*
49237927 ATTTAAAATTAAAATT-
1 ATTTAAAACTAAAATTA
*
49237943 ATCTTAATAC-AAAATTA
1 AT-TTAAAACTAAAATTA
*
49237960 ACTTAAAA
1 ATTTAAAA
49237968 ATATTCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAACTAAAATTA
Found at i:49255050 original size:21 final size:20
Alignment explanation
Indices: 49254997--49255051 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
49254987 AAATCTAAAT
*
49254997 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
49255017 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
49255037 TAAGAATACTGAAAT
1 TAA-AATACTGAAAT
49255052 GGCATAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:49257604 original size:3 final size:3
Alignment explanation
Indices: 49257596--49257649 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
49257586 TATATATCAA
**
49257596 TAT TAT TAT TAT CGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49257644 TAT TAT
1 TAT TAT
49257650 CATCGTAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:49258011 original size:21 final size:21
Alignment explanation
Indices: 49257978--49258033 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
49257968 TTTCTTATGC
*
49257978 TATTATA-TGTATATTTCTAA
1 TATTATATTGTATATTGCTAA
49257998 TATTATATTGTATATTGCTAA
1 TATTATATTGTATATTGCTAA
*
49258019 TACTATTATT-TATAT
1 TATTA-TATTGTATAT
49258034 CTATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 7 0.22
21 21 0.66
22 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TATTATATTGTATATTGCTAA
Found at i:49258238 original size:26 final size:22
Alignment explanation
Indices: 49258193--49258247 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
49258183 TTCCAAGTAC
*
49258193 ATATTTTTATACCATCTTATGTAT
1 ATATTTTTATACCATATTA--TAT
*
49258217 ATATTTTTAAATACTATATTATAT
1 ATATTTTT--ATACCATATTATAT
49258241 ATATTTT
1 ATATTTT
49258248 ATTAGTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 18 0.67
26 9 0.33
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTTTATACCATATTATAT
Found at i:49265476 original size:24 final size:21
Alignment explanation
Indices: 49265446--49265487 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
49265436 TGTACATACT
49265446 TTTTTTTTACATCATTTTAGTCC
1 TTTTTTTT--ATCATTTTAGTCC
49265469 TTTTTTTTATCATTTTAGT
1 TTTTTTTTATCATTTTAGT
49265488 TTTGAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTTTTATCATTTTAGTCC
Found at i:49266215 original size:20 final size:19
Alignment explanation
Indices: 49266188--49266229 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
49266178 AGATTCTTGT
*
49266188 ATAATTTTTGTTAAGAAAA
1 ATAAATTTTGTTAAGAAAA
49266207 ATAAATTTTGTTAAGAAAA
1 ATAAATTTTGTTAAGAAAA
49266226 ATAA
1 ATAA
49266230 TATCTTGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
ATAAATTTTGTTAAGAAAA
Found at i:49269410 original size:8 final size:8
Alignment explanation
Indices: 49269388--49269416 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
49269378 TCTCTCCTCG
49269388 TATTTTAT
1 TATTTTAT
49269396 T-TTTTAT
1 TATTTTAT
49269403 TATTTTAT
1 TATTTTAT
49269411 TATTTT
1 TATTTT
49269417 TTTTCCAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TATTTTAT
Found at i:49269724 original size:19 final size:19
Alignment explanation
Indices: 49269702--49269740 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
49269692 TGTTACGAGG
*
49269702 TTTTTGTGTTG-GTTTTGT
1 TTTTTGGGTTGAGTTTTGT
49269720 TTTTTGGGTTGAGTTTTGT
1 TTTTTGGGTTGAGTTTTGT
49269739 TT
1 TT
49269741 AACTGATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (19 bp):
TTTTTGGGTTGAGTTTTGT
Found at i:49273755 original size:21 final size:21
Alignment explanation
Indices: 49273729--49273769 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49273719 AGACGAGCGA
* *
49273729 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
49273750 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
49273770 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:49278655 original size:11 final size:11
Alignment explanation
Indices: 49278628--49278675 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
49278618 CAACTAAGAA
49278628 TTTTGCTGCTTT
1 TTTTGCT-CTTT
*
49278640 CTTTGCTCTTT
1 TTTTGCTCTTT
*
49278651 TTTTG-TTTTT
1 TTTTGCTCTTT
*
49278661 TTTTTCTCTTT
1 TTTTGCTCTTT
49278672 TTTT
1 TTTT
49278676 CATGCAATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 8 0.27
11 16 0.53
12 6 0.20
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTGCTCTTT
Found at i:49279217 original size:30 final size:31
Alignment explanation
Indices: 49279183--49279283 Score: 120
Period size: 30 Copynumber: 3.4 Consensus size: 31
49279173 TTAAAAATAA
*
49279183 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
49279213 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
49279243 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
49279273 AAATTTCATTT
1 AAATTTCATTT
49279284 CAATCCTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:49279567 original size:10 final size:10
Alignment explanation
Indices: 49279548--49279597 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
49279538 TTTTTCGAAG
*
49279548 GAAAAAAGAA
1 GAAAAGAGAA
49279558 GAAAAGAGAA
1 GAAAAGAGAA
49279568 GAAAAGAGAA
1 GAAAAGAGAA
*
49279578 -AAAGGAGAA
1 GAAAAGAGAA
49279587 GAAAAGA-AA
1 GAAAAGAGAA
49279596 GA
1 GA
49279598 GTACCGGCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 12 0.33
10 24 0.67
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:49279585 original size:19 final size:20
Alignment explanation
Indices: 49279548--49279597 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
49279538 TTTTTCGAAG
*
49279548 GAAAAAAGAAGAAAAGAGAA
1 GAAAAGAGAAGAAAAGAGAA
*
49279568 GAAAAGAGAA-AAAGGAGAA
1 GAAAAGAGAAGAAAAGAGAA
49279587 GAAAAGA-AAGA
1 GAAAAGAGAAGA
49279598 GTACCGGCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 16 0.59
20 9 0.33
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
GAAAAGAGAAGAAAAGAGAA
Found at i:49279672 original size:3 final size:3
Alignment explanation
Indices: 49279666--49279700 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
49279656 TAGGAGGAGG
49279666 AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
49279701 AGAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49279871 original size:18 final size:19
Alignment explanation
Indices: 49279817--49279874 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
49279807 AAAATTAATT
* *
49279817 AAAAA-AAACAACACAAAA
1 AAAAACAAACAGCAAAAAA
*
49279835 AAAAACAAATCAGCCAAAAA
1 AAAAACAAA-CAGCAAAAAA
*
49279855 AAAAACCAA-AGCAAAAAA
1 AAAAACAAACAGCAAAAAA
49279873 AA
1 AA
49279875 GCAGCCCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 15 0.45
19 3 0.09
20 15 0.45
ACGTcount: A:0.78, C:0.17, G:0.03, T:0.02
Consensus pattern (19 bp):
AAAAACAAACAGCAAAAAA
Found at i:49279880 original size:31 final size:33
Alignment explanation
Indices: 49279817--49279905 Score: 85
Period size: 32 Copynumber: 2.7 Consensus size: 33
49279807 AAAATTAATT
*
49279817 AAAAAAAACAACACAAAAAAAAACAAATCAG-CC
1 AAAAAAAA-AACACAAAAAAAAACAAAGCAGCCC
*
49279850 AAAAAAAAAAC-CAAAGCAAAAA-AAAGCAGCCC
1 AAAAAAAAAACACAAA-AAAAAACAAAGCAGCCC
* *
49279882 AAAAAGAAAAGGCCCAAAAAAAAA
1 AAAAA-AAAA-ACACAAAAAAAAA
49279906 GAAAAAACAG
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
31 10 0.21
32 15 0.32
33 12 0.26
34 6 0.13
35 4 0.09
ACGTcount: A:0.72, C:0.19, G:0.08, T:0.01
Consensus pattern (33 bp):
AAAAAAAAAACACAAAAAAAAACAAAGCAGCCC
Found at i:49279906 original size:14 final size:15
Alignment explanation
Indices: 49279867--49279907 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
49279857 AAACCAAAGC
49279867 AAAAAAAAGCAGCCCA
1 AAAAAAAAG-AGCCCA
49279883 AAAAGAAAAG-GCCCA
1 AAAA-AAAAGAGCCCA
49279898 AAAAAAAAGA
1 AAAAAAAAGA
49279908 AAAAACAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 4 0.17
17 5 0.22
ACGTcount: A:0.68, C:0.17, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGCCCA
Found at i:49280041 original size:15 final size:15
Alignment explanation
Indices: 49280021--49280118 Score: 110
Period size: 15 Copynumber: 6.5 Consensus size: 15
49280011 CAGGCCAGGA
* *
49280021 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
49280036 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
49280051 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
49280066 AAAAGAGAAAAAAAGG
1 AAAAAAGAAAAAAA-G
*
49280082 AAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
*
49280097 AAGAAAA-AAAGAAA-
1 AA-AAAAGAAAAAAAG
49280111 AAAAAAGA
1 AAAAAAGA
49280119 GTTTCAATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
13 4 0.06
14 3 0.04
15 47 0.66
16 17 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:49280047 original size:8 final size:8
Alignment explanation
Indices: 49280019--49280114 Score: 99
Period size: 8 Copynumber: 12.0 Consensus size: 8
49280009 AGCAGGCCAG
49280019 GAAAAAAA
1 GAAAAAAA
* *
49280027 GAGAGAAA
1 GAAAAAAA
49280035 G-AAAAAA
1 GAAAAAAA
49280042 GAAAAAAA
1 GAAAAAAA
*
49280050 G-AAAGAA
1 GAAAAAAA
49280057 GAAAAAAA
1 GAAAAAAA
*
49280065 G-AAAAGA
1 GAAAAAAA
49280072 GAAAAAAA
1 GAAAAAAA
*
49280080 GGAAAAAAG
1 -GAAAAAAA
49280089 GAAAAAAGAA
1 G-AAAAA-AA
49280099 GAAAAAAA
1 GAAAAAAA
49280107 GAAAAAAA
1 GAAAAAAA
49280115 AAGAGTTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
7 17 0.24
8 36 0.50
9 17 0.24
10 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:49280049 original size:23 final size:23
Alignment explanation
Indices: 49280019--49280118 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 23
49280009 AGCAGGCCAG
*
49280019 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
49280042 GAAAAAAAGAAAG-AAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
* *
49280064 -AGAAAAGAGAAAAAAAGGAAAAAA
1 GA-AAAAAAGAAAGAAA-GAAAAAA
*
49280088 GGAAAAAAG-AAGAAA-AAAAGAA
1 GAAAAAAAGAAAGAAAGAAAA-AA
49280110 -AAAAAAAGA
1 GAAAAAAAGA
49280119 GTTTCAATTC
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
21 12 0.19
22 20 0.31
23 19 0.30
24 13 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAAAAAGAAAGAAAGAAAAAA
Found at i:49280076 original size:27 final size:26
Alignment explanation
Indices: 49280019--49280114 Score: 94
Period size: 26 Copynumber: 3.7 Consensus size: 26
49280009 AGCAGGCCAG
49280019 GAAAAAAAGAGAGAAAGAAAA-AAGAAAA
1 GAAAAAAAGA-AGAAA-AAAAGAA-AAAA
* *
49280047 -AAAGAAAGAAGAAAAAAAGAAAAGA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
*
49280072 GAAAAAAAG--GAAAAAAGGAAAAAA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
49280096 GAAGAAAAA-AAGAAAAAAA
1 GAA-AAAAAGAAGAAAAAAA
49280115 AAGAGTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 16 0.28
25 12 0.21
26 21 0.37
27 8 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (26 bp):
GAAAAAAAGAAGAAAAAAAGAAAAAA
Found at i:49287920 original size:54 final size:51
Alignment explanation
Indices: 49287838--49287980 Score: 243
Period size: 54 Copynumber: 2.7 Consensus size: 51
49287828 NNNNNNNNNN
49287838 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTT--TTTCTATTTTT
49287892 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTTTCTATTTTT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTTCTATTTTT
49287942 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 C-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
49287981 CAAGGCACGC
Statistics
Matches: 87, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
50 12 0.14
51 36 0.41
52 2 0.02
54 37 0.43
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (51 bp):
CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTTTCTATTTTT
Found at i:49287969 original size:51 final size:51
Alignment explanation
Indices: 49287838--49287980 Score: 243
Period size: 51 Copynumber: 2.7 Consensus size: 51
49287828 NNNNNNNNNN
49287838 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT-ATTTCTATTTTT
49287892 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-TTTCTATTTTT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTATTTCTATTTTT
49287942 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 C-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
49287981 CAAGGCACGC
Statistics
Matches: 88, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
50 12 0.14
51 37 0.42
52 2 0.02
54 37 0.42
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (51 bp):
CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTATTTCTATTTTT
Found at i:49288287 original size:54 final size:55
Alignment explanation
Indices: 49288203--49288420 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
49288193 TCAATTTCTA
* *
49288203 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTAGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
49288258 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
49288312 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
49288363 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
49288418 CTT
1 CTT
49288421 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 47 0.32
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:49288333 original size:192 final size:191
Alignment explanation
Indices: 49287838--49288364 Score: 574
Period size: 192 Copynumber: 2.7 Consensus size: 191
49287828 NNNNNNNNNN
49287838 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAATCAAC
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAA-CAAC
49287903 TCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAG
65 TCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAG
*
49287968 GTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAATTCTACTTTT
130 GTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACTAATTCTACTTTT
* **** * *
49288030 C--AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGTT-GAGGTCTTTTC--
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C-TTTTA-A-TTTCTA--T-TTTTCAA
* * *** ** ** **** * *
49288090 --A-AATTC-TGTTTTTA-ATTTCTGTT-TTTTTTAATTTCTGTGTTTCAAAAAAAATCAACTCA
58 AAACAACTCATATTGCGAGAGGTGAGTTGAGCCTT--TTTCTATTTTTC--AAAAAATCAACTCA
* * *
49288149 TATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTC-AATT
119 TATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACTAA-T
**
49288213 TCTGTTTTT
183 TCTACTTTT
*
49288222 CAAAAATCAACTCATATTGCGAGAGGTGAGTAGAGCCTTTTAATTTCTATTTTTCAAAAACCAAC
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAA-CAAC
49288287 TCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAG
65 TCATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAG
49288352 GTGAGTTGAGCCT
130 GTGAGTTGAGCCT
49288365 TTTGCAAATT
Statistics
Matches: 258, Mismatches: 52, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
187 5 0.02
188 3 0.01
189 7 0.03
190 47 0.18
191 9 0.03
192 119 0.46
193 7 0.03
194 46 0.18
195 7 0.03
196 3 0.01
197 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (191 bp):
CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACAACT
CATATTGCGAGAGGTGAGTTGAGCCTTTTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACTAATTCTACTTTT
Found at i:49288681 original size:14 final size:15
Alignment explanation
Indices: 49288662--49288699 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
49288652 TTTAATTTTC
49288662 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
*
49288676 AAAATTTTAAAAATA
1 AAAATTTCAAAAATA
49288691 AAAATTTCA
1 AAAATTTCA
49288700 TTTTGACCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:49288728 original size:30 final size:29
Alignment explanation
Indices: 49288692--49288811 Score: 113
Period size: 30 Copynumber: 4.1 Consensus size: 29
49288682 TTAAAAATAA
49288692 AAATTTCATTTTGACCCCTAAATTTTTCCT
1 AAATTTCATTTTGACCCCTAAATTTTT-CT
*
49288722 AAATTTCATTTTGACCCTTAAACTTTCTT-T
1 AAATTTCATTTTGACCCCTAAA-TTT-TTCT
* * *
49288752 AAATTTCACTTAGACCCCTAAA-CTTTCATT
1 AAATTTCATTTTGACCCCTAAATTTTTC--T
**
49288782 AAATTTCATTTT-AATCCTAAA-TTTTCT
1 AAATTTCATTTTGACCCCTAAATTTTTCT
49288809 AAA
1 AAA
49288812 AATTACATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
27 6 0.08
28 1 0.01
29 11 0.15
30 52 0.69
31 3 0.04
32 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAATTTTTCT
Found at i:49289076 original size:10 final size:10
Alignment explanation
Indices: 49289057--49289106 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
49289047 TTTTTCGAAG
*
49289057 GAAAAAAGAA
1 GAAAAGAGAA
49289067 GAAAAGAGAA
1 GAAAAGAGAA
49289077 GAAAAGAGAA
1 GAAAAGAGAA
* *
49289087 -AGAGGAGAA
1 GAAAAGAGAA
49289096 GAAAAGA-AA
1 GAAAAGAGAA
49289105 GA
1 GA
49289107 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:49289107 original size:17 final size:19
Alignment explanation
Indices: 49289060--49289102 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
49289050 TTCGAAGGAA
49289060 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
49289078 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
49289097 AAAAGA
1 AAAAGA
49289103 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:49289178 original size:3 final size:3
Alignment explanation
Indices: 49289172--49289206 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
49289162 GTGTAGGAGG
*
49289172 AGA AGA AGA AGA AGA AGA AAA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
49289207 AGAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49289201 original size:16 final size:15
Alignment explanation
Indices: 49289180--49289225 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
49289170 GGAGAAGAAG
49289180 AAGAAGAAGAAAAAGA
1 AAGAAGAAGAAAAA-A
*
49289196 AAGAAGAAGAAAGAA
1 AAGAAGAAGAAAAAA
49289211 AA-AA-AAGAAAAAA
1 AAGAAGAAGAAAAAA
49289224 AA
1 AA
49289226 TTTAACAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 10 0.36
14 2 0.07
15 3 0.11
16 13 0.46
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAAAAA
Found at i:49289201 original size:19 final size:19
Alignment explanation
Indices: 49289177--49289219 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
49289167 GGAGGAGAAG
49289177 AAGAAGAAG-AAGAAAAAGA
1 AAGAAGAAGAAAGAAAAA-A
49289196 AAGAAGAAGAAAGAAAAAA
1 AAGAAGAAGAAAGAAAAAA
49289215 AAGAA
1 AAGAA
49289220 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAGAAGAAGAAAGAAAAAA
Found at i:49289341 original size:15 final size:16
Alignment explanation
Indices: 49289323--49289379 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 16
49289313 AAAATTAATT
49289323 AAAAAAAACAACA-CA
1 AAAAAAAACAACAGCA
49289338 AAAAAAAACAAATCAGCCA
1 AAAAAAAAC-AA-CAG-CA
49289357 AAAAAAAACCAA-AGCA
1 AAAAAAAA-CAACAGCA
49289373 AAAAAAA
1 AAAAAAA
49289380 GCAGCCCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.24
16 11 0.30
17 4 0.11
19 12 0.32
20 1 0.03
ACGTcount: A:0.77, C:0.18, G:0.04, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAACAGCA
Found at i:49289385 original size:30 final size:32
Alignment explanation
Indices: 49289324--49289396 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
49289314 AAATTAATTA
*
49289324 AAAAAAACAACACAAAAAAAAACAAATCAG-CC
1 AAAAAAA-AACACAAAAAAAAACAAAGCAGCCC
*
49289356 AAAAAAAAAC-CAAAGCAAAAA-AAAGCAGCCC
1 AAAAAAAAACACAAA-AAAAAACAAAGCAGCCC
49289387 AAAAAGAAAA
1 AAAAA-AAAA
49289397 GGCCCCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 10 0.28
31 15 0.42
32 11 0.31
ACGTcount: A:0.73, C:0.19, G:0.07, T:0.01
Consensus pattern (32 bp):
AAAAAAAAACACAAAAAAAAACAAAGCAGCCC
Found at i:49289537 original size:15 final size:15
Alignment explanation
Indices: 49289517--49289614 Score: 110
Period size: 15 Copynumber: 6.5 Consensus size: 15
49289507 CAGGCCAGGA
* *
49289517 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
49289532 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
49289547 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
49289562 AAAAGAGAAAAAAAGG
1 AAAAAAGAAAAAAA-G
*
49289578 AAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
*
49289593 AAGAAAA-AAAGAAA-
1 AA-AAAAGAAAAAAAG
49289607 AAAAAAGA
1 AAAAAAGA
49289615 GTTTCAATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
13 4 0.06
14 3 0.04
15 47 0.66
16 17 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:49289543 original size:8 final size:8
Alignment explanation
Indices: 49289515--49289610 Score: 99
Period size: 8 Copynumber: 12.0 Consensus size: 8
49289505 AGCAGGCCAG
49289515 GAAAAAAA
1 GAAAAAAA
* *
49289523 GAGAGAAA
1 GAAAAAAA
49289531 G-AAAAAA
1 GAAAAAAA
49289538 GAAAAAAA
1 GAAAAAAA
*
49289546 G-AAAGAA
1 GAAAAAAA
49289553 GAAAAAAA
1 GAAAAAAA
*
49289561 G-AAAAGA
1 GAAAAAAA
49289568 GAAAAAAA
1 GAAAAAAA
*
49289576 GGAAAAAAG
1 -GAAAAAAA
49289585 GAAAAAAGAA
1 G-AAAAA-AA
49289595 GAAAAAAA
1 GAAAAAAA
49289603 GAAAAAAA
1 GAAAAAAA
49289611 AAGAGTTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
7 17 0.24
8 36 0.50
9 17 0.24
10 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:49289545 original size:23 final size:23
Alignment explanation
Indices: 49289515--49289614 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 23
49289505 AGCAGGCCAG
*
49289515 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
49289538 GAAAAAAAGAAAG-AAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
* *
49289560 -AGAAAAGAGAAAAAAAGGAAAAAA
1 GA-AAAAAAGAAAGAAA-GAAAAAA
*
49289584 GGAAAAAAG-AAGAAA-AAAAGAA
1 GAAAAAAAGAAAGAAAGAAAA-AA
49289606 -AAAAAAAGA
1 GAAAAAAAGA
49289615 GTTTCAATTC
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
21 12 0.19
22 20 0.31
23 19 0.30
24 13 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAAAAAGAAAGAAAGAAAAAA
Found at i:49289572 original size:27 final size:26
Alignment explanation
Indices: 49289515--49289610 Score: 94
Period size: 26 Copynumber: 3.7 Consensus size: 26
49289505 AGCAGGCCAG
49289515 GAAAAAAAGAGAGAAAGAAAA-AAGAAAA
1 GAAAAAAAGA-AGAAA-AAAAGAA-AAAA
* *
49289543 -AAAGAAAGAAGAAAAAAAGAAAAGA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
*
49289568 GAAAAAAAG--GAAAAAAGGAAAAAA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
49289592 GAAGAAAAA-AAGAAAAAAA
1 GAA-AAAAAGAAGAAAAAAA
49289611 AAGAGTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 16 0.28
25 12 0.21
26 21 0.37
27 8 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (26 bp):
GAAAAAAAGAAGAAAAAAAGAAAAAA
Found at i:49289850 original size:24 final size:25
Alignment explanation
Indices: 49289816--49289869 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
49289806 TTTAGATAAT
49289816 TTTAATAAATAAGGCAACGAATCGA
1 TTTAATAAATAAGGCAACGAATCGA
49289841 TTTAA-AAATAAGGCAACGAATCGA
1 TTTAATAAATAAGGCAACGAATCGA
49289865 TTTAA
1 TTTAA
49289870 CATAAAATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (25 bp):
TTTAATAAATAAGGCAACGAATCGA
Found at i:49290217 original size:19 final size:21
Alignment explanation
Indices: 49290178--49290218 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49290168 AATTTTGTGT
*
49290178 AAAAAATCCAGTGTTTTCAAA
1 AAAAAATCCAGTGTTTCCAAA
49290199 AAAAAATCCA-T-TTTCCAAA
1 AAAAAATCCAGTGTTTCCAAA
49290218 A
1 A
49290219 TTTTTAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAAAATCCAGTGTTTCCAAA
Found at i:49290288 original size:18 final size:17
Alignment explanation
Indices: 49290214--49290446 Score: 216
Period size: 17 Copynumber: 13.4 Consensus size: 17
49290204 ATCCATTTTC
* *
49290214 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
49290232 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
49290250 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
49290266 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
49290283 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
49290301 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
49290318 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
*
49290336 CAAAAATTTTGGTGTTT
1 CAAAAATTTTCGTGTTT
**
49290353 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
49290371 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
49290388 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
*
49290406 CAAAAATTTTGGTGTTT
1 CAAAAATTTTCGTGTTT
**
49290423 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
49290441 CAAAAA
1 CAAAAA
49290447 AAAAATCTCG
Statistics
Matches: 171, Mismatches: 37, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
16 15 0.09
17 79 0.46
18 65 0.38
19 12 0.07
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:49290290 original size:70 final size:69
Alignment explanation
Indices: 49290235--49290445 Score: 320
Period size: 70 Copynumber: 3.1 Consensus size: 69
49290225 GTGTCTTCTA
* ** *
49290235 AAAATTTTT-GTGTTTCAAAAAT-T-TTCGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTCGTG
1 AAAATTTTTCGTATTTCAAAAATCTCTT-GTTTTCAAAAATTTTGGTGTTTCGAAAATTTTCGTG
49290297 TTTTC
65 TTTTC
*
49290302 AAAATTTTTCGTATTTCAAAAATCCTCTTGTTTTCAAAAATTTTGGTGTTTTGAAAATTTTCGTG
1 AAAATTTTTCGTATTTCAAAAAT-CTCTTGTTTTCAAAAATTTTGGTGTTTCGAAAATTTTCGTG
49290367 TTTTC
65 TTTTC
*
49290372 AAAATTTTTCGTATTTCAAAAATCCTCTTGTTTTCAAAAATTTTGGTGTTTTGAAAATTTTCGTG
1 AAAATTTTTCGTATTTCAAAAAT-CTCTTGTTTTCAAAAATTTTGGTGTTTCGAAAATTTTCGTG
49290437 TTTTC
65 TTTTC
49290442 AAAA
1 AAAA
49290446 AAAAAATCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
67 9 0.07
68 12 0.09
70 112 0.83
71 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (69 bp):
AAAATTTTTCGTATTTCAAAAATCTCTTGTTTTCAAAAATTTTGGTGTTTCGAAAATTTTCGTGT
TTTC
Found at i:49290319 original size:35 final size:35
Alignment explanation
Indices: 49290214--49290446 Score: 254
Period size: 35 Copynumber: 6.7 Consensus size: 35
49290204 ATCCATTTTC
* * * *
49290214 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAATTTTCGTGTTT
*
49290250 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT
* *
49290283 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT
** * *
49290318 CAAAAATCCTCTTGTTTTCAAAAATTTTGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT
** * *
49290353 TGAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT
** * *
49290388 CAAAAATCCTCTTGTTTTCAAAAATTTTGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT
**
49290423 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
49290447 AAAAATCTCG
Statistics
Matches: 160, Mismatches: 35, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
33 25 0.16
34 5 0.03
35 121 0.76
36 9 0.06
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (35 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT
Found at i:49293914 original size:12 final size:12
Alignment explanation
Indices: 49293897--49293931 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
49293887 TTCATTTGAC
*
49293897 ATTCATGCATTT
1 ATTCATGCATTA
49293909 ATTCATGCATTA
1 ATTCATGCATTA
*
49293921 ATTCATTCATT
1 ATTCATGCATT
49293932 GCATATCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (12 bp):
ATTCATGCATTA
Found at i:49302631 original size:122 final size:122
Alignment explanation
Indices: 49302490--49302718 Score: 309
Period size: 122 Copynumber: 1.9 Consensus size: 122
49302480 ATTTTTTAAA
** * *
49302490 AAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT-
** *
49302554 TATTTT-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
64 TATTTTAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
** *
49302612 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTA
*
49302677 TTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
66 TTTT--AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
49302719 CGGGGCACGC
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
121 5 0.05
122 53 0.58
123 3 0.03
124 31 0.34
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTA
TTTTAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:49302734 original size:71 final size:71
Alignment explanation
Indices: 49302594--49302755 Score: 207
Period size: 71 Copynumber: 2.3 Consensus size: 71
49302584 GAGTTAAGCC
** **
49302594 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTTAATTTTT-TTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCC
49302659 GAGGTAT
65 GAGGTAT
* ** *
49302666 TTTTAATTTTTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCG
1 TTTTAATTTTTTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCG
49302731 AGGTAT
66 AGGTAT
* * *
49302737 GTTTAGTTTATGTTTTAAA
1 TTTTAATTT-TTTTTTAAA
49302756 TTGACTCATT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
71 59 0.76
72 19 0.24
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (71 bp):
TTTTAATTTTTTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCG
AGGTAT
Found at i:49302817 original size:193 final size:192
Alignment explanation
Indices: 49302228--49303034 Score: 1488
Period size: 192 Copynumber: 4.2 Consensus size: 192
49302218 CTTTCCAAGG
49302228 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
49302293 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
49302358 TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
49302420 AAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
49302485 TTAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
49302550 TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
49302612 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-ATTT
* *
49302677 TTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTA
65 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
* *
49302742 GTTTATGTTTTAAATTGACTCATTTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
49302805 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
** *
49302870 AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
49302935 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
49302997 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
49303035 GGCTCACATG
Statistics
Matches: 596, Mismatches: 17, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
192 373 0.63
193 223 0.37
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:49302937 original size:385 final size:385
Alignment explanation
Indices: 49302228--49303034 Score: 1492
Period size: 385 Copynumber: 2.1 Consensus size: 385
49302218 CTTTCCAAGG
49302228 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
49302293 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAG
49302358 TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
131 TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
***
49302423 ATCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTA
196 ATCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTAAAA
49302488 AAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
261 AAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
49302553 ATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-
326 ATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCA
*
49302612 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-ATTT
*
49302677 TTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTA
65 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTA
* *
49302742 GTTTATGTTTTAAATTGACTCATTTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
130 GTTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
*
49302807 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTAAA
195 AATCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTAAA
49302872 AAAAAAATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
260 AAAAAAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
*
49302936 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCA
324 TTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCA
49302998 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
49303035 GGCTCACATG
Statistics
Matches: 410, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
384 60 0.15
385 310 0.76
386 40 0.10
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (385 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAG
TTTATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
ATCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTAAAA
AAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
ATATTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCA
Found at i:49303074 original size:16 final size:17
Alignment explanation
Indices: 49303053--49303086 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
49303043 TGCTGAGGTA
*
49303053 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
49303069 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
49303086 T
1 T
49303087 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:49303200 original size:85 final size:88
Alignment explanation
Indices: 49302992--49303235 Score: 275
Period size: 91 Copynumber: 2.8 Consensus size: 88
49302982 TAATTTTTGT
**
49302992 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC-CACA-GCTGAGGTATTT
* **
49303056 TCAATTTATGTTTTTTTCAATCTATGC
63 TCAATTTATGCTTTACTCAATCTA-GC
*
49303083 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CAC-GCTGAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCCACAGCTGAGGTATTTT
*
49303146 CAATTTCTGCTTTACT-AATTCTA-C
64 CAATTTATGCTTTACTCAA-TCTAGC
* * * *
49303170 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGTTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACA-GCTGAGGTATTTTC
49303234 AA
65 AA
49303236 ATTCTGTTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 36 0.27
87 20 0.15
88 2 0.01
89 29 0.21
91 43 0.32
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACAGCTGAGGTATTTTCA
ATTTATGCTTTACTCAATCTAGC
Found at i:49303250 original size:85 final size:88
Alignment explanation
Indices: 49302992--49303250 Score: 282
Period size: 85 Copynumber: 2.9 Consensus size: 88
49302982 TAATTTTTGT
** *
49302992 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
49303056 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
*
49303083 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
49303145 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* * * *
49303170 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGTTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
49303234 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
49303251 TCTGTTTTTT
Statistics
Matches: 146, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 28 0.19
88 2 0.01
89 31 0.21
91 40 0.27
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:49303431 original size:54 final size:55
Alignment explanation
Indices: 49303347--49303564 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
49303337 TCAATTTCTA
* *
49303347 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTAGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
49303402 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
49303456 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
49303507 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
49303562 CTT
1 CTT
49303565 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 47 0.32
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:49303825 original size:14 final size:15
Alignment explanation
Indices: 49303806--49303843 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
49303796 TTTAATTTTC
49303806 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
*
49303820 AAAATTTTAAAAATA
1 AAAATTTCAAAAATA
49303835 AAAATTTCA
1 AAAATTTCA
49303844 TTTTGACCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:49303872 original size:30 final size:29
Alignment explanation
Indices: 49303836--49303955 Score: 113
Period size: 30 Copynumber: 4.1 Consensus size: 29
49303826 TTAAAAATAA
49303836 AAATTTCATTTTGACCCCTAAATTTTTCCT
1 AAATTTCATTTTGACCCCTAAATTTTT-CT
*
49303866 AAATTTCATTTTGACCCTTAAACTTTCTT-T
1 AAATTTCATTTTGACCCCTAAA-TTT-TTCT
* * *
49303896 AAATTTCACTTAGACCCCTAAA-CTTTCATT
1 AAATTTCATTTTGACCCCTAAATTTTTC--T
**
49303926 AAATTTCATTTT-AATCCTAAA-TTTTCT
1 AAATTTCATTTTGACCCCTAAATTTTTCT
49303953 AAA
1 AAA
49303956 AATTACATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
27 6 0.08
28 1 0.01
29 11 0.15
30 52 0.69
31 3 0.04
32 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAATTTTTCT
Found at i:49304872 original size:20 final size:22
Alignment explanation
Indices: 49304831--49304873 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49304821 AATTTTGTGT
*
49304831 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
49304853 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
49304873 A
1 A
49304874 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:49304943 original size:18 final size:17
Alignment explanation
Indices: 49304869--49305031 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
49304859 ATCCATTTTC
* *
49304869 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
49304887 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
49304905 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
49304921 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
49304938 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
49304956 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
49304973 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
49304991 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
49305008 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
49305026 CAAAAA
1 CAAAAA
49305032 AAAAATCTCG
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:49305031 original size:35 final size:34
Alignment explanation
Indices: 49304869--49305031 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
49304859 ATCCATTTTC
* * * *
49304869 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
49304905 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
49304938 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
49304973 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
49305008 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
49305032 AAAAATCTCG
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:49306596 original size:14 final size:14
Alignment explanation
Indices: 49306579--49306620 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
49306569 CACATAATTG
49306579 AGAACAATAAACTA
1 AGAACAATAAACTA
* *
49306593 AGAAC-AT-AATTG
1 AGAACAATAAACTA
49306605 AGAACAATAAACTA
1 AGAACAATAAACTA
49306619 AG
1 AG
49306621 TATTTGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
14 10 0.45
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.17
Consensus pattern (14 bp):
AGAACAATAAACTA
Found at i:49306601 original size:26 final size:26
Alignment explanation
Indices: 49306570--49306620 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
49306560 AATTAAGCAC
49306570 ACATAATTGAGAACAATAAACTAAGA
1 ACATAATTGAGAACAATAAACTAAGA
49306596 ACATAATTGAGAACAATAAACTAAG
1 ACATAATTGAGAACAATAAACTAAG
49306621 TATTTGTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.20
Consensus pattern (26 bp):
ACATAATTGAGAACAATAAACTAAGA
Found at i:49306785 original size:28 final size:28
Alignment explanation
Indices: 49306745--49306801 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
49306735 AAAAAAGTTA
*
49306745 AGTTGGAGAAAAAAAGTGATGAATTTAG
1 AGTTAGAGAAAAAAAGTGATGAATTTAG
49306773 AGTTAGAGAAAAAAAGTGATGAATTTAG
1 AGTTAGAGAAAAAAAGTGATGAATTTAG
49306801 A
1 A
49306802 AAAGAATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (28 bp):
AGTTAGAGAAAAAAAGTGATGAATTTAG
Found at i:49310683 original size:25 final size:24
Alignment explanation
Indices: 49310655--49310709 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
49310645 ACATGAAATA
49310655 ATAAAAGAAATATATAACAAATAAC
1 ATAAAAG-AATATATAACAAATAAC
* * **
49310680 ATAAAAGTATATGTATGAAATAAC
1 ATAAAAGAATATATAACAAATAAC
49310704 ATAAAA
1 ATAAAA
49310710 ATATATGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (24 bp):
ATAAAAGAATATATAACAAATAAC
Found at i:49311123 original size:9 final size:9
Alignment explanation
Indices: 49311105--49311143 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
49311095 TATTATACAT
*
49311105 TAATACATA
1 TAATAAATA
49311114 TAATAAATA
1 TAATAAATA
* *
49311123 TATTTAATA
1 TAATAAATA
49311132 TAATAAATA
1 TAATAAATA
49311141 TAA
1 TAA
49311144 ATATTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATAAATA
Found at i:49311779 original size:14 final size:15
Alignment explanation
Indices: 49311754--49311782 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49311744 ATCTACTTTT
49311754 TTCTTATTTTTTGTA
1 TTCTTATTTTTTGTA
49311769 TTCTT-TTTTTTGTA
1 TTCTTATTTTTTGTA
49311783 CTATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (15 bp):
TTCTTATTTTTTGTA
Found at i:49313759 original size:5 final size:5
Alignment explanation
Indices: 49313749--49313774 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49313739 TATATATATC
49313749 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
49313775 AATTTCTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:49317822 original size:22 final size:24
Alignment explanation
Indices: 49317797--49317845 Score: 84
Period size: 22 Copynumber: 2.1 Consensus size: 24
49317787 TTAAAAAATA
49317797 TTTATATTATTTTAATT-TT-AAT
1 TTTATATTATTTTAATTATTGAAT
49317819 TTTATATTATTTTAATTATTGAAT
1 TTTATATTATTTTAATTATTGAAT
49317843 TTT
1 TTT
49317846 TTTATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.68
23 2 0.08
24 6 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTATATTATTTTAATTATTGAAT
Found at i:49320323 original size:23 final size:24
Alignment explanation
Indices: 49320287--49320332 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
49320277 TTTAATTTTC
49320287 AAAATTTTCAAAAAATAAAAATAA
1 AAAATTTTCAAAAAATAAAAATAA
49320311 AAAATTTTCAAAAAATAAAAAT
1 AAAATTTTCAAAAAATAAAAAT
49320333 TACATTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATTTTCAAAAAATAAAAATAA
Found at i:49320369 original size:30 final size:30
Alignment explanation
Indices: 49320329--49320434 Score: 124
Period size: 30 Copynumber: 3.5 Consensus size: 30
49320319 CAAAAAATAA
* **
49320329 AAATTACATTTTGGCCCCTAAACTTT-TTCT
1 AAATTTCATTTTAACCCCTAAACTTTCTT-T
* *
49320359 AAATTTCATTTTTACCCTTAAACTTTCTTT
1 AAATTTCATTTTAACCCCTAAACTTTCTTT
* *
49320389 AAATTTCACTTAAACCCCTAAACTTTCTTT
1 AAATTTCATTTTAACCCCTAAACTTTCTTT
*
49320419 AAATTGCATTTTAACC
1 AAATTTCATTTTAACC
49320435 TTAAATTTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 62 0.97
31 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTAACCCCTAAACTTTCTTT
Found at i:49321520 original size:17 final size:17
Alignment explanation
Indices: 49321462--49321522 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
49321452 TCCGAATTTA
49321462 ATATATATATTTT-T--
1 ATATATATATTTTGTAC
*
49321476 ATA-ACTATATTATGTAC
1 ATATA-TATATTTTGTAC
49321493 ATATATATATTTTGTAC
1 ATATATATATTTTGTAC
49321510 ATATCAT-TATTTT
1 ATAT-ATATATTTT
49321523 ATATTATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 1 0.03
17 24 0.62
18 3 0.08
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATATATATTTTGTAC
Found at i:49322068 original size:81 final size:81
Alignment explanation
Indices: 49321933--49322091 Score: 300
Period size: 81 Copynumber: 2.0 Consensus size: 81
49321923 AGCCATCAAT
* *
49321933 TTCATCGCTATGTTGGGTGAAATTCATCGGCTCGTGTTAAAAACGGGACGCCCTTTCTAAAAAAT
1 TTCATCGCTATGTTAGGTGAAATTCATCGGCTCGTGTTAAAAACGGGACACCCTTTCTAAAAAAT
49321998 CGAAAACTAAAAAGAA
66 CGAAAACTAAAAAGAA
49322014 TTCATCGCTATGTTAGGTGAAATTCATCGGCTCGTGTTAAAAACGGGACACCCTTTCTAAAAAAT
1 TTCATCGCTATGTTAGGTGAAATTCATCGGCTCGTGTTAAAAACGGGACACCCTTTCTAAAAAAT
49322079 CGAAAACTAAAAA
66 CGAAAACTAAAAA
49322092 TTCTCATTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (81 bp):
TTCATCGCTATGTTAGGTGAAATTCATCGGCTCGTGTTAAAAACGGGACACCCTTTCTAAAAAAT
CGAAAACTAAAAAGAA
Found at i:49322639 original size:261 final size:261
Alignment explanation
Indices: 49322175--49322667 Score: 896
Period size: 261 Copynumber: 1.9 Consensus size: 261
49322165 TTTAATAAGG
* *
49322175 TACCAATTTTGGACGTCGTGAGGGTGCTAATACCTTCCTCGTGCGTAACTGACTCCCGAACCCTA
1 TACCAATTTTGGACGTCGCGAGGGTGCTAATACCTTCCTCGTGCGTAACCGACTCCCGAACCCTA
*
49322240 TTTTTTTCTCTGGCTTTAAACGTAGACCTAAACTCGGCCTTCTTTTTGTTTAAAAAATAAATTTT
66 TTTTTTCCTCTGGCTTTAAACGTAGACCTAAACTCGGCCTTCTTTTTGTTTAAAAAATAAATTTT
49322305 CTTTTGAAAAAGAGGATTTATTAGGTGTCCGATCACACCTAAGAAAAAGGATCGGTGGCAACTCC
131 CTTTTGAAAAAGAGGATTTATTAGGTGTCCGATCACACCTAAGAAAAAGGATCGGTGGCAACTCC
49322370 CTTTTTTAATAAAATCGAAAGTCAGTTTTTAAATTTCTGTTGTGCAGAAGCGTGTAAAAGAGTAA
196 CTTTTTTAATAAAATCGAAAGTCAGTTTTTAAATTTCTGTTGTGCAGAAGCGTGTAAAAGAGTAA
49322435 A
261 A
49322436 TACCAATTTTGGACGTCGCGAGGGTGCTAATACCTTCCTCGTGCGTAACCGACTCCCGAACCCTA
1 TACCAATTTTGGACGTCGCGAGGGTGCTAATACCTTCCTCGTGCGTAACCGACTCCCGAACCCTA
*
49322501 TTTTTTCCTCTGGCTTTAAACGTAGACTTAAACTCGGCCTTCTTTTTGTTTAAAAAATAAATTTT
66 TTTTTTCCTCTGGCTTTAAACGTAGACCTAAACTCGGCCTTCTTTTTGTTTAAAAAATAAATTTT
* * * *
49322566 CTTTTGAAAAAGAGGATTTATTAGGTGTCCGATCACACCTAGGAAAAATGATCGGTGGCGACTCT
131 CTTTTGAAAAAGAGGATTTATTAGGTGTCCGATCACACCTAAGAAAAAGGATCGGTGGCAACTCC
* *
49322631 TTTTTTTAATAAAATCGAAAGTCGGTTTTTAAATTTC
196 CTTTTTTAATAAAATCGAAAGTCAGTTTTTAAATTTC
49322668 CAATAAATCG
Statistics
Matches: 222, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
261 222 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (261 bp):
TACCAATTTTGGACGTCGCGAGGGTGCTAATACCTTCCTCGTGCGTAACCGACTCCCGAACCCTA
TTTTTTCCTCTGGCTTTAAACGTAGACCTAAACTCGGCCTTCTTTTTGTTTAAAAAATAAATTTT
CTTTTGAAAAAGAGGATTTATTAGGTGTCCGATCACACCTAAGAAAAAGGATCGGTGGCAACTCC
CTTTTTTAATAAAATCGAAAGTCAGTTTTTAAATTTCTGTTGTGCAGAAGCGTGTAAAAGAGTAA
A
Found at i:49327594 original size:69 final size:69
Alignment explanation
Indices: 49327483--49327621 Score: 208
Period size: 69 Copynumber: 2.0 Consensus size: 69
49327473 CTACGATTCG
*
49327483 ATAGTGCCAGTAACGCAACTGGAAACCCGTTCCCTAACCATACCGAAGGAAATGTGAGCACAGTA
1 ATAGTGCCAGTAACGCAACTGGAAACCCGTTCCCTAACCATACCGAAGGAAATATGAGCACAGTA
49327548 GGGA
66 GGGA
* * * *
49327552 ATAGTGCTAGTAACGCCAC-GAGGAACCCGTTCCCTAACCATACCGAAGGGAATATGAGCACAGT
1 ATAGTGCCAGTAACGCAACTG-GAAACCCGTTCCCTAACCATACCGAAGGAAATATGAGCACAGT
*
49327616 GGGGA
65 AGGGA
49327621 A
1 A
49327622 AGAGGATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 1 0.02
69 62 0.98
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (69 bp):
ATAGTGCCAGTAACGCAACTGGAAACCCGTTCCCTAACCATACCGAAGGAAATATGAGCACAGTA
GGGA
Found at i:49334276 original size:14 final size:14
Alignment explanation
Indices: 49334257--49334287 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49334247 GAGGTAATTT
*
49334257 CAATTTATGTTTTG
1 CAATTTATATTTTG
49334271 CAATTTATATTTTG
1 CAATTTATATTTTG
49334285 CAA
1 CAA
49334288 AAATCAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (14 bp):
CAATTTATATTTTG
Found at i:49334491 original size:89 final size:87
Alignment explanation
Indices: 49334198--49334851 Score: 726
Period size: 89 Copynumber: 7.7 Consensus size: 87
49334188 ATTTGTCAAA
* * *
49334198 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * * *
49334263 ATGTTTTGCAATTTATATTTTGC
65 CTGTTTTTCAATCTATATTTTTC
* * *
49334286 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * *
49334351 TGTTCTT-AAT-GACTGTTTTT-
66 TGTTTTTCAATCTA-TATTTTTC
49334371 --AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
49334434 TGTTTTTTCCAATCTATATTTTTC
66 TG-TTTTT-CAATCTATATTTTTC
49334458 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
49334523 TGTTTTTTCCAATCTATATTTTTC
66 TG-TTTTT-CAATCTATATTTTTC
* * *
49334547 AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGTATTTTCGATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * *
49334612 CGTTTTTCAATTTATGTTTTTC
66 TGTTTTTCAATCTATATTTTTC
* * ** * *
49334634 AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
**
49334699 TG-TTTT---T-T-T-TTTTAA
66 TGTTTTTCAATCTATATTTTTC
* ** * ** *
49334714 AAAAAGTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAGTTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
49334779 CTG-TCTT---TC-A-A------
65 CTGTTTTTCAATCTATATTTTTC
* *
49334790 AAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCA
49334852 TTTTTTTGCT
Statistics
Matches: 494, Mismatches: 58, Indels: 39
0.84 0.10 0.07
Matches are distributed among these distances:
75 30 0.06
76 5 0.01
77 17 0.03
80 9 0.02
81 54 0.11
82 1 0.00
83 63 0.13
84 4 0.01
85 1 0.00
86 21 0.04
87 129 0.26
88 10 0.02
89 150 0.30
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATCTATATTTTTC
Found at i:49334827 original size:75 final size:78
Alignment explanation
Indices: 49334712--49334882 Score: 188
Period size: 75 Copynumber: 2.2 Consensus size: 78
49334702 TTTTTTTTTT
* * * *
49334712 AAAAAAAGTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACATTGAGGTATTTTCA-
1 AAAAAAA-TCAACTCATATTGCGAGAAATAAGTTAAGCCTCAAGCACACACTGAGGTATTTTCAT
49334775 GTTTCTG-TCTTTC
65 GTTTCTGCTCTTTC
** * *
49334788 AAAAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAT
1 AAAAAAATCAACTCATATTGCGAGAAATAAGTTAAGCCTCAAG-CACACACTGAGGTATTTTCAT
* * *
49334853 TTTTTTGCTTTTTC
65 GTTTCTGCTCTTTC
*
49334867 -AAAAGATCAACTCATA
1 AAAAAAATCAACTCATA
49334883 ATTCGATAGG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
75 30 0.38
76 7 0.09
77 17 0.22
78 20 0.25
79 5 0.06
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (78 bp):
AAAAAAATCAACTCATATTGCGAGAAATAAGTTAAGCCTCAAGCACACACTGAGGTATTTTCATG
TTTCTGCTCTTTC
Found at i:49335118 original size:23 final size:24
Alignment explanation
Indices: 49335087--49335132 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
49335077 TTTAATTTTC
*
49335087 AAAATTTTTAAAAAATAAAAATAA
1 AAAATTTTCAAAAAATAAAAATAA
49335111 AAAATTTTCAAAAAATAAAAAT
1 AAAATTTTCAAAAAATAAAAAT
49335133 TTCATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATTTTCAAAAAATAAAAATAA
Found at i:49335163 original size:30 final size:29
Alignment explanation
Indices: 49335129--49335248 Score: 127
Period size: 30 Copynumber: 4.1 Consensus size: 29
49335119 CAAAAAATAA
*
49335129 AAATTTCATTTTGACCCCCAAACTTTTCCT
1 AAATTTCATTTTGACCCCTAAAC-TTTCCT
* *
49335159 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTC-CT
* *
49335189 AAATTTCACTTAGACCCCTAAACTTTCCTT
1 AAATTTCATTTTGACCCCTAAACTTTCC-T
* * *
49335219 AAATTACATTTT-AACCCTAAA-TTTTCT
1 AAATTTCATTTTGACCCCTAAACTTTCCT
49335246 AAA
1 AAA
49335249 AATTACATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.05
28 4 0.05
29 12 0.16
30 56 0.74
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAACTTTCCT
Found at i:49335222 original size:60 final size:59
Alignment explanation
Indices: 49335129--49335245 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 59
49335119 CAAAAAATAA
* * * *
49335129 AAATTTCATTTTGACCCCCAAACTTTTCCTAAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCACTTAGACCCCCAAACTTTTCCTAAATTACATTTTAACCC-TAAACTTTCTTT
* *
49335189 AAATTTCACTTAGACCCCTAAAC-TTTCCTTAAATTACATTTTAACCCTAAATTTTCT
1 AAATTTCACTTAGACCCCCAAACTTTTCC-TAAATTACATTTTAACCCTAAACTTTCT
49335246 AAAAATTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 14 0.28
60 36 0.72
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.43
Consensus pattern (59 bp):
AAATTTCACTTAGACCCCCAAACTTTTCCTAAATTACATTTTAACCCTAAACTTTCTTT
Found at i:49335491 original size:16 final size:16
Alignment explanation
Indices: 49335469--49335511 Score: 63
Period size: 14 Copynumber: 2.8 Consensus size: 16
49335459 GAAAAAAAAG
49335469 AGCAAAAAAAAATTT-
1 AGCAAAAAAAAATTTC
49335484 AGC-AAAAAAAATTTCC
1 AGCAAAAAAAAATTT-C
49335500 AGCAAAAAAAAA
1 AGCAAAAAAAAA
49335512 CAACAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.44
15 3 0.12
16 3 0.12
17 8 0.32
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (16 bp):
AGCAAAAAAAAATTTC
Found at i:49342150 original size:36 final size:34
Alignment explanation
Indices: 49342110--49342189 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 34
49342100 TATATTGCAA
*
49342110 ATATCTTAGATTTTATTATGCCAATATTTGATACCC
1 ATATCTTTGATTTTATT-T-CCAATATTTGATACCC
*
49342146 ATATCTTTGA----CTTTCCAATATTTGATACCC
1 ATATCTTTGATTTTATTTCCAATATTTGATACCC
49342176 ATATCTTTGATTTT
1 ATATCTTTGATTTT
49342190 CCATAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
30 26 0.68
31 1 0.03
32 2 0.05
36 9 0.24
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.47
Consensus pattern (34 bp):
ATATCTTTGATTTTATTTCCAATATTTGATACCC
Found at i:49342164 original size:30 final size:30
Alignment explanation
Indices: 49342130--49342192 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
49342120 TTTTATTATG
49342130 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
49342160 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
49342190 CCA
1 CCA
49342193 TAAATATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:49342184 original size:15 final size:15
Alignment explanation
Indices: 49342136--49342186 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
49342126 TATGCCAATA
49342136 TTTGATACCCATATC
1 TTTGATACCCATATC
** *
49342151 TTTGACTTTCCA-ATA
1 TTTGA-TACCCATATC
49342166 TTTGATACCCATATC
1 TTTGATACCCATATC
49342181 TTTGAT
1 TTTGAT
49342187 TTTCCATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:49342687 original size:20 final size:21
Alignment explanation
Indices: 49342662--49342700 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
49342652 AAGAATGAGT
*
49342662 AGAATAAAGT-TTCTTGGAAG
1 AGAATAAACTATTCTTGGAAG
49342682 AGAATAAACTATTCTTGGA
1 AGAATAAACTATTCTTGGA
49342701 CTCTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (21 bp):
AGAATAAACTATTCTTGGAAG
Found at i:49343068 original size:26 final size:26
Alignment explanation
Indices: 49343031--49343084 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
49343021 GATTGTTTAG
*
49343031 AAGTCAATAGAAATTCTTTAAAAGAA
1 AAGTCAAGAGAAATTCTTTAAAAGAA
49343057 AAGTCAAGAGAAATTCTTTAAAAGAA
1 AAGTCAAGAGAAATTCTTTAAAAGAA
49343083 AA
1 AA
49343085 AATGAAAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (26 bp):
AAGTCAAGAGAAATTCTTTAAAAGAA
Found at i:49343098 original size:27 final size:26
Alignment explanation
Indices: 49343039--49343096 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
49343029 AGAAGTCAAT
* *
49343039 AGAAATTCTTTAAAAGAAAAGTCAAG
1 AGAAATTCTTTAAAAGAAAAATAAAG
49343065 AGAAATTCTTTAAAAGAAAAAATGAAAG
1 AGAAATTCTTTAAAAG-AAAAAT-AAAG
49343093 AGAA
1 AGAA
49343097 TTTTATTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 16 0.57
27 5 0.18
28 7 0.25
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.21
Consensus pattern (26 bp):
AGAAATTCTTTAAAAGAAAAATAAAG
Found at i:49351686 original size:16 final size:16
Alignment explanation
Indices: 49351665--49351696 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49351655 TAGCTAAGGC
49351665 GTCAGCCATTTAATTT
1 GTCAGCCATTTAATTT
*
49351681 GTCAGCTATTTAATTT
1 GTCAGCCATTTAATTT
49351697 TCATCTCGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (16 bp):
GTCAGCCATTTAATTT
Found at i:49353329 original size:246 final size:243
Alignment explanation
Indices: 49352844--49353346 Score: 609
Period size: 246 Copynumber: 2.1 Consensus size: 243
49352834 GCTTTTGTGT
* * * *
49352844 TATTATT-TGTATTTGATTGAGTTAGTATCACAAGTTAACTTGATACTGACTCAAGATTGATAAC
1 TATTATTATGTATTTGATTGAATTAGTATCACAAGTTAACTCGACACAGACTCAAGATTGATAAC
** * * *
49352908 AACACCATAAAAAAACAATTTTAATTTTTTTTTCATTTTAACATCGTACATATTTTGTATTATTA
66 AACACCATAAAAAAACAATTTTAATTACTTTTTCATTCTAAAATCGTACATATTTCGTATTATTA
* * * * *
49352973 TTAATTAGTTTCAAACTATACGTTTTATTATTTATTGTATTTTATTTTTAAACACACATTTGTGT
131 TTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACACACATTTGTAT
* * * * * *
49353038 TCTAAATTTGTGGTTTCCACACGCATATGTATGTGATAGGATTTCTAG
196 TCTAAATTTGTGATTTCCACACGCATACGCATATGAAAAGATTTCTAG
* * * *
49353086 TATTAGTTATGTATTTGATTGAATTGGTGTTACAAGTTAACTCGACACAGACTCAAGATTGATGA
1 TATTA-TTATGTATTTGATTGAATTAGTATCACAAGTTAACTCGACACAGACTCAAGATTGATAA
*** *
49353151 CAACACCAT-GTTAAACAA-TTTAATCTAACTTTTTCATTCTAATAAT-GTACATATTTCACGTG
65 CAACACCATAAAAAAACAATTTTAAT-T-ACTTTTTCATTCTAA-AATCGTACATATTT--CGTA
* *
49353213 TTATTATTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACGCATAT
125 TTATTATTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACACACAT
* * *
49353278 TTGTATTCTATATTTGTGATTTCCATACGCATACGCGTATGAAAAGATTTCTAG
190 TTGTATTCTAAATTTGTGATTTCCACACGCATACGCATATGAAAAGATTTCTAG
*
49353332 TATTAATAATGTATT
1 TATT-ATTATGTATT
49353347 AGATGACCAT
Statistics
Matches: 219, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
242 11 0.05
243 9 0.04
244 79 0.36
245 2 0.01
246 117 0.53
247 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (243 bp):
TATTATTATGTATTTGATTGAATTAGTATCACAAGTTAACTCGACACAGACTCAAGATTGATAAC
AACACCATAAAAAAACAATTTTAATTACTTTTTCATTCTAAAATCGTACATATTTCGTATTATTA
TTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACACACATTTGTAT
TCTAAATTTGTGATTTCCACACGCATACGCATATGAAAAGATTTCTAG
Found at i:49355868 original size:15 final size:15
Alignment explanation
Indices: 49355848--49355878 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49355838 CCATCACCGC
49355848 CTTATTTGAATCAAA
1 CTTATTTGAATCAAA
49355863 CTTATTTGAATCAAA
1 CTTATTTGAATCAAA
49355878 C
1 C
49355879 ATAATGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (15 bp):
CTTATTTGAATCAAA
Found at i:49357859 original size:6 final size:6
Alignment explanation
Indices: 49357845--49357886 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
49357835 CCCTGCAACA
* *
49357845 AATAAT AATAGT AATAAT AATAGT AATAGT AATAGT AATAGT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT
49357887 CGAACGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:49367036 original size:15 final size:15
Alignment explanation
Indices: 49366988--49367067 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 15
49366978 GTATCTTGGG
* *
49366988 TTTCTTTATCCTGAA
1 TTTCTTTATTCTGGA
* *
49367003 TCTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
49367018 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
49367033 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
* *
49367048 TTTTTTTATTC-GGT
1 TTTCTTTATTCTGGA
49367062 TTTCTT
1 TTTCTT
49367068 GTTATTTTTG
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
14 9 0.18
15 39 0.78
16 2 0.04
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49370848 original size:31 final size:31
Alignment explanation
Indices: 49370803--49370885 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
49370793 TAACTATTCA
* * *
49370803 TTGGCGATATAAAATGTAAAATGTATTATCG
1 TTGGTGATGTAAAATGTAAAATGTATGATCG
* *
49370834 TTGGTGATGTAAAATATAAAATGTGTGATCG
1 TTGGTGATGTAAAATGTAAAATGTATGATCG
49370865 TTGGTGATGTAAAATGTAAAA
1 TTGGTGATGTAAAATGTAAAA
49370886 AGGTGCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (31 bp):
TTGGTGATGTAAAATGTAAAATGTATGATCG
Found at i:49371192 original size:47 final size:47
Alignment explanation
Indices: 49371123--49371216 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
49371113 ACAAAGAGTT
*
49371123 CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCGGAGAG
1 CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCAGAGAG
* *
49371170 CACGGAGGAGCCCGAATATTGAATATATGCTTCACCTCTGCAGAGAG
1 CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCAGAGAG
49371217 ACACAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (47 bp):
CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCAGAGAG
Found at i:49371266 original size:106 final size:106
Alignment explanation
Indices: 49371073--49371276 Score: 227
Period size: 106 Copynumber: 1.9 Consensus size: 106
49371063 GTTAATGTCG
* * * *
49371073 GCCCGAATGCTGAATATATGCCTCACTTTAGCAAAGAGCCACAAAGAGTTCACGGAGGAGCCCAA
1 GCCCGAATACTGAATATATGCCTCACTCTAGCAAAGAGACACAAAGAGTTCACAGAGGAGCCCAA
* * * * *
49371138 ATATTGAATATATGCTTCACCTCCGCGGAGAGCACGGAGGA
66 ATACTAAATATATGCTTAACCTCCACGAAGAGCACGGAGGA
* * * *
49371179 GCCCGAATATTGAATATATGCTTCACCTCT-GCAGAGAGACACAAA-AGGTTCACAGAGGGGCCC
1 GCCCGAATACTGAATATATGCCTCA-CTCTAGCAAAGAGACACAAAGA-GTTCACAGAGGAGCCC
49371242 AAATACTAAATATA--CATCTAACCTCCACGAAGAGC
64 AAATACTAAATATATGC-T-TAACCTCCACGAAGAGC
49371277 CACAAAGGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
104 1 0.01
105 2 0.02
106 75 0.93
107 3 0.04
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (106 bp):
GCCCGAATACTGAATATATGCCTCACTCTAGCAAAGAGACACAAAGAGTTCACAGAGGAGCCCAA
ATACTAAATATATGCTTAACCTCCACGAAGAGCACGGAGGA
Found at i:49373175 original size:35 final size:34
Alignment explanation
Indices: 49373136--49373241 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 34
49373126 AGTAATGAAT
*
49373136 GTCTTGCTCCCGCAA-ATGGAGGAAGGCTTACGGAG
1 GTCTTGCTCCC-AAACATGG-GGAAGGCTTACGGAG
*
49373171 GTCTTGGTCCCAAACATGGGGAA-GCTTACGGGAG
1 GTCTTGCTCCCAAACATGGGGAAGGCTTAC-GGAG
* *
49373205 GTCCTGCTCCCAAACATAGGGAAGGCTTACGAGAG
1 GTCTTGCTCCCAAACATGGGGAAGGCTTACG-GAG
49373240 GT
1 GT
49373242 ATCATATGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
33 6 0.10
34 31 0.50
35 25 0.40
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.20
Consensus pattern (34 bp):
GTCTTGCTCCCAAACATGGGGAAGGCTTACGGAG
Found at i:49378591 original size:21 final size:21
Alignment explanation
Indices: 49378567--49378611 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49378557 TAGCAATAAC
49378567 AAAGGGGAGTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
** **
49378588 AAAGTTGCTTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
49378609 AAA
1 AAA
49378612 CCTGCAAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAGGGGAGTCAAATACCATG
Found at i:49388628 original size:23 final size:23
Alignment explanation
Indices: 49388583--49388628 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49388573 TTTGTTTCCT
* * *
49388583 TTTGCCTTCTCTTTTGCTGGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
*
49388606 TTTGTCTTCTCGTTTGATAGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
49388629 ATGCTTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
TTTGCCTTCTCGTTTGATAGAAA
Found at i:49393189 original size:21 final size:22
Alignment explanation
Indices: 49393160--49393206 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
49393150 CAGAAGGAGT
*
49393160 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
49393182 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
49393203 GAGT
1 GAGT
49393207 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:49396312 original size:36 final size:36
Alignment explanation
Indices: 49396265--49396338 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
49396255 AAAAAAAAAC
49396265 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
1 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
49396301 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
1 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
49396337 AA
1 AA
49396339 TTTTAGGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (36 bp):
AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
Found at i:49398168 original size:30 final size:30
Alignment explanation
Indices: 49398123--49398179 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49398113 GTAACCTTAA
*
49398123 TATAATGTCAACTTGTGTGAGCAACTTTAT
1 TATAATATCAACTTGTGTGAGCAACTTTAT
*
49398153 TATAATATCAGCTTGTGTGAGCAACTT
1 TATAATATCAACTTGTGTGAGCAACTT
49398180 ATTCCCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (30 bp):
TATAATATCAACTTGTGTGAGCAACTTTAT
Found at i:49404962 original size:40 final size:39
Alignment explanation
Indices: 49404877--49404990 Score: 106
Period size: 40 Copynumber: 2.9 Consensus size: 39
49404867 CGTCAAATAG
* *
49404877 ACCG-AACACACCATACAGAAGCTCATAAGAGCTTATCCA
1 ACCGAAACACGCCA-ACAAAAGCTCATAAGAGCTTATCCA
* * *
49404916 ATCGAAATACGCCAAACAAAAGCTCATAAGAG-TTGGTCCA
1 ACCGAAACACGCC-AACAAAAGCTCATAAGAGCTT-ATCCA
* * * *
49404956 CCCGAAACACGTCAACAGAAGCTCATAAAAGCTTA
1 ACCGAAACACGCCAACAAAAGCTCATAAGAGCTTA
49404991 ATAGAAACTC
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
39 21 0.36
40 37 0.63
41 1 0.02
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.16
Consensus pattern (39 bp):
ACCGAAACACGCCAACAAAAGCTCATAAGAGCTTATCCA
Found at i:49409991 original size:17 final size:17
Alignment explanation
Indices: 49409971--49410004 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49409961 AGGCTTAGGT
*
49409971 TTAAAAATTTTGATTAA
1 TTAAAAATTTTAATTAA
*
49409988 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
49410005 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:49417663 original size:21 final size:21
Alignment explanation
Indices: 49417633--49417677 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
49417623 GAAGGATCAA
49417633 ATGCTAGAGTC-CTAGAAAAAC
1 ATGCTAGAGTCAC-AGAAAAAC
* *
49417654 ATGCTGGAGTCACAGAACAAC
1 ATGCTAGAGTCACAGAAAAAC
49417675 ATG
1 ATG
49417678 ATGAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (21 bp):
ATGCTAGAGTCACAGAAAAAC
Found at i:49425676 original size:135 final size:135
Alignment explanation
Indices: 49425434--49425876 Score: 546
Period size: 135 Copynumber: 3.3 Consensus size: 135
49425424 AAAGACAGAT
* * * * * *
49425434 ATCATCAGCCTTATCTTTACTGAGCAGAAGTGGAGCAGGTTAAACATACCCGATCTTATCTTCAC
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
*
49425499 TGAGCAGGAGTGAAGCAGATCGAGTTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
49425564 TTCTA
131 TTCTA
*
49425569 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
* ** **
49425634 TGAGCAAGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATTAAATAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
*
49425699 TTCCA
131 TTCTA
* * * * *
49425704 ATCATCAGCTTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTAAATATACCAGGTCTTATCTTCGC
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
* * * * * * * * * * *
49425769 TGAGCAGGAGCGGAGCAGACCAAATTTCGGTGAATCTTATCTCCATGGATCGACAATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
49425834 TT-TCA
131 TTCT-A
** * * * *
49425839 GCCACCAATCTTATTTTCACTAAGCAGGAGTGGAGCAG
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAG
49425877 ATCAGATTTC
Statistics
Matches: 261, Mismatches: 46, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
135 261 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (135 bp):
ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
TTCTA
Found at i:49427616 original size:46 final size:46
Alignment explanation
Indices: 49427566--49427927 Score: 388
Period size: 46 Copynumber: 7.8 Consensus size: 46
49427556 TGGTTGAGCA
49427566 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49427612 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
49427657 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49427705 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
49427750 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49427798 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49427843 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49427891 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49427928 GCGGGTTACA
Statistics
Matches: 267, Mismatches: 22, Indels: 54
0.78 0.06 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.03
46 121 0.45
47 87 0.33
48 9 0.03
50 14 0.05
51 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49427722 original size:93 final size:93
Alignment explanation
Indices: 49427563--49427920 Score: 689
Period size: 93 Copynumber: 3.8 Consensus size: 93
49427553 GGATGGTTGA
49427563 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
49427628 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
49427656 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
49427721 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
49427749 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
49427814 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
49427842 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
49427907 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49427921 CTTATGGGCG
Statistics
Matches: 262, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 262 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49430353 original size:17 final size:17
Alignment explanation
Indices: 49430331--49430374 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
49430321 GTTATATTAT
49430331 TATTTTTTACTAATAAG
1 TATTTTTTACTAATAAG
* *
49430348 TATTTTTATACTATTTAG
1 TATTTTT-TACTAATAAG
*
49430366 TTTTTTTTA
1 TATTTTTTA
49430375 GGCTCATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (17 bp):
TATTTTTTACTAATAAG
Found at i:49432362 original size:18 final size:17
Alignment explanation
Indices: 49432330--49432374 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
49432320 TATCATAGGG
**
49432330 TTTTAAAATTTTATAAA
1 TTTTAAAATAATATAAA
*
49432347 TATTTTAAATAATATAAA
1 T-TTTAAAATAATATAAA
49432365 TTTTAAAATA
1 TTTTAAAATA
49432375 TATTAGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTAAAATAATATAAA
Found at i:49432390 original size:27 final size:27
Alignment explanation
Indices: 49432335--49432391 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
49432325 TAGGGTTTTA
*
49432335 AAATTTTATAAATATTTTAAATAATAT
1 AAATTTTATAAATATTTGAAATAATAT
49432362 AAATTTTA-AAATATATTAGAAATAA-AT
1 AAATTTTATAAATAT-TT-GAAATAATAT
49432389 AAA
1 AAA
49432392 AAATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 6 0.22
27 15 0.56
28 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATTTTATAAATATTTGAAATAATAT
Found at i:49438905 original size:16 final size:16
Alignment explanation
Indices: 49438881--49438914 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49438871 ACGCGATAAG
*
49438881 TAATATTACATTTCAA
1 TAATATTACATTCCAA
*
49438897 TAATTTTACATTCCAA
1 TAATATTACATTCCAA
49438913 TA
1 TA
49438915 GTCAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATTACATTCCAA
Found at i:49442494 original size:37 final size:37
Alignment explanation
Indices: 49442409--49442494 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
49442399 ACATGTCACT
* *
49442409 TTTTAATATATATTAAGTAAATACCATTTCCATGTCA
1 TTTTAATATATATCAAGTAAATACCATTTCCAAGTCA
* * *
49442446 TGTTTCA-ATATATCATGTAAATATCATTTCCAAGT-A
1 T-TTTAATATATATCAAGTAAATACCATTTCCAAGTCA
49442482 TTTTAAGTATATA
1 TTTTAA-TATATA
49442495 CCGATAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
35 4 0.10
36 2 0.05
37 30 0.75
38 4 0.10
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTAATATATATCAAGTAAATACCATTTCCAAGTCA
Found at i:49444332 original size:10 final size:10
Alignment explanation
Indices: 49444317--49444365 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
49444307 TCTTTCTCTT
49444317 TTTCTTTTTC
1 TTTCTTTTTC
49444327 TTTCTTTTTC
1 TTTCTTTTTC
**
49444337 GTTTGGTTTTC
1 -TTTCTTTTTC
*
49444348 TATTCTGTTTC
1 T-TTCTTTTTC
49444359 TTTCTTT
1 TTTCTTT
49444366 ATTTGTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 16 0.52
11 15 0.48
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.73
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:49444385 original size:5 final size:5
Alignment explanation
Indices: 49444375--49444465 Score: 82
Period size: 5 Copynumber: 18.4 Consensus size: 5
49444365 TATTTGTTTT
* *
49444375 TATAA TATAA TATAA TATAA TATAA TATAG TATAA TATAG TATAA TAT-A
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
49444424 TATAC T-TAA -ACATT TATAA TAT-A TATAA TAATATA TATAA TA
1 TATAA TATAA TATA-A TATAA TATAA TATAA T-ATA-A TATAA TA
49444466 AACTTATAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 11 0.16
5 48 0.70
6 8 0.12
7 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:49447456 original size:42 final size:42
Alignment explanation
Indices: 49447335--49447500 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 42
49447325 GGAATGTGAA
* * *
49447335 CATCG-ATCTGAGATATCGTGTAAGACCGTGTCTGGGATACAGG
1 CATCGTATCTGAG-TTTCGTGTAAGACCATGTCTGGGACAC-GG
* * * *
49447378 CCTC-TATTTGAGTTTACATGTAAGACCATGTTTGGGACATCGG
1 CATCGTATCTGAGTTT-CGTGTAAGACCATGTCTGGGACA-CGG
* *
49447421 CATCGTATCTGA-TTTCGTGTAAGACCCTGTCTGGGACAAAGG
1 CATCGTATCTGAGTTTCGTGTAAGACCATGTCTGGGAC-ACGG
* * * * *
49447463 CATCG-ATACTGAATTACATGTAAAACCACGTCTGGGAC
1 CATCGTAT-CTGAGTTTCGTGTAAGACCATGTCTGGGAC
49447501 GTCAGCATTG
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.02
42 32 0.33
43 57 0.58
44 7 0.07
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
CATCGTATCTGAGTTTCGTGTAAGACCATGTCTGGGACACGG
Done.