Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 69 of 135
Found at i:22873561 original size:264 final size:258
Alignment explanation
Indices: 22873097--22873621 Score: 924
Period size: 264 Copynumber: 2.0 Consensus size: 258
22873087 CCTAGAGGTC
22873097 CCTAGTTTGAACCCCATGTCCTCATTTTTTTAATTAAATTTTTTCACAACATGTGCATTCAAGCA
1 CCTAGTTTGAACCCCATGTCCTCATTTTTTTAATTAAATTTTTTCACAACATGTGCATTCAAGCA
22873162 AATTCTGTCCACCCCTTTGTTTCCTTATGTGGAGGATTCCTTTCCTCCTTTGGCAAGTCAAACTT
66 AATTCTGTCCACCCCTTTGTTTCCTTATGTGGAGGATTCCTTTCCTCCTTTGGCAAGTCAAACTT
* * *
22873227 GCCATATGTTGTGAGACATATCCCCTTTTTTTCTCCCTTGTTCCCTCTCCTTCCATGTACCCATT
131 GCCATATGTTGTGAGACACATCCCCCTTTTTGCTCCCTTGTTCCCTCTCCTTCCATGTACCCATT
*
22873292 TCTTGCCAAAATACAAGTATTGACCACCTCAAAAGCCTCTCAAACTGTCCACCACCCTAATTT
196 TCTTGCCAAAATACAAGTATTGACCACCTCAAAAGCCTCCCAAACTGTCCACCACCCTAATTT
22873355 CCTAGTTTGAACCCCATGTCCTCATTTTTTTAATTAAATTTTTTCACATAATTAACATGTGCATT
1 CCTAGTTTGAACCCCATGTCCTCATTTTTTTAATTAAATTTTTTCAC------AACATGTGCATT
*
22873420 CAAGCAAATTCTGTCCACCCCTTTGTTTCCTTCTGTGGAGGATTCCTTTCCTCCTTTGGCAAGTC
60 CAAGCAAATTCTGTCCACCCCTTTGTTTCCTTATGTGGAGGATTCCTTTCCTCCTTTGGCAAGTC
*
22873485 AAACTTGCCATATGTTGTGAGACACATCCCCCTTTTTGCTCCCTTGTTCCCTCTCCTTCCTTGTA
125 AAACTTGCCATATGTTGTGAGACACATCCCCCTTTTTGCTCCCTTGTTCCCTCTCCTTCCATGTA
* *
22873550 CCCATTTCTTGCCAAAATACAAGTATTGACCACCTCAAAAGCCTCCCAAACTGTCCACGACCCTT
190 CCCATTTCTTGCCAAAATACAAGTATTGACCACCTCAAAAGCCTCCCAAACTGTCCACCACCCTA
22873615 ATTT
255 ATTT
22873619 CCT
1 CCT
22873622 CCCATTTTCT
Statistics
Matches: 253, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
258 47 0.19
264 206 0.81
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (258 bp):
CCTAGTTTGAACCCCATGTCCTCATTTTTTTAATTAAATTTTTTCACAACATGTGCATTCAAGCA
AATTCTGTCCACCCCTTTGTTTCCTTATGTGGAGGATTCCTTTCCTCCTTTGGCAAGTCAAACTT
GCCATATGTTGTGAGACACATCCCCCTTTTTGCTCCCTTGTTCCCTCTCCTTCCATGTACCCATT
TCTTGCCAAAATACAAGTATTGACCACCTCAAAAGCCTCCCAAACTGTCCACCACCCTAATTT
Found at i:22879352 original size:10 final size:11
Alignment explanation
Indices: 22879328--22879352 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22879318 ATTTTTCCCG
22879328 AAAATTTGGCA
1 AAAATTTGGCA
22879339 AAAATTTGGCA
1 AAAATTTGGCA
22879350 AAA
1 AAA
22879353 GATAGAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (11 bp):
AAAATTTGGCA
Found at i:22881073 original size:26 final size:25
Alignment explanation
Indices: 22881027--22881094 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
22881017 GCATTGCGCC
* *
22881027 CAGAATTGTCGTTGCAAGAATTTGTT
1 CAGAATTGTCGCTGCAAGAATATG-T
**
22881053 CAGAATTGTCGCTGCGTGAATATGT
1 CAGAATTGTCGCTGCAAGAATATGT
*
22881078 CTAGAGTTGTCGCTGCA
1 C-AGAATTGTCGCTGCA
22881095 TAAGCAGGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.06
26 33 0.94
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (25 bp):
CAGAATTGTCGCTGCAAGAATATGT
Found at i:22884161 original size:18 final size:17
Alignment explanation
Indices: 22884128--22884164 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22884118 TAATTGTTAC
*
22884128 TGCATTTGCATTGTCAT
1 TGCATTTCCATTGTCAT
22884145 TGCATTTCCATTTGTCAT
1 TGCATTTCCA-TTGTCAT
22884163 TG
1 TG
22884165 TAATTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (17 bp):
TGCATTTCCATTGTCAT
Found at i:22893388 original size:21 final size:21
Alignment explanation
Indices: 22893364--22893403 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22893354 ACCAAAATAC
**
22893364 TCAAATGCATTCACATCAAGA
1 TCAAATGCAGCCACATCAAGA
22893385 TCAAATGCAGCCACATCAA
1 TCAAATGCAGCCACATCAA
22893404 AATCGTGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (21 bp):
TCAAATGCAGCCACATCAAGA
Found at i:22898628 original size:18 final size:17
Alignment explanation
Indices: 22898595--22898631 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22898585 TAATTGTTGC
*
22898595 TGCATTTGCATTGTCAT
1 TGCATTTCCATTGTCAT
22898612 TGCATTTCCATTTGTCAT
1 TGCATTTCCA-TTGTCAT
22898630 TG
1 TG
22898632 TAATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (17 bp):
TGCATTTCCATTGTCAT
Found at i:22907442 original size:13 final size:14
Alignment explanation
Indices: 22907410--22907443 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
22907400 TACTTTCAGT
22907410 ACAT-TGACATTTA
1 ACATCTGACATTTA
22907423 ACATCTGACATTTA
1 ACATCTGACATTTA
22907437 AC-TCTGA
1 ACATCTGA
22907444 TTGCATTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (14 bp):
ACATCTGACATTTA
Found at i:22913482 original size:20 final size:21
Alignment explanation
Indices: 22913446--22913484 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22913436 CTTTTTTTTA
*
22913446 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
22913467 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
22913485 AATTCCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:22920420 original size:297 final size:297
Alignment explanation
Indices: 22919886--22920483 Score: 1151
Period size: 297 Copynumber: 2.0 Consensus size: 297
22919876 CTTCCATGGT
22919886 AGCTCACTTTAAGAAAATAAAAAAATGTGGAATTAATTTCTTCTTTAGCTTGATGATGATCTTTT
1 AGCTCACTTTAAGAAAATAAAAAAATGTGGAATTAATTTCTTCTTTAGCTTGATGATGATCTTTT
*
22919951 CTCACTCTCCTCTATTTATAACCACTGTAAAGTACAGGTCTACCCCCTTCTCAGATCTAACTCCC
66 CTCACTCTCCTCTATTTATAACCACTGTAAAGTACAAGTCTACCCCCTTCTCAGATCTAACTCCC
22920016 TTTTTACAACTGTAAAAGTTTGTTATTGCCAGCTATGCACTCACATAGATCTGGTTTGTGCATTA
131 TTTTTACAACTGTAAAAGTTTGTTATTGCCAGCTATGCACTCACATAGATCTGGTTTGTGCATTA
22920081 GGTAGTTGCAAATTGTCGCGACATCTTTGGACGCAAATTTTGATTTTTATTCACTGAGACAACTT
196 GGTAGTTGCAAATTGTCGCGACATCTTTGGACGCAAATTTTGATTTTTATTCACTGAGACAACTT
*
22920146 GACATGCTCCTACGCTGGTGCTTCTAGATATGTTAGC
261 GACATGCTCCTACGCTAGTGCTTCTAGATATGTTAGC
*
22920183 AGCTCACTTTAAGAAAATCAAAAAATGTGGAATTAATTTCTTCTTTAGCTTGATGATGATCTTTT
1 AGCTCACTTTAAGAAAATAAAAAAATGTGGAATTAATTTCTTCTTTAGCTTGATGATGATCTTTT
22920248 CTCACTCTCCTCTATTTATAACCACTGTAAAGTACAAGTCTACCCCCTTCTCAGATCTAACTCCC
66 CTCACTCTCCTCTATTTATAACCACTGTAAAGTACAAGTCTACCCCCTTCTCAGATCTAACTCCC
*
22920313 TTTTTACAACTGTAAAAGTTTGTTATTGCCAGCTATGCACTCACGTAGATCTGGTTTGTGCATTA
131 TTTTTACAACTGTAAAAGTTTGTTATTGCCAGCTATGCACTCACATAGATCTGGTTTGTGCATTA
*
22920378 GGTAGTTGCAGATTGTCGCGACATCTTTGGACGCAAATTTTGATTTTTATTCACTGAGACAACTT
196 GGTAGTTGCAAATTGTCGCGACATCTTTGGACGCAAATTTTGATTTTTATTCACTGAGACAACTT
22920443 GACATGCTCCTACGCTAGTGCTTCTAGATATGTTAGC
261 GACATGCTCCTACGCTAGTGCTTCTAGATATGTTAGC
22920480 AGCT
1 AGCT
22920484 TAAAGTCCCT
Statistics
Matches: 296, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
297 296 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (297 bp):
AGCTCACTTTAAGAAAATAAAAAAATGTGGAATTAATTTCTTCTTTAGCTTGATGATGATCTTTT
CTCACTCTCCTCTATTTATAACCACTGTAAAGTACAAGTCTACCCCCTTCTCAGATCTAACTCCC
TTTTTACAACTGTAAAAGTTTGTTATTGCCAGCTATGCACTCACATAGATCTGGTTTGTGCATTA
GGTAGTTGCAAATTGTCGCGACATCTTTGGACGCAAATTTTGATTTTTATTCACTGAGACAACTT
GACATGCTCCTACGCTAGTGCTTCTAGATATGTTAGC
Found at i:22922151 original size:15 final size:14
Alignment explanation
Indices: 22922129--22922158 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
22922119 TTCTTTTTCT
22922129 TCTTCTTTCTCTTC
1 TCTTCTTTCTCTTC
22922143 TCTTCCTTTCTCTTC
1 TCTT-CTTTCTCTTC
22922158 T
1 T
22922159 TCCTCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TCTTCTTTCTCTTC
Found at i:22930824 original size:20 final size:20
Alignment explanation
Indices: 22930796--22930846 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
22930786 ACGGACCCAA
22930796 AAAAAGTCAACTGGTTAAAG
1 AAAAAGTCAACTGGTTAAAG
* *
22930816 AAAATGTCAACTGGTTAATG
1 AAAAAGTCAACTGGTTAAAG
22930836 AAAAAGTCAAC
1 AAAAAGTCAAC
22930847 AATCAATGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAAAGTCAACTGGTTAAAG
Found at i:22947294 original size:25 final size:25
Alignment explanation
Indices: 22947253--22947357 Score: 111
Period size: 25 Copynumber: 4.2 Consensus size: 25
22947243 GTGTACTGGT
* *
22947253 TAAACTCTATCTGGGCTCATAAGAGC
1 TAAAC-CTATCTAGGCTCGTAAGAGC
* *
22947279 TAACCCTATCTAGGCTCGTTAGAGC
1 TAAACCTATCTAGGCTCGTAAGAGC
* *
22947304 TAAACTTGTCTAGGCTCGTAAGAGC
1 TAAACCTATCTAGGCTCGTAAGAGC
* * * *
22947329 TAAATCTGTCTGGGCTCGTATGAGC
1 TAAACCTATCTAGGCTCGTAAGAGC
22947354 TAAA
1 TAAA
22947358 TTCTAGAATA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
25 63 0.94
26 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
TAAACCTATCTAGGCTCGTAAGAGC
Found at i:22952349 original size:36 final size:36
Alignment explanation
Indices: 22952300--22952377 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
22952290 AATACAATCA
* *
22952300 GTCACATGACATGAAAAACATACCCACATATTTACT
1 GTCACAGGACATGAAAAACATACCCACATATTCACT
* * *
22952336 GTCACAGGGCATGAATAACATACCCTCATATTCACT
1 GTCACAGGACATGAAAAACATACCCACATATTCACT
*
22952372 TTCACA
1 GTCACA
22952378 ATAGTCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.26
Consensus pattern (36 bp):
GTCACAGGACATGAAAAACATACCCACATATTCACT
Found at i:22959000 original size:12 final size:12
Alignment explanation
Indices: 22958983--22959015 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22958973 AGGTACAATA
22958983 TCTTCCTTCTCT
1 TCTTCCTTCTCT
*
22958995 TCTTCCTTTTCT
1 TCTTCCTTCTCT
22959007 TCTT-CTTCT
1 TCTTCCTTCT
22959016 TGTTCTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
TCTTCCTTCTCT
Found at i:22959012 original size:15 final size:15
Alignment explanation
Indices: 22958992--22959026 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
22958982 ATCTTCCTTC
22958992 TCTTCTTCCTT-TTCT
1 TCTTCTT-CTTGTTCT
22959007 TCTTCTTCTTGTTCT
1 TCTTCTTCTTGTTCT
22959022 TCTTC
1 TCTTC
22959027 ATTTTCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (15 bp):
TCTTCTTCTTGTTCT
Found at i:22966765 original size:7 final size:7
Alignment explanation
Indices: 22966753--22966777 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22966743 TAAATCCAAT
22966753 AGTGTTG
1 AGTGTTG
22966760 AGTGTTG
1 AGTGTTG
22966767 AGTGTTG
1 AGTGTTG
22966774 AGTG
1 AGTG
22966778 CTGAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
AGTGTTG
Found at i:22988700 original size:11 final size:11
Alignment explanation
Indices: 22988684--22988715 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22988674 AAGAGGGAAG
22988684 AGAAAAAAGAA
1 AGAAAAAAGAA
22988695 AGAAAAAA-AA
1 AGAAAAAAGAA
22988705 AG-AAAAAGAA
1 AGAAAAAAGAA
22988715 A
1 A
22988716 AGGAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.25
10 7 0.35
11 8 0.40
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:22988710 original size:7 final size:7
Alignment explanation
Indices: 22988700--22988777 Score: 117
Period size: 7 Copynumber: 11.6 Consensus size: 7
22988690 AAGAAAGAAA
*
22988700 AAAAAAG
1 AAAAAGG
22988707 AAAAA-G
1 AAAAAGG
22988713 -AAAAGG
1 AAAAAGG
22988719 AAAAAGG
1 AAAAAGG
22988726 AAAAAGG
1 AAAAAGG
22988733 AAAAAGG
1 AAAAAGG
22988740 AAAAAGG
1 AAAAAGG
*
22988747 GAAAAGG
1 AAAAAGG
22988754 AAAAAGG
1 AAAAAGG
22988761 AAAAAGG
1 AAAAAGG
22988768 AAAAA-G
1 AAAAAGG
22988774 AAAA
1 AAAA
22988778 GAGAAGAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
5 4 0.06
6 7 0.10
7 56 0.84
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:22988782 original size:7 final size:6
Alignment explanation
Indices: 22988684--22988791 Score: 82
Period size: 7 Copynumber: 17.7 Consensus size: 6
22988674 AAGAGGGAAG
* *
22988684 AGAAAA A-AGAA AG-AAA A-AAAA AGAAAA AGAAAA GGAAAA AGGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A-GAAAA
*
22988730 AGGAAAA AGGAAAA AGGGAAAA GGAAAA AGGAAAA AGGAAAA AG-AAA
1 A-GAAAA A-GAAAA A--GAAAA AGAAAA A-GAAAA A-GAAAA AGAAAA
*
22988777 AG-AGA AGAAAA AGAA
1 AGAAAA AGAAAA AGAA
22988792 GAATAAGAGG
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
5 20 0.23
6 28 0.32
7 33 0.38
8 6 0.07
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:22996669 original size:21 final size:21
Alignment explanation
Indices: 22996645--22996684 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22996635 GGAGAAAATG
*
22996645 CAAGTGGAA-GAAGAAGAAGAA
1 CAAGAGGAAGGAA-AAGAAGAA
22996666 CAAGAGGAAGGAAAAGAAG
1 CAAGAGGAAGGAAAAGAAG
22996685 TCGAGGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.57, C:0.05, G:0.35, T:0.03
Consensus pattern (21 bp):
CAAGAGGAAGGAAAAGAAGAA
Found at i:22997138 original size:17 final size:17
Alignment explanation
Indices: 22997118--22997172 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
22997108 ATTGTTATCA
22997118 CATTCTCATTGTCATTG
1 CATTCTCATTGTCATTG
* * * *
22997135 CATTTTAATTGTCACTA
1 CATTCTCATTGTCATTG
* *
22997152 CATTCGCATTATCATTG
1 CATTCTCATTGTCATTG
22997169 CATT
1 CATT
22997173 TCCATTTGTC
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (17 bp):
CATTCTCATTGTCATTG
Found at i:22998753 original size:45 final size:45
Alignment explanation
Indices: 22998702--22999289 Score: 456
Period size: 45 Copynumber: 13.3 Consensus size: 45
22998692 ATATAGCCAT
* * *
22998702 ATCTTTTATCCCTAGTCAAGAGGGGTAGATTGAAGCCACAATCCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
*
22998747 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACAATCCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
* * * * * *
22998792 ATCTTTTACCCTTAATCAAAAGAGGCAGATTAAAGCTAC-TGTCCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACAT-TCCA
* * * * *
22998837 ATCTTATACCCCTAGTAAAAAGGAGTAGATTGAAGCCATC-TTCCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCA-CATTCCA
* * * * *
22998882 ATATTTTACCTCTAATCAAGAGGGGCAGATAGAAGCCACATTTCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
* *
22998927 ATCTTTTACCCCTAGTCAAGA-GGGTAGATTGAAGTCACATTCCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
* * * * ** ** *
22998971 GTCATTTACCCCTAGTTAAGAGGAGCAGATTGAAGCTGCCGTCTA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
*
22999016 ATCTTTTACCCCTAGTTAAGAGGGGCAGATTGAAGCCACATTCCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
* * * * **
22999061 ATCTTTTACCCCCAGTTAAGAGGGGTAGATTTAAG-C-CATTCTT
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
* * *
22999104 ATCTTTTA-CCCTAATCAAGAGCGACAGATTG-AGCCACCA-TCCA
1 ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCA-CATTCCA
* * * *
22999147 GTCTTTTA-CCCTGAATCCAGTAGAGGCAGATTGAAG-C-CA-TCCA
1 ATCTTTTACCCCT-AGTCAAG-AGGGGCAGATTGAAGCCACATTCCA
* *** * * * *
22999190 GTCTTTTACATTTAATCCAATAGGGGCATATTGAAG-C-TA-TCCA
1 ATCTTTTACCCCTAGT-CAAGAGGGGCAGATTGAAGCCACATTCCA
* * * * *
22999233 GTCTTTTACCCCTAATCCAGTAAGGACAGATTGAAG-C-CA-TCCA
1 ATCTTTTACCCCTAGTCAAG-AGGGGCAGATTGAAGCCACATTCCA
*
22999276 GTCTTTTACCCCTA
1 ATCTTTTACCCCTA
22999290 ACCCAATAGG
Statistics
Matches: 441, Mismatches: 89, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.00
42 19 0.04
43 107 0.24
44 50 0.11
45 259 0.59
46 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
ATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCA
Found at i:22998837 original size:90 final size:89
Alignment explanation
Indices: 22998702--22999396 Score: 423
Period size: 90 Copynumber: 7.9 Consensus size: 89
22998692 ATATAGCCAT
* * * * *
22998702 ATCTTTTATCCC-TAGTCAAGAGGGGTAGATTGAAGCCACAATCCAATCTTTTACCCCTAGTCAA
1 ATCTTTTA-CCCTTAATCAAGAGAGGCAGATTAAAGCCAC-TTCCAATCTTTTACCCCTAGTCAA
*
22998766 GAGGGGCAGATTGAAGCCACAATCCA
64 GAGGGGCAGATTGAAGCCACATTCCA
* * * * *
22998792 ATCTTTTACCCTTAATCAAAAGAGGCAGATTAAAGCTACTGTCCAATCTTATACCCCTAGTAAAA
1 ATCTTTTACCCTTAATCAAGAGAGGCAGATTAAAGCCACT-TCCAATCTTTTACCCCTAGTCAAG
* *
22998857 AGGAGTAGATTGAAGCCATC-TTCCA
65 AGGGGCAGATTGAAGCCA-CATTCCA
* * *
22998882 ATATTTTA-CCTCTAATCAAGAGGGGCAGA-TAGAAGCCACATTTCAATCTTTTACCCCTAGTCA
1 ATCTTTTACCCT-TAATCAAGAGAGGCAGATTA-AAGCCAC-TTCCAATCTTTTACCCCTAGTCA
* *
22998945 AGA-GGGTAGATTGAAGTCACATTCCA
63 AGAGGGGCAGATTGAAGCCACATTCCA
* * * * * * * * *
22998971 GTCATTTACCCCTAGTTAAGAG-GAGCAGATTGAAGCTGC-CGTCTAATCTTTTACCCCTAGTTA
1 ATCTTTTACCCTTAATCAAGAGAG-GCAGATTAAAGC--CACTTCCAATCTTTTACCCCTAGTCA
22999034 AGAGGGGCAGATTGAAGCCACATTCCA
63 AGAGGGGCAGATTGAAGCCACATTCCA
** * * * * * ** *
22999061 ATCTTTTACCCCCAGTTAAGAGGGGTAGATTTAAGCCA-TTCTTATCTTTTA-CCCTAATCAAGA
1 ATCTTTTACCCTTAATCAAGAGAGGCAGATTAAAGCCACTTCCAATCTTTTACCCCTAGTCAAGA
* *
22999124 GCGACAGATTG-AGCCACCA-TCCA
66 GGGGCAGATTGAAGCCA-CATTCCA
* * * * * *** *
22999147 GTCTTTTACCCTGAATCCAGTAGAGGCAGATTGAAGCCA--TCCAGTCTTTTACATTTAATCCAA
1 ATCTTTTACCCTTAATCAAG-AGAGGCAGATTAAAGCCACTTCCAATCTTTTACCCCTAGT-CAA
* * *
22999210 TAGGGGCATATTGAAG-C-TA-TCCA
64 GAGGGGCAGATTGAAGCCACATTCCA
* * * * * **
22999233 GTCTTTTACCCCTAATCCAGTA-AGGACAGATTGAAGCCA--TCCAGTCTTTTACCCCTAACCCA
1 ATCTTTTACCCTTAATCAAG-AGAGG-CAGATTAAAGCCACTTCCAATCTTTTACCCCT-AGTCA
* * *
22999295 ATAGGGGCAAATTGAAG--TCA-TCCA
63 AGAGGGGCAGATTGAAGCCACATTCCA
* * * * * * *
22999319 GTCTTTTACCCTTAATCTAGA-AGGGACGAATTAAAGCTA--TCCAATCTTTTACTCCTAATCCA
1 ATCTTTTACCCTTAATCAAGAGAGGCA-G-ATTAAAGCCACTTCCAATCTTTTACCCCTAGTCAA
*
22999381 GTAGGGGCAGGTTGAA
64 G-AGGGGCAGATTGAA
22999397 ACTATTATCT
Statistics
Matches: 490, Mismatches: 89, Indels: 56
0.77 0.14 0.09
Matches are distributed among these distances:
84 1 0.00
85 11 0.02
86 160 0.33
87 41 0.08
88 27 0.06
89 73 0.15
90 173 0.35
91 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (89 bp):
ATCTTTTACCCTTAATCAAGAGAGGCAGATTAAAGCCACTTCCAATCTTTTACCCCTAGTCAAGA
GGGGCAGATTGAAGCCACATTCCA
Found at i:22999037 original size:134 final size:134
Alignment explanation
Indices: 22998728--22999185 Score: 439
Period size: 134 Copynumber: 3.4 Consensus size: 134
22998718 CAAGAGGGGT
** *
22998728 AGATTGAAGCCACAATCCAATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACAATCCAA
1 AGATTGAAGCCACCGTCCAATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCAA
* * * *
22998793 TCTTTTACCCTTAATCAAAAGAGGCAGATTAAAGCTACTGTCCAATCTTATACCCCTAGTAAAAA
66 TCTTTTACCCCTAGTCAAGAG-GGTAGATTAAAGCTACTGTCCAATCTTATACCCCTAGTAAAAA
*
22998858 GGAGT
130 GGAGC
* * * * * * *
22998863 AGATTGAAGCCATCTTCCAATATTTTACCTCTAATCAAGAGGGGCAGATAGAAGCCACATTTCAA
1 AGATTGAAGCCACCGTCCAATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCAA
* * *
22998928 TCTTTTACCCCTAGTCAAGAGGGTAGATTGAAG-TCACAT-TCCAGTCATT-TACCCCTAGTTAA
66 TCTTTTACCCCTAGTCAAGAGGGTAGATTAAAGCT-AC-TGTCCAATC-TTATACCCCTAGTAAA
*
22998990 GAGGAGC
128 AAGGAGC
** * *
22998997 AGATTGAAGCTGCCGTCTAATCTTTTACCCCTAGTTAAGAGGGGCAGATTGAAGCCACATTCCAA
1 AGATTGAAGCCACCGTCCAATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCAA
* * * * ** * * * *
22999062 TCTTTTACCCCCAGTTAAGAGGGGTAGATTTAAGCCA-T-TCTTATCTTTTA-CCCTAATCAAGA
66 TCTTTTACCCCTAGTCAAGA-GGGTAGATTAAAGCTACTGTCCAATCTTATACCCCTAGTAAAAA
22999124 GCGA-C
130 G-GAGC
* * * * *
22999129 AGATTG-AGCCACCATCCAGTCTTTTA-CCCTGAATCCAGTAGAGGCAGATTGAAGCCA
1 AGATTGAAGCCACCGTCCAATCTTTTACCCCT-AGTCAAG-AGGGGCAGATTGAAGCCA
22999186 TCCAGTCTTT
Statistics
Matches: 267, Mismatches: 47, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
130 4 0.01
131 19 0.07
132 37 0.14
133 10 0.04
134 107 0.40
135 90 0.34
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (134 bp):
AGATTGAAGCCACCGTCCAATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCCACATTCCAA
TCTTTTACCCCTAGTCAAGAGGGTAGATTAAAGCTACTGTCCAATCTTATACCCCTAGTAAAAAG
GAGC
Found at i:22999099 original size:224 final size:222
Alignment explanation
Indices: 22998702--22999124 Score: 546
Period size: 224 Copynumber: 1.9 Consensus size: 222
22998692 ATATAGCCAT
* *
22998702 ATCTTTTATCCCTAGTCAAGAGGGGTAGATTGAAGCCACAATCCAATCTTTTACCCCTAGTCAAG
1 ATCTTTTACCCCTAGTCAAGAGGGGTAGATTGAAGCCACAATCCAATCATTTACCCCTAGTCAAG
* * *
22998767 AGGGGCAGATTGAAGCCACAATCCAATCTTTTACCCTTAATCAAAAGAGGCAGATTAAAGCTACT
66 AGGAGCAGATTGAAGCCACAATCCAATCTTTTACCCCTAATCAAAAGAGGCAGATTAAAGCCACT
*
22998832 GTCCAATCTTATACCCCTAGTAAAAAGGAGTAGATTGAAGCCA-TCTTCCAATATTTTACCTCTA
131 GTCCAATCTTATACCCCCAGTAAAAAGGAGTAGATTGAAGCCATTCTT---ATATTTTACC-CTA
22998896 ATCAAGAGGGGCAGATAGAAGCCACATTTCA
192 ATCAAGAGGGGCAGATAGAAGCCACATTTCA
* * * *
22998927 ATCTTTTACCCCTAGTCAAGA-GGGTAGATTGAAGTCACATTCCAGTCATTTACCCCTAGTTAAG
1 ATCTTTTACCCCTAGTCAAGAGGGGTAGATTGAAGCCACAATCCAATCATTTACCCCTAGTCAAG
** ** * * * * * *
22998991 AGGAGCAGATTGAAGCTGCCGTCTAATCTTTTACCCCTAGTTAAGAGGGGCAGATTGAAGCCACA
66 AGGAGCAGATTGAAGCCACAATCCAATCTTTTACCCCTAATCAAAAGAGGCAGATTAAAGCCAC-
* * * * * *
22999056 T-TCCAATCTTTTACCCCCAGTTAAGAGGGGTAGATTTAAGCCATTCTTATCTTTTACCCTAATC
130 TGTCCAATCTTATACCCCCAGTAAAAAGGAGTAGATTGAAGCCATTCTTATATTTTACCCTAATC
22999120 AAGAG
195 AAGAG
22999125 CGACAGATTG
Statistics
Matches: 170, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
221 11 0.06
222 9 0.05
224 125 0.74
225 25 0.15
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (222 bp):
ATCTTTTACCCCTAGTCAAGAGGGGTAGATTGAAGCCACAATCCAATCATTTACCCCTAGTCAAG
AGGAGCAGATTGAAGCCACAATCCAATCTTTTACCCCTAATCAAAAGAGGCAGATTAAAGCCACT
GTCCAATCTTATACCCCCAGTAAAAAGGAGTAGATTGAAGCCATTCTTATATTTTACCCTAATCA
AGAGGGGCAGATAGAAGCCACATTTCA
Found at i:22999152 original size:43 final size:43
Alignment explanation
Indices: 22999105--22999384 Score: 184
Period size: 43 Copynumber: 6.5 Consensus size: 43
22999095 GCCATTCTTA
*
22999105 TCTTTTACCCT-AATCAAG-AGCGACAGATTG-AGCCACCATCCAG
1 TCTTTTACCCTGAATCAAGTAGAGACAGATTGAAG---CCATCCAG
* *
22999148 TCTTTTACCCTGAATCCAGTAGAGGCAGATTGAAGCCATCCAG
1 TCTTTTACCCTGAATCAAGTAGAGACAGATTGAAGCCATCCAG
** * * * * *
22999191 TCTTTTACATTTAATCCAA-TAGGGGCATATTGAAGCTATCCAG
1 TCTTTTACCCTGAAT-CAAGTAGAGACAGATTGAAGCCATCCAG
*
22999234 TCTTTTACCCCT-AATCCAGTA-AGGACAGATTGAAGCCATCCAG
1 TCTTTTA-CCCTGAATCAAGTAGA-GACAGATTGAAGCCATCCAG
* * * * *
22999277 TCTTTTACCCCT-AACCCAA-TAGGGGCAAATTGAAGTCATCCAG
1 TCTTTTA-CCCTGAA-TCAAGTAGAGACAGATTGAAGCCATCCAG
* * * * * * *
22999320 TCTTTTACCCTTAATCTAGAAGGGAC-GAATTAAAGCTATCCAA
1 TCTTTTACCCTGAATCAAGTAGAGACAG-ATTGAAGCCATCCAG
*
22999363 TCTTTTACTCCT-AATCCAGTAG
1 TCTTTTAC-CCTGAATCAAGTAG
22999385 GGGCAGGTTG
Statistics
Matches: 190, Mismatches: 34, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
42 8 0.04
43 155 0.82
44 15 0.08
45 10 0.05
46 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TCTTTTACCCTGAATCAAGTAGAGACAGATTGAAGCCATCCAG
Found at i:22999396 original size:86 final size:85
Alignment explanation
Indices: 22999141--22999389 Score: 308
Period size: 86 Copynumber: 2.9 Consensus size: 85
22999131 ATTGAGCCAC
* * *
22999141 CATCCAGTCTTTTACCCTGAATCCAGTAGAGG-CAGATTGAAGCCATCCAGTCTTTTACAT-TTA
1 CATCCAGTCTTTTACCCTTAATCCAGAAG-GGACAGATTGAAGCCATCCAGTCTTTTAC-TCCTA
*
22999204 ATCCAATAGGGGCATATTGAAG
64 ATCCAATAGGGGCAAATTGAAG
* *
22999226 CTATCCAGTCTTTTACCCCTAATCCAGTAA-GGACAGATTGAAGCCATCCAGTCTTTTACCCCTA
1 C-ATCCAGTCTTTTACCCTTAATCCAG-AAGGGACAGATTGAAGCCATCCAGTCTTTTACTCCTA
*
22999290 ACCCAATAGGGGCAAATTGAAG
64 ATCCAATAGGGGCAAATTGAAG
* * * *
22999312 TCATCCAGTCTTTTACCCTTAATCTAGAAGGGAC-GAATTAAAGCTATCCAATCTTTTACTCCTA
1 -CATCCAGTCTTTTACCCTTAATCCAGAAGGGACAG-ATTGAAGCCATCCAGTCTTTTACTCCTA
*
22999376 ATCCAGTAGGGGCA
64 ATCCAATAGGGGCA
22999390 GGTTGAAACT
Statistics
Matches: 142, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
85 6 0.04
86 134 0.94
87 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (85 bp):
CATCCAGTCTTTTACCCTTAATCCAGAAGGGACAGATTGAAGCCATCCAGTCTTTTACTCCTAAT
CCAATAGGGGCAAATTGAAG
Found at i:22999396 original size:129 final size:129
Alignment explanation
Indices: 22999140--22999383 Score: 332
Period size: 129 Copynumber: 1.9 Consensus size: 129
22999130 GATTGAGCCA
* * * *
22999140 CCATCCAGTCTTTTACCCTGAATCCAGTAGAGGCAGATTGAAGCCATCCAGTCTTTTACATTTAA
1 CCATCCAGTCTTTTACCCTGAACCCAATAGAGGCAAATTGAAGCCATCCAGTCTTTTACACTTAA
* * *
22999205 TCCAATAGGGGCATATTGAAGCTATCCAGTCTTTTACCCCTAATCCAGTAAGGACAGATTGAAG
66 TCCAATAGGGACATATTAAAGCTATCCAATCTTTTACCCCTAATCCAGTAAGGACAGATTGAAG
* * *
22999269 CCATCCAGTCTTTTACCCCT-AACCCAATAGGGGCAAATTGAAGTCATCCAGTCTTTTACCCTTA
1 CCATCCAGTCTTTTA-CCCTGAACCCAATAGAGGCAAATTGAAGCCATCCAGTCTTTTACACTTA
* *
22999333 ATCTAGA-AGGGACGA-ATTAAAGCTATCCAATCTTTTACTCCTAATCCAGTA
65 ATCCA-ATAGGGAC-ATATTAAAGCTATCCAATCTTTTACCCCTAATCCAGTA
22999384 GGGGCAGGTT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
129 94 0.94
130 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (129 bp):
CCATCCAGTCTTTTACCCTGAACCCAATAGAGGCAAATTGAAGCCATCCAGTCTTTTACACTTAA
TCCAATAGGGACATATTAAAGCTATCCAATCTTTTACCCCTAATCCAGTAAGGACAGATTGAAG
Found at i:23009213 original size:21 final size:21
Alignment explanation
Indices: 23009184--23009223 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23009174 GGGAGGAATG
*
23009184 CAAGTGGAA-GAAGAAGAAGAC
1 CAAGAGGAAGGAA-AAGAAGAC
23009205 CAAGAGGAAGGAAAAGAAG
1 CAAGAGGAAGGAAAAGAAG
23009224 TCGAGGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.55, C:0.07, G:0.35, T:0.03
Consensus pattern (21 bp):
CAAGAGGAAGGAAAAGAAGAC
Found at i:23009719 original size:17 final size:17
Alignment explanation
Indices: 23009665--23009719 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
23009655 ATGACATGCT
* *
23009665 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTC
* *
23009682 AATTGTCACTACA-TTC
1 CATTGTCATTACATTTC
23009698 GCATTGTCATTACATTTC
1 -CATTGTCATTACATTTC
23009716 CATT
1 CATT
23009720 TGTCTTTGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 2 0.07
17 25 0.83
18 3 0.10
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (17 bp):
CATTGTCATTACATTTC
Found at i:23011272 original size:17 final size:17
Alignment explanation
Indices: 23011250--23011296 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
23011240 CTGTAGTATA
*
23011250 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
*
23011267 ATTGTCACTTCATTTTT
1 ATTGTCACTGCATTTTT
*
23011284 ATTTTCACTGCAT
1 ATTGTCACTGCAT
23011297 CTACATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.17, C:0.21, G:0.09, T:0.53
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:23011304 original size:17 final size:17
Alignment explanation
Indices: 23011284--23011330 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
23011274 CTTCATTTTT
*
23011284 ATTTTCACTGCATCTAC
1 ATTTTCATTGCATCTAC
* *
23011301 ATTTTTATTACATCTAC
1 ATTTTCATTGCATCTAC
*
23011318 ATTGTCATTGCAT
1 ATTTTCATTGCAT
23011331 TTCCAAATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTTCATTGCATCTAC
Found at i:23011755 original size:39 final size:39
Alignment explanation
Indices: 23011698--23011793 Score: 156
Period size: 39 Copynumber: 2.5 Consensus size: 39
23011688 TAAATAAAAG
***
23011698 ACACTCCAATGTGGGTGTATTGTGAACTAACAAGGGGGA
1 ACACTCCAATGCAAGTGTATTGTGAACTAACAAGGGGGA
*
23011737 ACACTGCAATGCAAGTGTATTGTGAACTAACAAGGGGGA
1 ACACTCCAATGCAAGTGTATTGTGAACTAACAAGGGGGA
23011776 ACACTCCAATGCAAGTGT
1 ACACTCCAATGCAAGTGT
23011794 TAGAAAAAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (39 bp):
ACACTCCAATGCAAGTGTATTGTGAACTAACAAGGGGGA
Found at i:23017687 original size:12 final size:12
Alignment explanation
Indices: 23017665--23017772 Score: 71
Period size: 12 Copynumber: 9.3 Consensus size: 12
23017655 ATAACATCCA
*
23017665 AACAATAAAAAT
1 AACAACAAAAAT
* *
23017677 AACAACTAAAAC
1 AACAACAAAAAT
* *
23017689 AGCCACAAAAAT
1 AACAACAAAAAT
*
23017701 AACAGC-AAAAT
1 AACAACAAAAAT
**
23017712 AAC-A-TTAAA-
1 AACAACAAAAAT
*
23017721 AACAATAAAAAT
1 AACAACAAAAAT
* *
23017733 AGCAACAAAAAC
1 AACAACAAAAAT
23017745 AACAACAAAAAT
1 AACAACAAAAAT
* *
23017757 AACAGCAAAAAC
1 AACAACAAAAAT
23017769 AACA
1 AACA
23017773 CGAAAACAGC
Statistics
Matches: 71, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
9 3 0.04
10 4 0.06
11 11 0.15
12 53 0.75
ACGTcount: A:0.69, C:0.19, G:0.04, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:23017739 original size:24 final size:24
Alignment explanation
Indices: 23017721--23017792 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
23017711 TAACATTAAA
*
23017721 AACAATAAAAATAGCAACAAAAAC
1 AACAACAAAAATAGCAACAAAAAC
* *
23017745 AACAACAAAAATAACAGCAAAAAC
1 AACAACAAAAATAGCAACAAAAAC
* * *
23017769 AAC-ACGAAAACAGCAACTAAAAC
1 AACAACAAAAATAGCAACAAAAAC
23017792 A
1 A
23017793 GTAAAAAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 16 0.40
24 24 0.60
ACGTcount: A:0.68, C:0.21, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAACAAAAATAGCAACAAAAAC
Found at i:23017760 original size:21 final size:20
Alignment explanation
Indices: 23017693--23017772 Score: 54
Period size: 21 Copynumber: 3.7 Consensus size: 20
23017683 TAAAACAGCC
*
23017693 ACAAAAATAACAGC-AAAATA
1 ACAAAAA-AACAACAAAAATA
* *
23017713 ACATTAAAAACAATAAAAATAGCA
1 ACA-AAAAAACAACAAAAAT---A
23017737 ACAAAAACAACAACAAAAATA
1 ACAAAAA-AACAACAAAAATA
*
23017758 ACAGCAAAAACAACA
1 ACA-AAAAAACAACA
23017773 CGAAAACAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
20 7 0.15
21 19 0.40
22 3 0.06
23 3 0.06
24 15 0.32
ACGTcount: A:0.70, C:0.17, G:0.04, T:0.09
Consensus pattern (20 bp):
ACAAAAAAACAACAAAAATA
Found at i:23017779 original size:56 final size:56
Alignment explanation
Indices: 23017664--23017780 Score: 155
Period size: 56 Copynumber: 2.1 Consensus size: 56
23017654 AATAACATCC
* * * * *
23017664 AAACAATAAAAATAACAACTAAAACAGCCACAAAAATAACAGCAAAATAACATTAA
1 AAACAATAAAAATAACAACAAAAACAACAACAAAAATAACAGCAAAACAACATCAA
* *
23017720 AAACAATAAAAATAGCAACAAAAACAACAACAAAAATAACAGCAAAAACAACA-CGA
1 AAACAATAAAAATAACAACAAAAACAACAACAAAAATAACAGC-AAAACAACATCAA
23017776 AAACA
1 AAACA
23017781 GCAACTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 45 0.85
57 8 0.15
ACGTcount: A:0.68, C:0.19, G:0.04, T:0.09
Consensus pattern (56 bp):
AAACAATAAAAATAACAACAAAAACAACAACAAAAATAACAGCAAAACAACATCAA
Found at i:23017860 original size:21 final size:20
Alignment explanation
Indices: 23017835--23017875 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
23017825 TAAAAAGAGC
23017835 AAAAAAGAGCAACCAAAACAAT
1 AAAAAA-AGC-ACCAAAACAAT
*
23017857 AAAAAAAGCATCAAAACAA
1 AAAAAAAGCACCAAAACAA
23017876 CAATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.71, C:0.17, G:0.07, T:0.05
Consensus pattern (20 bp):
AAAAAAAGCACCAAAACAAT
Found at i:23018331 original size:34 final size:34
Alignment explanation
Indices: 23018302--23018370 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
23018292 CTCAAAGTTT
23018302 TCATA-TAT-AAACTCAAAGAACTAATTCAAAAC
1 TCATAGTATGAAACTCAAAGAACTAATTCAAAAC
* *
23018334 TCATAGTTTGGAACTCAAAGAACTAATTCAAAAC
1 TCATAGTATGAAACTCAAAGAACTAATTCAAAAC
23018368 TCA
1 TCA
23018371 AACTAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 5 0.15
33 2 0.06
34 26 0.79
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (34 bp):
TCATAGTATGAAACTCAAAGAACTAATTCAAAAC
Found at i:23018485 original size:15 final size:15
Alignment explanation
Indices: 23018461--23018491 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23018451 TATATTAATC
*
23018461 TTTTATATTTTTTTA
1 TTTTAAATTTTTTTA
23018476 TTTTAAATTTTTTTA
1 TTTTAAATTTTTTTA
23018491 T
1 T
23018492 ATATTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTAAATTTTTTTA
Found at i:23018487 original size:23 final size:23
Alignment explanation
Indices: 23018442--23018497 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
23018432 AAAATTTAGA
23018442 ATATATTTTTATATTAATCTTTT
1 ATATATTTTTATATTAATCTTTT
* * *
23018465 ATATTTTTTTATTTTAAATTTTTTT
1 ATATATTTTTATATT-AA-TCTTTT
23018490 ATATATTT
1 ATATATTT
23018498 GAATTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 13 0.48
24 2 0.07
25 12 0.44
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
ATATATTTTTATATTAATCTTTT
Found at i:23018504 original size:17 final size:16
Alignment explanation
Indices: 23018461--23018513 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
23018451 TATATTAATC
*
23018461 TTTTATATTTTTT-TA
1 TTTTAAATTTTTTATA
23018476 TTTTAAATTTTTTTATA
1 TTTTAAA-TTTTTTATA
*
23018493 TATTTGAATTTTTTATA
1 T-TTTAAATTTTTTATA
23018510 TTTT
1 TTTT
23018514 TTTAAATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 6 0.18
16 9 0.27
17 13 0.39
18 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTAAATTTTTTATA
Found at i:23018525 original size:19 final size:18
Alignment explanation
Indices: 23018446--23018527 Score: 53
Period size: 19 Copynumber: 4.4 Consensus size: 18
23018436 TTTAGAATAT
*
23018446 ATTTTTATATTAATCTTTTAT
1 ATTTTTATA-T-AT-TTTTAA
23018467 ATTTTT-T-TA-TTTTAA
1 ATTTTTATATATTTTTAA
* *
23018482 ATTTTTTTATATATTTGAA
1 ATTTTTATATAT-TTTTAA
* *
23018501 TTTTTTATATTTTTTTAA
1 ATTTTTATATATTTTTAA
23018519 ATCTTTTAT
1 AT-TTTTAT
23018528 GTATATTAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
15 11 0.22
16 1 0.02
17 3 0.06
18 7 0.14
19 20 0.41
20 1 0.02
21 6 0.12
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (18 bp):
ATTTTTATATATTTTTAA
Found at i:23018807 original size:2 final size:2
Alignment explanation
Indices: 23018800--23018831 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23018790 ACATACATAC
23018800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23018832 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23018836 original size:2 final size:2
Alignment explanation
Indices: 23018831--23018858 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23018821 TATATATATA
23018831 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23018859 CGCGCGCGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23023323 original size:29 final size:29
Alignment explanation
Indices: 23023242--23023360 Score: 134
Period size: 29 Copynumber: 4.1 Consensus size: 29
23023232 CCACAAAGGC
23023242 CTTTAACA-AAGTCAGCCACAAAGGCTTCA
1 CTTTAACAGAA-TCAGCCACAAAGGCTTCA
* * ** *
23023271 ATTTAACAGAATCATCCATGAAGGCTTTA
1 CTTTAACAGAATCAGCCACAAAGGCTTCA
*
23023300 CTTTAACAGAATCAGCCACAAAGGC-TAA
1 CTTTAACAGAATCAGCCACAAAGGCTTCA
* * *
23023328 TTTTAACAAAATTAGCCACAAAGGCTTCA
1 CTTTAACAGAATCAGCCACAAAGGCTTCA
23023357 CTTT
1 CTTT
23023361 TATGAAAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
28 24 0.33
29 47 0.64
30 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (29 bp):
CTTTAACAGAATCAGCCACAAAGGCTTCA
Found at i:23023572 original size:54 final size:54
Alignment explanation
Indices: 23023497--23023624 Score: 175
Period size: 54 Copynumber: 2.4 Consensus size: 54
23023487 CATGACTATT
* * * *
23023497 TCTTATACTATGTGGTTTTCATTCCTCATATGATGTCATAGCCACCAAACTAGG
1 TCTTACACTATATGGTCTTCATTCCTCATATGATGTCACAGCCACCAAACTAGG
* * * * *
23023551 TCTTACTCTATATGGTCTTCATTCCTTATATGATGTCACAGTCACCAGACTATG
1 TCTTACACTATATGGTCTTCATTCCTCATATGATGTCACAGCCACCAAACTAGG
23023605 TCTTACACTATATGGTCTTC
1 TCTTACACTATATGGTCTTC
23023625 GATTGCCATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.39
Consensus pattern (54 bp):
TCTTACACTATATGGTCTTCATTCCTCATATGATGTCACAGCCACCAAACTAGG
Found at i:23028843 original size:16 final size:16
Alignment explanation
Indices: 23028802--23028833 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
23028792 ATATGAAAAT
23028802 AAAGATAAAATGTAATA
1 AAAG-TAAAATGTAATA
23028819 AAAGTAAAATGTAAT
1 AAAGTAAAATGTAAT
23028834 GATATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (16 bp):
AAAGTAAAATGTAATA
Found at i:23029703 original size:26 final size:26
Alignment explanation
Indices: 23029643--23029696 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
23029633 AATTGGGGTG
* **
23029643 CAATTCTAGACACGTTCATGCAATGA
1 CAATTCTGGACACGTTCATGCAACAA
*
23029669 CAATTCTGGACATGTTCATGCAACAA
1 CAATTCTGGACACGTTCATGCAACAA
23029695 CA
1 CA
23029697 TTCCTGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (26 bp):
CAATTCTGGACACGTTCATGCAACAA
Found at i:23029727 original size:37 final size:38
Alignment explanation
Indices: 23029686--23029771 Score: 88
Period size: 38 Copynumber: 2.3 Consensus size: 38
23029676 GGACATGTTC
*
23029686 ATGCAACAACA-TTCCTGGGTGCAA-TTAAAGAATAATT
1 ATGCAACAACAGTT-CTGGATGCAATTTAAAGAATAATT
* * *
23029723 ATGCAGA-AATAGTTCTGGATGCAATTTGAAGAATATTT
1 ATGCA-ACAACAGTTCTGGATGCAATTTAAAGAATAATT
*
23029761 ATACAACAACA
1 ATGCAACAACA
23029772 ATCTTAGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
37 18 0.46
38 21 0.54
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (38 bp):
ATGCAACAACAGTTCTGGATGCAATTTAAAGAATAATT
Found at i:23029855 original size:37 final size:37
Alignment explanation
Indices: 23029805--23029912 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
23029795 TTTTTACGGT
* * *
23029805 GACAGTTTTGGGTGTAATCT-GACAGTGCTCATGTGGC
1 GACAGTTTTGGGTGCAATCTAGA-AGTGCTCATGCGAC
23029842 GACAGTTTTGGGTGCAATCTAGAAGTGCTCATGCGAC
1 GACAGTTTTGGGTGCAATCTAGAAGTGCTCATGCGAC
* *
23029879 GACAGTTTTGGGGGCAATCTAGAAGTTCTCATGC
1 GACAGTTTTGGGTGCAATCTAGAAGTGCTCATGC
23029913 AACAACATTA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 63 0.97
38 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.30
Consensus pattern (37 bp):
GACAGTTTTGGGTGCAATCTAGAAGTGCTCATGCGAC
Found at i:23031137 original size:27 final size:27
Alignment explanation
Indices: 23031107--23031265 Score: 133
Period size: 27 Copynumber: 5.9 Consensus size: 27
23031097 CCAAACACAA
* *
23031107 AATAATGATCTTTCGAGCCAGATATAG
1 AATAATGCTCTTTCGAGCTAGATATAG
* *
23031134 AATAATGCTCTTCCGAGCTAGAGT-TCAA
1 AATAATGCTCTTTCGAGCTAGA-TAT-AG
* *
23031162 AATATTGCTCTTTCGAGCTAGAAATAG
1 AATAATGCTCTTTCGAGCTAGATATAG
** * *
23031189 AATTCTTCTCTTTCGAGATAGATATAG
1 AATAATGCTCTTTCGAGCTAGATATAG
* * *
23031216 AATATTTCTCTTTCGAGCTAGAAATAG
1 AATAATGCTCTTTCGAGCTAGATATAG
** *
23031243 -AGCATCGCTCTTTCGAGCCAGAT
1 AATAAT-GCTCTTTCGAGCTAGAT
23031266 CGCTCTTTCG
Statistics
Matches: 105, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 80 0.76
28 23 0.22
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (27 bp):
AATAATGCTCTTTCGAGCTAGATATAG
Found at i:23031200 original size:55 final size:55
Alignment explanation
Indices: 23031104--23031243 Score: 158
Period size: 55 Copynumber: 2.6 Consensus size: 55
23031094 GAGCCAAACA
* * * * *
23031104 CAAAATAATGATCTTTCGAGCCAGATATAGAATAATGCTCTTCCGAGCTAGAGT-T
1 CAAAATATTGCTCTTTCGAGCTAGAAATAGAATAATGCTCTTCCGAGATAGA-TAT
** * *
23031159 CAAAATATTGCTCTTTCGAGCTAGAAATAGAATTCTTCTCTTTCGAGATAGATAT
1 CAAAATATTGCTCTTTCGAGCTAGAAATAGAATAATGCTCTTCCGAGATAGATAT
* *
23031214 -AGAATATTTCTCTTTCGAGCTAGAAATAGA
1 CAAAATATTGCTCTTTCGAGCTAGAAATAGA
23031244 GCATCGCTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 29 0.40
55 44 0.60
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (55 bp):
CAAAATATTGCTCTTTCGAGCTAGAAATAGAATAATGCTCTTCCGAGATAGATAT
Found at i:23031269 original size:18 final size:18
Alignment explanation
Indices: 23031246--23031282 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23031236 GAAATAGAGC
23031246 ATCGCTCTTTCGAGCCAG
1 ATCGCTCTTTCGAGCCAG
23031264 ATCGCTCTTTCGAGCCAG
1 ATCGCTCTTTCGAGCCAG
23031282 A
1 A
23031283 CTTACTGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.32, G:0.22, T:0.27
Consensus pattern (18 bp):
ATCGCTCTTTCGAGCCAG
Found at i:23035936 original size:17 final size:18
Alignment explanation
Indices: 23035900--23035945 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23035890 TTAAGTTTGG
* *
23035900 TTGTTAAATACGACTATT
1 TTGTAAAATAGGACTATT
23035918 TTGTAAAATAGGACT-TT
1 TTGTAAAATAGGACTATT
*
23035935 TTTTAAAATAG
1 TTGTAAAATAG
23035946 TTTTTAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (18 bp):
TTGTAAAATAGGACTATT
Found at i:23038778 original size:195 final size:194
Alignment explanation
Indices: 23038333--23038779 Score: 687
Period size: 194 Copynumber: 2.3 Consensus size: 194
23038323 GAAACCGACG
*
23038333 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCACCGTGAGTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
* *
23038398 AGAAATGAGAAAAGAATCCAAGAATGGATTATAGGCCCTACGATGGTTGAGATTTATGCTAAGTG
66 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGTTGAGATTTATGCTAAATG
* * *
23038463 CATATTATCAACAACTCGTGTGAGCAGCATCGTTAGGGAACAGTTATATGCACAGATATTGTAT
131 CATATTATCAACAACTCGTGTGAGCAGCATCGTTACGGAACAGTTATATGCACAGATATCGCAT
* * * ** * * * *
23038527 CAATGGTTAAGGTACCTTATATGTTACGAGTCCTCGACAGCTCATGTGAACAGCATCGTGAGTTG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
* *
23038592 GGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGTTGGGATTTATGCATAAAT
66 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGTTGAGATTTATGC-TAAAT
* *
23038657 GCATATTCTCGACAACTCGTGTGAGCAGCATCGTTACGGAACAGTTATATGCACAGATATCGCAT
130 GCATATTATCAACAACTCGTGTGAGCAGCATCGTTACGGAACAGTTATATGCACAGATATCGCAT
** *
23038722 CGATGGCTGAGGTACCGCATATGTTGTTAGTCCTCGATAGCTCGTGTGAGCAGCATCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCG
23038780 AGTACTGGTA
Statistics
Matches: 222, Mismatches: 30, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
194 111 0.50
195 111 0.50
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (194 bp):
CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGTTGAGATTTATGCTAAATG
CATATTATCAACAACTCGTGTGAGCAGCATCGTTACGGAACAGTTATATGCACAGATATCGCAT
Found at i:23039588 original size:21 final size:21
Alignment explanation
Indices: 23039538--23039593 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
23039528 CTAGAGTTTG
*
23039538 TTGTATCGGTAGAAGTGATGA
1 TTGTATCGGTAGAAGTCATGA
* * *
23039559 TTATTTCGGTAGTAGTCAT-A
1 TTGTATCGGTAGAAGTCATGA
23039579 CTTGTATCGGTAGAA
1 -TTGTATCGGTAGAA
23039594 CAATCACAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (21 bp):
TTGTATCGGTAGAAGTCATGA
Found at i:23042915 original size:14 final size:15
Alignment explanation
Indices: 23042896--23042924 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23042886 ACTCAACAAA
23042896 ATTTTT-ATTTTAAT
1 ATTTTTAATTTTAAT
23042910 ATTTTTAATTTTAAT
1 ATTTTTAATTTTAAT
23042925 TTTATTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTAATTTTAAT
Found at i:23044161 original size:18 final size:18
Alignment explanation
Indices: 23044135--23044180 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
23044125 TTAAGTTTGG
*
23044135 TTGTTAAATACGACTATT
1 TTGTAAAATACGACTATT
*
23044153 TTGTAAAATAGGACTATT
1 TTGTAAAATACGACTATT
*
23044171 TTATAAAATA
1 TTGTAAAATA
23044181 GTTTTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (18 bp):
TTGTAAAATACGACTATT
Found at i:23044181 original size:18 final size:18
Alignment explanation
Indices: 23044140--23044181 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23044130 TTTGGTTGTT
* *
23044140 AAATACGACTATTTTGTA
1 AAATAGGACTATTTTATA
23044158 AAATAGGACTATTTTATA
1 AAATAGGACTATTTTATA
23044176 AAATAG
1 AAATAG
23044182 TTTTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (18 bp):
AAATAGGACTATTTTATA
Found at i:23044932 original size:21 final size:23
Alignment explanation
Indices: 23044897--23044943 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
23044887 TTAATCTATT
*
23044897 TTTTATTTTAATATTA-TACATA
1 TTTTATTTTAATATTATTAAATA
*
23044919 TTTTA-TTTATTATTATTAAATA
1 TTTTATTTTAATATTATTAAATA
23044941 TTT
1 TTT
23044944 CCAAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATTTTAATATTATTAAATA
Found at i:23054651 original size:27 final size:27
Alignment explanation
Indices: 23054613--23054699 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
23054603 ACGACGAGGA
*
23054613 AATTCTGATTTTGGCACATAAGAGTGT
1 AATTCTGATTTTGGCACATAAGAGCGT
*
23054640 AATTCTGATTTTGGCTCATAAGAGCGT
1 AATTCTGATTTTGGCACATAAGAGCGT
* * ** * *
23054667 AATTCTTATTCTAACTCGTAAGAGCGT
1 AATTCTGATTTTGGCACATAAGAGCGT
23054694 AATTCT
1 AATTCT
23054700 ATCTGGCTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (27 bp):
AATTCTGATTTTGGCACATAAGAGCGT
Found at i:23054755 original size:50 final size:50
Alignment explanation
Indices: 23054631--23054806 Score: 187
Period size: 50 Copynumber: 3.4 Consensus size: 50
23054621 TTTTGGCACA
* * ** * **
23054631 TAAGAGTGTAATTCTGATTTTGGCTCATAAGAGCGTAATTCTTATTCTAACTCG
1 TAAGAGCGTAATTCT-A-TCTGGCTTGTAAGAGCATAATTC-TA-TCTGGCTCG
23054685 TAAGAGCGTAATTCTATCTGGCTTGTAAGAGCATAATTCTATCTGGCTCG
1 TAAGAGCGTAATTCTATCTGGCTTGTAAGAGCATAATTCTATCTGGCTCG
*
23054735 TAAGAG-GTTAATTCTGTCTGGCTTGTAAGAGCA-ATATTCTATCTGGGCTCG
1 TAAGAGCG-TAATTCTATCTGGCTTGTAAGAGCATA-ATTCTATCT-GGCTCG
23054786 TAAGAGC-TAGATTCTATCTGG
1 TAAGAGCGTA-ATTCTATCTGG
23054807 GCTCGCATGA
Statistics
Matches: 108, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
49 2 0.02
50 48 0.44
51 24 0.22
52 19 0.18
53 1 0.01
54 14 0.13
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (50 bp):
TAAGAGCGTAATTCTATCTGGCTTGTAAGAGCATAATTCTATCTGGCTCG
Found at i:23054790 original size:26 final size:25
Alignment explanation
Indices: 23054651--23054811 Score: 164
Period size: 25 Copynumber: 6.3 Consensus size: 25
23054641 ATTCTGATTT
* *
23054651 TGGCTCATAAGAGCGTAATTCTTATTC
1 TGGCTCGTAAGAGCATAATTC-TA-TC
** *
23054678 TAACTCGTAAGAGCGTAATTCTATC
1 TGGCTCGTAAGAGCATAATTCTATC
*
23054703 TGGCTTGTAAGAGCATAATTCTATC
1 TGGCTCGTAAGAGCATAATTCTATC
** *
23054728 TGGCTCGTAAGAGGTTAATTCTGTC
1 TGGCTCGTAAGAGCATAATTCTATC
*
23054753 TGGCTTGTAAGAGCA-ATATTCTATC
1 TGGCTCGTAAGAGCATA-ATTCTATC
23054778 TGGGCTCGTAAGAGC-TAGATTCTATC
1 T-GGCTCGTAAGAGCATA-ATTCTATC
23054804 TGGGCTCG
1 T-GGCTCG
23054812 CATGAGCTAA
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.01
25 64 0.56
26 31 0.27
27 18 0.16
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (25 bp):
TGGCTCGTAAGAGCATAATTCTATC
Found at i:23055530 original size:21 final size:21
Alignment explanation
Indices: 23055506--23055582 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
23055496 AGAGTTTTTA
* *
23055506 GTATCGATAGAAGTATGACTT
1 GTATCGGTAGAAGTATCACTT
* *
23055527 GTATCGGTAGATGTCTCACTT
1 GTATCGGTAGAAGTATCACTT
* *
23055548 GTATCGGTAGAACTATCA-TAG
1 GTATCGGTAGAAGTATCACT-T
23055569 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
23055583 CTGCACTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACTT
Found at i:23056123 original size:29 final size:28
Alignment explanation
Indices: 23056067--23056124 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
23056057 TAAGGGTAAT
* **
23056067 TTTGTAAATTTCTTAAAATGGGGGTAAA
1 TTTGTAAATTTCTTAAAAAGGGCATAAA
23056095 TTTGTAAATTTCTTAAAAAGGGACATAAA
1 TTTGTAAATTTCTTAAAAAGGG-CATAAA
23056124 T
1 T
23056125 GCAAGAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (28 bp):
TTTGTAAATTTCTTAAAAAGGGCATAAA
Found at i:23056385 original size:18 final size:18
Alignment explanation
Indices: 23056362--23056410 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
23056352 CGAAAGGAAT
*
23056362 AGCATACTGGCTCGTTTG
1 AGCATATTGGCTCGTTTG
23056380 AGCATATTGGCTCGTTTG
1 AGCATATTGGCTCGTTTG
*
23056398 AACATATTGGCTC
1 AGCATATTGGCTC
23056411 ATAAGAGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (18 bp):
AGCATATTGGCTCGTTTG
Found at i:23057968 original size:37 final size:37
Alignment explanation
Indices: 23057888--23057994 Score: 142
Period size: 37 Copynumber: 2.9 Consensus size: 37
23057878 AATTTTGGTG
* * * * *
23057888 CAATCTGGAAGTGCTCATGTGGCGACAGTTTTTAGGCG
1 CAATCTAGAAGTGCTCATGCGGTGACA-TGTTTAGGCA
*
23057926 CAATCTAGAGGTGCTCATGCGGTGACATGTTTAGGCA
1 CAATCTAGAAGTGCTCATGCGGTGACATGTTTAGGCA
*
23057963 CAATCTAGAAGTGCTCATGCAGTGACATGTTT
1 CAATCTAGAAGTGCTCATGCGGTGACATGTTT
23057995 GGGTGTAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
37 38 0.62
38 23 0.38
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (37 bp):
CAATCTAGAAGTGCTCATGCGGTGACATGTTTAGGCA
Found at i:23058750 original size:58 final size:58
Alignment explanation
Indices: 23058658--23058775 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 58
23058648 GAGTATGTAA
* *
23058658 TTGCGCCGACACACACTCTTACAGTGAGAACCTTTGGCTAGATTAATTTTTCTAGCAC
1 TTGCGCCGACACACACTCTTACAGTGACAACCTTTGGCTAGATTAATTTTTCTAACAC
* * * *
23058716 TTGCGTCGACACACACTCTTATAGTGACAGCCTTTGGCTAGATTACTTTTTCTAACAC
1 TTGCGCCGACACACACTCTTACAGTGACAACCTTTGGCTAGATTAATTTTTCTAACAC
23058774 TT
1 TT
23058776 ACATTGGAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (58 bp):
TTGCGCCGACACACACTCTTACAGTGACAACCTTTGGCTAGATTAATTTTTCTAACAC
Found at i:23061564 original size:220 final size:220
Alignment explanation
Indices: 23061181--23061623 Score: 805
Period size: 220 Copynumber: 2.0 Consensus size: 220
23061171 AGATAATAAA
*
23061181 GAATAAATGCAAAGACAAAAATAGACATCAAACAAACACCATCCTCGACAATGGTGCCAAAACTT
1 GAATAAATGCAAAGACAAAAATAGACATCAAACAAACACCATCCCCGACAATGGTGCCAAAACTT
23061246 GATCGCGCTATGAACTCCACAGCAATGTGCAAGCGTACACTATCGATACAAGTATAGTTGATAGA
66 GATCGCGCTATGAACTCCACAGCAATGTGCAAGCGTACACTATCGATACAAGTATAGTTGATAGA
* *
23061311 AGTGAATCTGTCGGATATCGATCGCACGAGGATGGGTGTCTGTTGTTTAAAATTGTCGGTGCATT
131 AGTGAATCTGTCAGATATCGATCGCACGAGGATGGGTGTCTGTTGTCTAAAATTGTCGGTGCATT
*
23061376 GAATAAGTAAAATGCAATAAATTAT
196 GAATAAGTAAAATGCAACAAATTAT
*
23061401 GAATAAATGCAAAGATAAAAATAGACATCAAACAAACACCATCCCCGACAATGGTGCCAAAACTT
1 GAATAAATGCAAAGACAAAAATAGACATCAAACAAACACCATCCCCGACAATGGTGCCAAAACTT
* *
23061466 GATCGCGCTATGAACTTCACAGCAATGTGCAAGCGTACACTATCGATGCAAGTATAGTTGATAGA
66 GATCGCGCTATGAACTCCACAGCAATGTGCAAGCGTACACTATCGATACAAGTATAGTTGATAGA
*
23061531 AGTGAATCTGTCAGATATCGATCGCAGGAGGATGGGTGTCTGTTGTCTAAAATTGTCGGTGCATT
131 AGTGAATCTGTCAGATATCGATCGCACGAGGATGGGTGTCTGTTGTCTAAAATTGTCGGTGCATT
*
23061596 GAATAAGTAAAATGCAACAAATTTT
196 GAATAAGTAAAATGCAACAAATTAT
23061621 GAA
1 GAA
23061624 ATGGTTGTCA
Statistics
Matches: 214, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
220 214 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (220 bp):
GAATAAATGCAAAGACAAAAATAGACATCAAACAAACACCATCCCCGACAATGGTGCCAAAACTT
GATCGCGCTATGAACTCCACAGCAATGTGCAAGCGTACACTATCGATACAAGTATAGTTGATAGA
AGTGAATCTGTCAGATATCGATCGCACGAGGATGGGTGTCTGTTGTCTAAAATTGTCGGTGCATT
GAATAAGTAAAATGCAACAAATTAT
Found at i:23062433 original size:19 final size:19
Alignment explanation
Indices: 23062393--23062437 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
23062383 TTTTATTAGG
23062393 ATTTAATATTTAAGATATT
1 ATTTAATATTTAAGATATT
* *
23062412 ATTTAGTATTTAA-ATTTGT
1 ATTTAATATTTAAGATAT-T
23062431 ATTTAAT
1 ATTTAAT
23062438 TTATGGCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTAATATTTAAGATATT
Found at i:23063261 original size:15 final size:16
Alignment explanation
Indices: 23063241--23063270 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23063231 CTTCCCTATT
23063241 TTCTA-TTTCTTTTAG
1 TTCTATTTTCTTTTAG
23063256 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
23063271 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAG
Found at i:23063275 original size:22 final size:22
Alignment explanation
Indices: 23063236--23063296 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
23063226 TTCGACTTCC
* *
23063236 CTATTTTCTATTT-CTTTTAGTT
1 CTATTTTCT-TTTATTTTTAATT
23063258 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTATTTTTAATT
*
23063280 CT-GTTTCTTTTATTTTT
1 CTATTTTCTTTTATTTTT
23063297 CCTTAGATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.13, C:0.11, G:0.03, T:0.72
Consensus pattern (22 bp):
CTATTTTCTTTTATTTTTAATT
Found at i:23068871 original size:8 final size:8
Alignment explanation
Indices: 23068858--23068904 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
23068848 GCAACCAATT
23068858 TTTTTTTA
1 TTTTTTTA
23068866 TTTTTTTA
1 TTTTTTTA
*
23068874 TTTTTCTA
1 TTTTTTTA
23068882 TCTTATTTTA
1 T-TT-TTTTA
*
23068892 TTTATTTA
1 TTTTTTTA
23068900 TTTTT
1 TTTTT
23068905 GTCCAGGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 24 0.73
9 4 0.12
10 5 0.15
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:23070582 original size:26 final size:26
Alignment explanation
Indices: 23070539--23070593 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
23070529 AATTCTAGGC
*
23070539 ACAATTTTGGGCACGTTCATGCAACG
1 ACAATTTTGGACACGTTCATGCAACG
* * *
23070565 ACAATTTTGTACATGTTCATGCAGCG
1 ACAATTTTGGACACGTTCATGCAACG
23070591 ACA
1 ACA
23070594 TTCTTGGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (26 bp):
ACAATTTTGGACACGTTCATGCAACG
Found at i:23070708 original size:37 final size:35
Alignment explanation
Indices: 23070661--23070783 Score: 111
Period size: 37 Copynumber: 3.3 Consensus size: 35
23070651 ATTTATTCAA
* *
23070661 CGACAATTTTGGTGCAATCTGGAAGTGCTCATGTGG
1 CGACATTTTTGG-GCAATCTAGAAGTGCTCATGTGG
* * *
23070697 CGATAGTTTTTGGGCGCAATCTAGAGGTGCTCATGCGG
1 CGACA-TTTTT-GG-GCAATCTAGAAGTGCTCATGTGG
* * *
23070735 TGACATGTTTGGGCGTAATCTAGAAGTGCTCATGTAG
1 CGACATTTTTGGGC--AATCTAGAAGTGCTCATGTGG
*
23070772 CGACATGTTTGG
1 CGACATTTTTGG
23070784 TTGCAATTCT
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
35 2 0.03
36 6 0.09
37 37 0.53
38 25 0.36
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (35 bp):
CGACATTTTTGGGCAATCTAGAAGTGCTCATGTGG
Found at i:23070717 original size:38 final size:37
Alignment explanation
Indices: 23070674--23070783 Score: 139
Period size: 37 Copynumber: 2.9 Consensus size: 37
23070664 CAATTTTGGT
* * *
23070674 GCAATCTGGAAGTGCTCATGTGGCGATAGTTTTTGGGC
1 GCAATCTAGAAGTGCTCATGTGGCGACA-TGTTTGGGC
* * *
23070712 GCAATCTAGAGGTGCTCATGCGGTGACATGTTTGGGC
1 GCAATCTAGAAGTGCTCATGTGGCGACATGTTTGGGC
* *
23070749 GTAATCTAGAAGTGCTCATGTAGCGACATGTTTGG
1 GCAATCTAGAAGTGCTCATGTGGCGACATGTTTGG
23070784 TTGCAATTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
37 38 0.62
38 23 0.38
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (37 bp):
GCAATCTAGAAGTGCTCATGTGGCGACATGTTTGGGC
Found at i:23071294 original size:21 final size:23
Alignment explanation
Indices: 23071245--23071302 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
23071235 GAGTTTTTAG
*
23071245 TATCGGTAGAAGCATGACTTGTT
1 TATCGGTAGAAGCATCACTTGTT
*
23071268 T-T-GGTAGAAGTATCA-TT-TT
1 TATCGGTAGAAGCATCACTTGTT
*
23071287 TATCGGTAGAACCATC
1 TATCGGTAGAAGCATC
23071303 CCTAGTATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 21 0.72
22 1 0.03
23 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (23 bp):
TATCGGTAGAAGCATCACTTGTT
Found at i:23073898 original size:15 final size:15
Alignment explanation
Indices: 23073878--23073910 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23073868 AAAATATTAT
23073878 TTTATATTTTAATAA
1 TTTATATTTTAATAA
*
23073893 TTTATATTTTTATAA
1 TTTATATTTTAATAA
23073908 TTT
1 TTT
23073911 TTAAACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATATTTTAATAA
Found at i:23074331 original size:23 final size:21
Alignment explanation
Indices: 23074299--23074340 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
23074289 TATAGCAATT
23074299 ATAATGAGAATTTTAAAATGAGA
1 ATAATGAGAA--TTAAAATGAGA
*
23074322 ATAATTAGAATTAAAATGA
1 ATAATGAGAATTAAAATGA
23074341 TTTTAGCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (21 bp):
ATAATGAGAATTAAAATGAGA
Found at i:23074629 original size:21 final size:22
Alignment explanation
Indices: 23074603--23074661 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
23074593 ATTTTGGTGC
*
23074603 TTTTTTACTGTTTTG-GTTGGT
1 TTTTTTACTGTTTTGTGTTAGT
* *
23074624 TTTTTTGCTGTTTTGGTGTTATT
1 TTTTTTACTGTTTT-GTGTTAGT
23074647 TTTTTTACTGTTTTG
1 TTTTTTACTGTTTTG
23074662 ATTTTTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 13 0.41
22 2 0.06
23 17 0.53
ACGTcount: A:0.05, C:0.05, G:0.20, T:0.69
Consensus pattern (22 bp):
TTTTTTACTGTTTTGTGTTAGT
Found at i:23074672 original size:23 final size:22
Alignment explanation
Indices: 23074603--23074672 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
23074593 ATTTTGGTGC
* *
23074603 TTTTTTACTGTTTTG-GTTGGT
1 TTTTTTACTGTTTTGTTTTTGT
* *
23074624 TTTTTTGCTGTTTTGGTGTTAT-T
1 TTTTTTACTGTTTT-GT-TTTTGT
23074647 TTTTTTACTGTTTTGATTTTTGT
1 TTTTTTACTGTTTTG-TTTTTGT
23074670 TTT
1 TTT
23074673 GGTGCTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
21 13 0.34
22 5 0.13
23 19 0.50
24 1 0.03
ACGTcount: A:0.06, C:0.04, G:0.19, T:0.71
Consensus pattern (22 bp):
TTTTTTACTGTTTTGTTTTTGT
Found at i:23074719 original size:12 final size:12
Alignment explanation
Indices: 23074702--23074756 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
23074692 TTGATGCTGT
23074702 TATTTTTGTTGC
1 TATTTTTGTTGC
* *
23074714 TATTTTTGCTGT
1 TATTTTTGTTGC
*
23074726 TATTTTTGTTGT
1 TATTTTTGTTGC
23074738 TGA-TTTTGTTGC
1 T-ATTTTTGTTGC
23074750 TATTTTT
1 TATTTTT
23074757 ATTGTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 1 0.03
12 35 0.95
13 1 0.03
ACGTcount: A:0.09, C:0.05, G:0.16, T:0.69
Consensus pattern (12 bp):
TATTTTTGTTGC
Found at i:23074723 original size:24 final size:23
Alignment explanation
Indices: 23074696--23074804 Score: 89
Period size: 24 Copynumber: 4.7 Consensus size: 23
23074686 ACTTCTTTGA
23074696 TGCTGTTATTTTTGTTGCTATTTT
1 TGCTGTTATTTTTGTTGCTA-TTT
*
23074720 TGCTGTTATTTTTGTTGTTGATTT
1 TGCTGTTATTTTTGTTGCT-ATTT
* * *
23074744 TGTTGCTATTTTTATTG---TTT
1 TGCTGTTATTTTTGTTGCTATTT
* * *
23074764 TACTGTTATTTTTGCTACTATTT
1 TGCTGTTATTTTTGTTGCTATTT
* *
23074787 TGGTTGTTATTTTGGTTG
1 T-GCTGTTATTTTTGTTG
23074805 TTTGGATGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
20 14 0.22
23 4 0.06
24 46 0.71
25 1 0.02
ACGTcount: A:0.10, C:0.06, G:0.18, T:0.65
Consensus pattern (23 bp):
TGCTGTTATTTTTGTTGCTATTT
Found at i:23074797 original size:12 final size:12
Alignment explanation
Indices: 23074782--23074806 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23074772 TTTTTGCTAC
23074782 TATTTTGGTTGT
1 TATTTTGGTTGT
23074794 TATTTTGGTTGT
1 TATTTTGGTTGT
23074806 T
1 T
23074807 TGGATGTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TATTTTGGTTGT
Found at i:23074806 original size:44 final size:44
Alignment explanation
Indices: 23074717--23074820 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 44
23074707 TTGTTGCTAT
* * ** *
23074717 TTTTGCTGTTATTTTTGTTGTTGATTTTGTTGCTATTTTTATTG
1 TTTTACTGTTATTTTTGCTACTGATTTTGTTGCTATTTTGATTG
* *
23074761 TTTTACTGTTATTTTTGCTACT-ATTTTGGTTGTTATTTTGGTTG
1 TTTTACTGTTATTTTTGCTACTGATTTT-GTTGCTATTTTGATTG
*
23074805 TTTGGA-TGTTATTTTT
1 TTT-TACTGTTATTTTT
23074821 ATACGTTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 5 0.10
44 44 0.88
45 1 0.02
ACGTcount: A:0.11, C:0.05, G:0.18, T:0.66
Consensus pattern (44 bp):
TTTTACTGTTATTTTTGCTACTGATTTTGTTGCTATTTTGATTG
Found at i:23080638 original size:27 final size:27
Alignment explanation
Indices: 23080608--23080662 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
23080598 TTGGTGGAAT
23080608 GATTACTTATTTTTGTCCCATATTACA
1 GATTACTTATTTTTGTCCCATATTACA
23080635 GATTACTTATTTTTGTCCCATATTACA
1 GATTACTTATTTTTGTCCCATATTACA
23080662 G
1 G
23080663 TGAAGAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.47
Consensus pattern (27 bp):
GATTACTTATTTTTGTCCCATATTACA
Found at i:23081348 original size:13 final size:13
Alignment explanation
Indices: 23081332--23081358 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23081322 CAGTTAACTG
23081332 ACCGAATTAACCA
1 ACCGAATTAACCA
23081345 ACCGAATTAACCA
1 ACCGAATTAACCA
23081358 A
1 A
23081359 AAAAGTTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.15
Consensus pattern (13 bp):
ACCGAATTAACCA
Found at i:23083846 original size:17 final size:17
Alignment explanation
Indices: 23083811--23083847 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
23083801 ATATTGTAGT
23083811 AATTTTTTTATAATCAA
1 AATTTTTTTATAATCAA
23083828 AATTTATTTTATAAT-AA
1 AATTT-TTTTATAATCAA
23083845 AAT
1 AAT
23083848 AATACTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTTTTTTATAATCAA
Found at i:23087078 original size:30 final size:29
Alignment explanation
Indices: 23087026--23087087 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
23087016 GTATGCAATT
23087026 AATTTTTATTGAAATTTATTTTAAATATTTA
1 AATTTTTATTG-AATTTATTTT-AATATTTA
23087057 AATTTTTATTG-ATTATATTTTAATATTTA
1 AATTTTTATTGAATT-TATTTTAATATTTA
23087086 AA
1 AA
23087088 ATATAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 13 0.43
30 6 0.20
31 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
AATTTTTATTGAATTTATTTTAATATTTA
Found at i:23087117 original size:20 final size:20
Alignment explanation
Indices: 23087068--23087119 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
23087058 ATTTTTATTG
*
23087068 ATTATATTTTA-ATATTTAA
1 ATTAAATTTTATATATTTAA
* *
23087087 AATATAA-TTTATATATTTTA
1 ATTA-AATTTTATATATTTAA
23087107 ATTAAATTTTATA
1 ATTAAATTTTATA
23087120 AATAATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTAAATTTTATATATTTAA
Found at i:23088245 original size:20 final size:20
Alignment explanation
Indices: 23088205--23088249 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
23088195 TGTTTTATTT
*
23088205 TACATATATATACACGTATA
1 TACATATATATACAAGTATA
23088225 TACATATATATACATAG-ATA
1 TACATATATATACA-AGTATA
23088245 TACAT
1 TACAT
23088250 TTTGATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (20 bp):
TACATATATATACAAGTATA
Found at i:23088363 original size:22 final size:22
Alignment explanation
Indices: 23088323--23088364 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23088313 CTTTTATTAT
** *
23088323 ATATATATATGTATGTACATAA
1 ATATATATATAAATATACATAA
23088345 ATATATATATAAATATACAT
1 ATATATATATAAATATACAT
23088365 CTTGATTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (22 bp):
ATATATATATAAATATACATAA
Found at i:23089175 original size:30 final size:30
Alignment explanation
Indices: 23089136--23089391 Score: 306
Period size: 30 Copynumber: 8.6 Consensus size: 30
23089126 ATTTTCTTTG
*
23089136 AAAATTACATTTTGACCCTCAAACTTTTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCC
*
23089166 AAAAGTACATTTTAACCC-CAAACTTTTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCC
* *
23089195 AAAAGTACATTTTAACCC-CAAACTTCTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCC
* * *
23089224 AAAATTACATTTTAACCCTTAAGCTTTTCT
1 AAAATTACATTTTAACCCTCAAACTTTTCC
* * *
23089254 AAAATTTCATTTTAACCCTTAAACTTTTCT
1 AAAATTACATTTTAACCCTCAAACTTTTCC
23089284 AAAATTACATTTTAA-CCTCTAAACTTTTCC
1 AAAATTACATTTTAACCCTC-AAACTTTTCC
*
23089314 AAAATTATATTTTAACCCT-AAAC-TTTCTC
1 AAAATTACATTTTAACCCTCAAACTTTTC-C
* * *
23089343 AAAATTACATTTTTACCCCTTAAACTTTTCT
1 AAAATTACA-TTTTAACCCTCAAACTTTTCC
**
23089374 AAAATTATGTTTTAACCC
1 AAAATTACATTTTAACCC
23089392 CATATCCTCT
Statistics
Matches: 199, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
28 4 0.02
29 72 0.36
30 105 0.53
31 14 0.07
32 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTCAAACTTTTCC
Found at i:23092831 original size:24 final size:24
Alignment explanation
Indices: 23092804--23092854 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
23092794 ATTTAGCCCA
23092804 TACGAGCCTAGAATGATTAGCTCT
1 TACGAGCCTAGAATGATTAGCTCT
23092828 TACGAGCCTAGAATGATTAGCTCT
1 TACGAGCCTAGAATGATTAGCTCT
23092852 TAC
1 TAC
23092855 AAGATCAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
TACGAGCCTAGAATGATTAGCTCT
Found at i:23096948 original size:22 final size:21
Alignment explanation
Indices: 23096905--23096965 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
23096895 TTCGACTTCC
* *
23096905 CTATTTTCTATTTCTTTCAATT
1 CTATTTTCT-TTTTTTTTAATT
23096927 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTT-TTTTTAATT
*
23096949 ATA-TTTCTTTTGTTTTT
1 CTATTTTCTTTT-TTTTT
23096966 CCTCAGATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (21 bp):
CTATTTTCTTTTTTTTTAATT
Found at i:23100258 original size:78 final size:78
Alignment explanation
Indices: 23100136--23100964 Score: 551
Period size: 78 Copynumber: 10.6 Consensus size: 78
23100126 GAAGATTTTG
* * * * ** *
23100136 ATCTCTTACCTCGATCATGGGGCAGATCACAATCATCCGATCTTTTACCCCGAGCCTAGGGC-GA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAG-
23100200 ATCACCATCAGCCA
65 ATCACCATCAGCCA
* * * * * * *
23100214 ATTTCTTACCCCGAGCCTGGGGTAAATTGCAGCCATTCGATCTTTTACCTCGAGCCTAGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGA
*
23100279 TCACCATCAGACA
66 TCACCATCAGCCA
* * *
23100292 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAG-TTTGAGGCAG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCCTAG-GGCAG
*
23100356 ATCACTATCAGCCA
65 ATCACCATCAGCCA
* * * * * * * * * *
23100370 ATCTCTTACCTCGAGCCTGGGGTAGATTATAGCCATTCAATATTTTACCTCGAGCCTAAGGTATA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGA
23100435 TCACCATCAGCCA
66 TCACCATCAGCCA
* * *
23100448 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTAAGGCA-A
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGA
23100512 GTCACCATCAGCCA
66 -TCACCATCAGCCA
* * * * ** * *
23100526 ATCTCTTACCCCAAGCTTGGGGCAGGTCACCA-TCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTA-CAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAG
* * *
23100590 ATTA-CAGCCATCCA
65 ATCACCA-TCAGCCA
* * * ** * * ** * * * *
23100604 ATCTTTTACCCCCAACTTGAAGCAGATCACCA-TCAGCCAATCTCTTACCCCGAGCTTGGGGCAG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTA-CAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAG
* *
23100668 ATTGTAGCCAT---CCG
65 A-T-CA-CCATCAGCCA
* * * * * * * * *
23100682 ATCTTTTACCTCGAGCTTGGGG-AAAAT-CA-CCATCAACCAGTCTCTTACCCCGAGCTTGGGGC
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCAT--TCGA-TCTTTTACCCCGAGCCTAGGGC
*
23100744 AGATTGCAACCATCTG---
63 AGA-T-C-ACCATCAGCCA
* * * * * * *
23100760 ATCTTTTACCCCGAGCCTAGGGCAGATTACAGCCATTTGATCTTTTACCCCAAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGA
*
23100825 TCATCATCAGCCA
66 TCACCATCAGCCA
* * * * * * * * *
23100838 ATCTCTTACCTCAAGCTTGGGGCAGATTGCAACCA-TCTTATCTTTTACCCCGATCATGGGGTAG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTC-GATCTTTTACCCCGAGCCTAGGGCAG
** *
23100902 ATCACTGTTAGCCA
65 ATCACCATCAGCCA
* * *
23100916 ATCTCTTACCCCGTA-ATAGGGGCAGATTACAACCA-TCTGATCTTTTACC
1 ATCTCTTACCCCG-AGCTTGGGGCAGATTACAGCCATTC-GATCTTTTACC
23100965 TCGATCATGG
Statistics
Matches: 605, Mismatches: 120, Indels: 52
0.78 0.15 0.07
Matches are distributed among these distances:
75 10 0.02
76 1 0.00
77 11 0.02
78 561 0.93
79 12 0.02
80 4 0.01
81 4 0.01
82 2 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTTACCCCGAGCCTAGGGCAGA
TCACCATCAGCCA
Found at i:23100730 original size:117 final size:117
Alignment explanation
Indices: 23100601--23100890 Score: 282
Period size: 117 Copynumber: 2.5 Consensus size: 117
23100591 TTACAGCCAT
* * *
23100601 CCAATCTTTTACCCCCAACTTGAAGCAGA-T-C-ACCATCAGCCAATCTCTTACCCCGAGCTTGG
1 CCAATCTCTTACCCCCAACTTGAAGCAGATTGCAACCATCAG---ATCTCTTACCCCGAGCCTAG
** * *
23100663 GGCAGATTGTAGCCATCCGATCTTTTACCTCGAGCTTGGGGAAAATCACCATCAA
63 GGCAGATTACAGCCATCCGATCTTTTACCCCAAGCTTGGGGAAAATCACCATCAA
* * * ** * *
23100718 CCAGTCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATCTGATCTTTTACCCCGAGCCTAGGGC
1 CCAATCTCTTACCCCCAACTTGAAGCAGATTGCAACCATCAGATCTCTTACCCCGAGCCTAGGGC
** * * * *
23100783 AGATTACAGCCATTTGATCTTTTACCCCAAGCTTGGGGCAGATCATCATCAG
66 AGATTACAGCCATCCGATCTTTTACCCCAAGCTTGGGGAAAATCACCATCAA
* ** ** *
23100835 CCAATCTCTTA-CCTCAAGCTTGGGGCAGATTGCAACCATCTTATCTTTTACCCCGA
1 CCAATCTCTTACCCCCAA-CTTGAAGCAGATTGCAACCATCAGATCTCTTACCCCGA
23100891 TCATGGGGTA
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
116 3 0.02
117 132 0.92
118 1 0.01
119 1 0.01
120 7 0.05
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (117 bp):
CCAATCTCTTACCCCCAACTTGAAGCAGATTGCAACCATCAGATCTCTTACCCCGAGCCTAGGGC
AGATTACAGCCATCCGATCTTTTACCCCAAGCTTGGGGAAAATCACCATCAA
Found at i:23100923 original size:195 final size:192
Alignment explanation
Indices: 23100434--23101061 Score: 672
Period size: 195 Copynumber: 3.2 Consensus size: 192
23100424 CCTAAGGTAT
23100434 ATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCAT-TCGATCTTTTACCC
1 ATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCT-GATCTTTTACCC
* * * * * * *
23100498 CGAGCCTAAGGCAAGTCACCATCAGCCAATCTCTTACCCCAAGCTTGGGGCAG-GTC-ACCATCA
65 CGAGCAT-GGGGAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTCAACCATCT
* * * **
23100561 GCCAATCTCTTACCCCGAGCCTAGGGCAGATTACAGCCATCCAATCTTTTACCCCCAACTTGAAG
129 G---ATCTTTTACCCCGAGCCTAGGGCAGATTACAGCCATTCGATCTTTTA-CCCCAACTTGGGG
23100626 CAG
190 CAG
* * * *
23100629 ATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGTAGCCATCCGATCTTTTACCTC
1 ATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCC
* * *
23100694 GAGCTTGGGGAAAATCACCATCAACCAGTCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATCT
66 GAGCATGGGG-AAATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATT-CAACCATCT
*
23100759 GATCTTTTACCCCGAGCCTAGGGCAGATTACAGCCATTTGATCTTTTACCCCAAGCTTGGGGCAG
129 GATCTTTTACCCCGAGCCTAGGGCAGATTACAGCCATTCGATCTTTTACCCCAA-CTTGGGGCAG
* * * *
23100824 ATCATCATCAGCCAATCTCTTACCTCAAGCTTGGGGCAGATTGCAACCATCTTATCTTTTACCCC
1 ATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCC
* * ** * * *
23100889 GATCATGGGGTAGATCACTGTTAGCCAATCTCTTACCCCGTA-ATAGGGGCAGATTACAACCATC
66 GAGCATGGGG-AAATCACCATCAGCCAATCTCTTACCCCG-AGCTTGGGGCAGATT-CAACCATC
* * * * * * * * * *
23100953 TGATCTTTTACCTCGATCAT-GGGATAGATCACAACCACTCGATCTCTTACCCCGACCATGGGGC
128 TGATCTTTTACCCCGAGCCTAGGG-CAGATTACAGCCATTCGATCTTTTACCCC-AACTTGGGGC
23101017 AG
191 AG
** * * * *
23101019 ATCATAACCATCCAATCTCTTACCTCGATCATGGGGCAGATTG
1 ATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTG
23101062 TAGTTATCCA
Statistics
Matches: 368, Mismatches: 56, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
194 11 0.03
195 346 0.94
196 3 0.01
197 1 0.00
198 7 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (192 bp):
ATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCC
GAGCATGGGGAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTCAACCATCTGA
TCTTTTACCCCGAGCCTAGGGCAGATTACAGCCATTCGATCTTTTACCCCAACTTGGGGCAG
Found at i:23100925 original size:117 final size:117
Alignment explanation
Indices: 23100643--23100927 Score: 282
Period size: 117 Copynumber: 2.4 Consensus size: 117
23100633 CCATCAGCCA
* * * *** * * * * *
23100643 ATCTCTTACCCCGAGCTTGGGGCAGATTGTAGCCATCCGATCTTTTACCTCGAGCTTGGGGAAAA
1 ATCTTTTACCCCGAGCATAGGGCAGATCACAGCCAGCCAATCTCTTACCCCAAGCTTGGGGAAAA
* *
23100708 TCACCATCAACCAGTCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATCTG
66 TCACCATCAACCAATCTCTTACCCCAAGCTTGGGGCAGATTGCAACCATCTG
* * **** * * *
23100760 ATCTTTTACCCCGAGCCTAGGGCAGATTACAGCCATTTGATCTTTTACCCCAAGCTTGGGGCAGA
1 ATCTTTTACCCCGAGCATAGGGCAGATCACAGCCAGCCAATCTCTTACCCCAAGCTTGGGGAAAA
* * * *
23100825 TCATCATCAGCCAATCTCTTACCTCAAGCTTGGGGCAGATTGCAACCATCTT
66 TCACCATCAACCAATCTCTTACCCCAAGCTTGGGGCAGATTGCAACCATCTG
* * * * **
23100877 ATCTTTTACCCCGATCATGGGGTAGATCACTGTTAGCCAATCTCTTACCCC
1 ATCTTTTACCCCGAGCATAGGGCAGATCACAGCCAGCCAATCTCTTACCCC
23100928 GTAATAGGGG
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
117 138 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (117 bp):
ATCTTTTACCCCGAGCATAGGGCAGATCACAGCCAGCCAATCTCTTACCCCAAGCTTGGGGAAAA
TCACCATCAACCAATCTCTTACCCCAAGCTTGGGGCAGATTGCAACCATCTG
Found at i:23100970 original size:78 final size:76
Alignment explanation
Indices: 23100136--23101059 Score: 272
Period size: 78 Copynumber: 11.8 Consensus size: 76
23100126 GAAGATTTTG
* * * * * * *
23100136 ATCTCTTACCTCGATCATGGGGCAGATCACAATCATCCGATCTTTTACCCCGAGCCTAGGGC-GA
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAG-
*
23100200 ATCACCATCAGCCA
63 ATCACTATCAGCCA
* * * * * * * * * * *
23100214 ATTTCTTACCCCGAGCCTGGGGTAAATTGCAGCCAT-TCGATCTTTTACCTCGAGCCTAGGGTAG
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCT-GATCTTTTACCCCGATCATGGGGCAG
* *
23100278 ATCACCATCAGACA
63 ATCACTATCAGCCA
* * * * *
23100292 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGT-TTGAGGCAG
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCTGATCTTTTACCCCGA-TCATGGGGCAG
23100356 ATCACTATCAGCCA
63 ATCACTATCAGCCA
* * * * * * * * * * ** * *
23100370 ATCTCTTACCTCGAGCCTGGGGTAGATTATAGCCAT-TCAATATTTTACCTCGAGCCTAAGGTAT
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCT-GATCTTTTACCCCGATCATGGGGCAG
*
23100434 ATCACCATCAGCCA
63 ATCACTATCAGCCA
* * * * * * **
23100448 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCAT-TCGATCTTTTACCCCGAGCCTAAGGCA-
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCT-GATCTTTTACCCCGATCATGGGGCAG
*
23100511 AGTCACCATCAGCCA
63 A-TCACTATCAGCCA
* * * * * ** * * * *
23100526 ATCTCTTACCCC-AAGCTTGGGGCAGGTCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTCTTACCCCGAA---TGGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAG
* * *
23100590 ATTAC-AGCCATCCA
63 ATCACTA-TCAGCCA
* * ** * * * * ** * * *
23100604 ATCTTTTACCCCCAACTTGAAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAA--TGGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAGA
** * * *
23100669 T-TGTAGCCATCCG
64 TCACTA-TCAGCCA
* * * * * * * * * * * * *
23100682 ATCTTTTACCTCGAGCTTGGGGAAAATCACCATCAAC-CAGTCTCTTACCCCGAGCTTGGGGCAG
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCTGA-TCTTTTACCCCGATCATGGGGCAG
** * * * **
23100746 ATTGCAACCATCTG
63 ATCACTATCAGCCA
* * * * * * * *
23100760 ATCTTTTACCCCGAGCCTAGGGCAGATTACAGCCATTTGATCTTTTACCCCAAGCTTGGGGCAGA
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAGA
23100825 TCA-TCATCAGCCA
64 TCACT-ATCAGCCA
* * * *
23100838 ATCTCTTACCTC-AAGCTTGGGGCAGATTGCAACCATCTTATCTTTTACCCCGATCATGGGGTAG
1 ATCTCTTACCCCGAA---TGGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAG
* *
23100902 ATCACTGTTAGCCA
63 ATCACTATCAGCCA
* **
23100916 ATCTCTTACCCCGTAATAGGGGCAGATTACAACCATCTGATCTTTTACCTCGATCATGGGATAGA
1 ATCTCTTACCCCG-AAT-GGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAGA
* * *
23100981 TCACAACCA-CTCG
64 TCACTATCAGC-CA
* * ** * *
23100994 ATCTCTTACCCCGACCATGGGGCAGATCATAACCATCCAATCTCTTACCTCGATCATGGGGCAGA
1 ATCTCTTACCCCGA--ATGGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAGA
23101059 T
64 T
23101060 TGTAGTTATC
Statistics
Matches: 675, Mismatches: 140, Indels: 62
0.77 0.16 0.07
Matches are distributed among these distances:
77 8 0.01
78 656 0.97
79 9 0.01
80 2 0.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (76 bp):
ATCTCTTACCCCGAATGGGGCAGATTACAACCATCTGATCTTTTACCCCGATCATGGGGCAGATC
ACTATCAGCCA
Found at i:23101072 original size:39 final size:39
Alignment explanation
Indices: 23100523--23101059 Score: 168
Period size: 39 Copynumber: 13.8 Consensus size: 39
23100513 TCACCATCAG
* * * * ** * *
23100523 CCAATCTCTTACCCCAAGCTTGGGGCAGGTCACCATCAG
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
* * * *
23100562 CCAATCTCTTACCCCGAGCC-TAGGGCAGATTACAGCCAT
1 CCAATCTCTTACCCCGA-CCATGGGGCAGATCATAACCAT
* * * * ** ** * *
23100601 CCAATCTTTTACCCCCAACTTGAAGCAGATCACCATCAG
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
* * ** *
23100640 CCAATCTCTTACCCCGAGCTTGGGGCAGATTGTAGCCAT
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
* * * * * * * ** * *
23100679 CCGATCTTTTACCTCGAGCTTGGGGAAAATCACCATCAA
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
* * * ***
23100718 CCAGTCTCTTACCCCGAGCTTGGGGCAGATTGCAACCAT
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
** * * * * *
23100757 CTGATCTTTTACCCCGAGCC-TAGGGCAGATTACAGCCAT
1 CCAATCTCTTACCCCGA-CCATGGGGCAGATCATAACCAT
*** * * * * * * *
23100796 TTGATCTTTTACCCCAAGCTTGGGGCAGATCATCATCAG
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
* * * * ***
23100835 CCAATCTCTTACCTCAAGCTTGGGGCAGATTGCAACCAT
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
** * * * *** *
23100874 CTTATCTTTTACCCCGATCATGGGGTAGATCACT-GTTAG
1 CCAATCTCTTACCCCGACCATGGGGCAGATCA-TAACCAT
* *
23100913 CCAATCTCTTACCCCGTA--ATAGGGGCAGATTACAACCAT
1 CCAATCTCTTACCCCG-ACCAT-GGGGCAGATCATAACCAT
** * * * ** *
23100952 CTGATCTTTTACCTCGATCATGGGATAGATCACAACCA-
1 CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
*
23100990 CTCGATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
1 C-CAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
* *
23101030 CCAATCTCTTACCTCGATCATGGGGCAGAT
1 CCAATCTCTTACCCCGACCATGGGGCAGAT
23101060 TGTAGTTATC
Statistics
Matches: 360, Mismatches: 126, Indels: 24
0.71 0.25 0.05
Matches are distributed among these distances:
38 6 0.02
39 348 0.97
40 6 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (39 bp):
CCAATCTCTTACCCCGACCATGGGGCAGATCATAACCAT
Found at i:23102165 original size:10 final size:10
Alignment explanation
Indices: 23102152--23102196 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
23102142 TGTTTTATTT
23102152 TACATATATA
1 TACATATATA
23102162 TACA-AGTATA
1 TACATA-TATA
*
23102172 TGCATATATA
1 TACATATATA
*
23102182 TACATAGATA
1 TACATATATA
23102192 TACAT
1 TACAT
23102197 TTTGATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 1 0.03
10 28 0.93
11 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (10 bp):
TACATATATA
Found at i:23102364 original size:3 final size:3
Alignment explanation
Indices: 23102356--23102416 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
23102346 GCATGTACAT
23102356 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23102404 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
23102417 GTTTTAGAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23102519 original size:22 final size:23
Alignment explanation
Indices: 23102482--23102525 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
23102472 ATAATTATAT
*
23102482 AATAATAAAATGTCATAATAAAA
1 AATAATAAAATATCATAATAAAA
23102505 AATAA-AAAATATCATAATAAA
1 AATAATAAAATATCATAATAAA
23102526 TTTAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (23 bp):
AATAATAAAATATCATAATAAAA
Found at i:23106601 original size:4 final size:4
Alignment explanation
Indices: 23106586--23106624 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
23106576 CATTTAAACA
*
23106586 TATG TCTG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
23106625 ACATGAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:23112209 original size:24 final size:23
Alignment explanation
Indices: 23112172--23112239 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
23112162 CCAAACAAAA
* *
23112172 TTAGCTCATGCGAGCCCA-ATTAGG
1 TTAGCTC-TTCGAGCCCAGA-TAAG
*
23112196 TTAGCTCTTACGAGCCTAGATAAG
1 TTAGCTCTT-CGAGCCCAGATAAG
23112220 TTAGCTCATTCGAGCCCAGA
1 TTAGCTC-TTCGAGCCCAGA
23112240 CAGAGTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
23 1 0.03
24 33 0.89
25 3 0.08
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (23 bp):
TTAGCTCTTCGAGCCCAGATAAG
Found at i:23113348 original size:18 final size:18
Alignment explanation
Indices: 23113308--23113348 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
23113298 CTCATTTTCT
23113308 TTACTTTTAATTTTGTTTA
1 TTAC-TTTAATTTTGTTTA
23113327 -TACTTTAA-TTTGTTTAA
1 TTACTTTAATTTTGTTT-A
23113344 TTACT
1 TTACT
23113349 CTTTTACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.35
17 6 0.30
18 7 0.35
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (18 bp):
TTACTTTAATTTTGTTTA
Found at i:23114563 original size:27 final size:26
Alignment explanation
Indices: 23114506--23114563 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
23114496 TGATAGTTTT
*
23114506 CATATAAATCATTTCTCACACATATG
1 CATATAAATCATTTCTCACACATACG
*
23114532 C-TAT-AATACATTTCTCTCACATTACG
1 CATATAAAT-CATTTCTCACACA-TACG
23114558 CATATA
1 CATATA
23114564 CAGATTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 3 0.12
25 15 0.58
26 5 0.19
27 3 0.12
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (26 bp):
CATATAAATCATTTCTCACACATACG
Found at i:23116930 original size:82 final size:81
Alignment explanation
Indices: 23116796--23117017 Score: 324
Period size: 82 Copynumber: 2.7 Consensus size: 81
23116786 TAACCAGTAT
* * *
23116796 ACGATGCTGCTCACACAA--GATGAGAATCCGCAACATATGCAGAAAGTCAGCCATCG-ATACGG
1 ACGATGCTGCTCACACAAGTGATGAGAATCCACAACGTATGCAGAAACTCAGCCATCGTA-ACGG
23116858 TCCAGAATTACCCACTC
65 TCCAGAATTACCCACTC
* *
23116875 ACGATGATGCTCACACAAGCTGATGAGAATCCACAACGTATGTAGAAACTCAGCCATCGTAACGG
1 ACGATGCTGCTCACACAAG-TGATGAGAATCCACAACGTATGCAGAAACTCAGCCATCGTAACGG
23116940 TCCAGAATTACCCACTC
65 TCCAGAATTACCCACTC
* * *
23116957 ACGATGCTGTTCACACAAGTTGATGAGAATCCATAACGTATGCAGAAACTCAGTCATCGTA
1 ACGATGCTGCTCACACAAG-TGATGAGAATCCACAACGTATGCAGAAACTCAGCCATCGTA
23117018 GGGGTCCATA
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 17 0.13
82 110 0.86
83 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (81 bp):
ACGATGCTGCTCACACAAGTGATGAGAATCCACAACGTATGCAGAAACTCAGCCATCGTAACGGT
CCAGAATTACCCACTC
Found at i:23123150 original size:312 final size:312
Alignment explanation
Indices: 23122585--23123211 Score: 1092
Period size: 312 Copynumber: 2.0 Consensus size: 312
23122575 AACTCCAAGG
* * *
23122585 TTGGAGCTTGTTTGATTGATGGTTTAAACACAGGGATCGTTCTGTTGGATAAATCCAAGGATTCT
1 TTGGAGCTTGTTCGATTGATGGTTTAAACACAGGGATCGTCCTGTTGGATAAATCCAAGGATTCC
* * * *
23122650 AGTAGCCAGCCCTGTTTCAGCTCATAATTATTAGCCTCAGCTCTATGGTCGCATTTAGTTAGGAT
66 AATAGCCAACCCTGTTTCAGCTCATAACTATTAGCCTCAGCTCTATGGTCGCATTCAGTTAGGAT
* * * **
23122715 ATCATCGGTGGTTGTCACTGTATCTTCCTTTGAAATTGTTGAACTTTGTTTATTAAATTCTTCTA
131 ATCATCGGTGGTTGTCACTGCATCTTCCTCTGAAACTGTTGAACTTCATTTATTAAATTCTTCTA
*
23122780 TAATTACCTCGTCCAGCACATCAATGTGGTGACATTGCTCTTTACTTGTAGATGGAGCTGTTTTA
196 TAATTACCTCGTCCAGCACATCAATGTGGTGACATTGCTCTTTACTTGTAGATGGAGCTATTTTA
* *
23122845 AACACATTGAATGTAACATGCTTGTCATTATGATGCATAATGAGCTCGCCTT
261 AACACACTGAATGTAACATGCTCGTCATTATGATGCATAATGAGCTCGCCTT
* *
23122897 TTGGAGCTTGTTCGATTGATGGTTTAAACATAGGGATTGTCCTGTTGGATAAATCCAAGGATTCC
1 TTGGAGCTTGTTCGATTGATGGTTTAAACACAGGGATCGTCCTGTTGGATAAATCCAAGGATTCC
23122962 AATAGCCAACCCTGTTTCAGCTCATAACTATTAGCCTCAGCTCTATGGTCGCATTCAGTTAGGAT
66 AATAGCCAACCCTGTTTCAGCTCATAACTATTAGCCTCAGCTCTATGGTCGCATTCAGTTAGGAT
*
23123027 ATCATCGTTGGTTGTCACTGCATCTTCCTCTGAAACTGTTGAACTTCATTTATTAAATTCTTCTA
131 ATCATCGGTGGTTGTCACTGCATCTTCCTCTGAAACTGTTGAACTTCATTTATTAAATTCTTCTA
23123092 TAATTACCTCGTCCAGCACATCAATGTGGTGACATTGCTCTTTACTTGTAGATGGAGCTATTTTA
196 TAATTACCTCGTCCAGCACATCAATGTGGTGACATTGCTCTTTACTTGTAGATGGAGCTATTTTA
23123157 AACACACTGAATGTAACATGCTCGTCATTATGATGCATAATGAGCTCGCCTT
261 AACACACTGAATGTAACATGCTCGTCATTATGATGCATAATGAGCTCGCCTT
23123209 TTG
1 TTG
23123212 AAAACATCAA
Statistics
Matches: 297, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
312 297 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (312 bp):
TTGGAGCTTGTTCGATTGATGGTTTAAACACAGGGATCGTCCTGTTGGATAAATCCAAGGATTCC
AATAGCCAACCCTGTTTCAGCTCATAACTATTAGCCTCAGCTCTATGGTCGCATTCAGTTAGGAT
ATCATCGGTGGTTGTCACTGCATCTTCCTCTGAAACTGTTGAACTTCATTTATTAAATTCTTCTA
TAATTACCTCGTCCAGCACATCAATGTGGTGACATTGCTCTTTACTTGTAGATGGAGCTATTTTA
AACACACTGAATGTAACATGCTCGTCATTATGATGCATAATGAGCTCGCCTT
Found at i:23130679 original size:28 final size:28
Alignment explanation
Indices: 23130647--23130759 Score: 99
Period size: 28 Copynumber: 4.0 Consensus size: 28
23130637 ATCATTGCCC
23130647 ATTCGAGCCCAGAA-CAAAATAATGCTCT
1 ATTCGAG-CCAGAATCAAAATAATGCTCT
* *
23130675 ATTCGAGCTAGAATCGAAAT-ATCGCTCT
1 ATTCGAGCCAGAATCAAAATAAT-GCTCT
* *
23130703 -TTCCGAGCTAGAATCAGAATAATGCTCT
1 ATT-CGAGCCAGAATCAAAATAATGCTCT
** *
23130731 ACCCGAGCCAGAAGT-AGAATAATGCTCT
1 ATTCGAGCCAGAA-TCAAAATAATGCTCT
23130759 A
1 A
23130760 CCCGAGCAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
27 9 0.12
28 60 0.83
29 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (28 bp):
ATTCGAGCCAGAATCAAAATAATGCTCT
Found at i:23130760 original size:28 final size:29
Alignment explanation
Indices: 23130705--23130995 Score: 208
Period size: 28 Copynumber: 10.4 Consensus size: 29
23130695 ATCGCTCTTT
*
23130705 CCGAGCTAGAA-TCAGAATAATGCTCTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
*
23130733 CCGAGCCAGAAGT-AGAATAATGCTCTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
* * **
23130761 CCGAGCAAG-ATTCAGAGTAACACTCTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
* * * *
23130789 CCGAACCAA-ATGT-AGAATGATGATCTAC
1 CCG-AGCAAGAAGTCAGAATAATGCTCTAC
* * *
23130817 CCGAGCAAG-ATTCAGAGTAACGCTCTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
* * * * *
23130845 CTGACCCAGATGT-AGAATAATGCACTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
* * *
23130873 CCGAGCAAG-ATTCAGAGTAATGTTCTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
* * *
23130901 CTGAGCCAGATGT-AGAATAATGCTCTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
* * *
23130929 TCGAGCAAG-ATTCAGAGTAATGCTCTAC
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
* * * *
23130957 CCGAGCAAG-ATTCAGAATATTGCTTTAT
1 CCGAGCAAGAAGTCAGAATAATGCTCTAC
*
23130985 CCGAGCTAGAA
1 CCGAGCAAGAA
23130996 TTAGAACATC
Statistics
Matches: 197, Mismatches: 55, Indels: 21
0.72 0.20 0.08
Matches are distributed among these distances:
27 9 0.05
28 179 0.91
29 9 0.05
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (29 bp):
CCGAGCAAGAAGTCAGAATAATGCTCTAC
Found at i:23130974 original size:56 final size:56
Alignment explanation
Indices: 23130705--23130990 Score: 367
Period size: 56 Copynumber: 5.1 Consensus size: 56
23130695 ATCGCTCTTT
* * * *
23130705 CCGAGCTAGAATCAGAATAATGCTCTACCCGAGCCAGAAGTAGAATAATGCTCTAC
1 CCGAGCAAGATTCAGAGTAATGCTCTACCCGAGCCAGATGTAGAATAATGCTCTAC
** * * * *
23130761 CCGAGCAAGATTCAGAGTAACACTCTACCCGAACCAAATGTAGAATGATGATCTAC
1 CCGAGCAAGATTCAGAGTAATGCTCTACCCGAGCCAGATGTAGAATAATGCTCTAC
* * * *
23130817 CCGAGCAAGATTCAGAGTAACGCTCTACCTGACCCAGATGTAGAATAATGCACTAC
1 CCGAGCAAGATTCAGAGTAATGCTCTACCCGAGCCAGATGTAGAATAATGCTCTAC
* *
23130873 CCGAGCAAGATTCAGAGTAATGTTCTACCTGAGCCAGATGTAGAATAATGCTCTAC
1 CCGAGCAAGATTCAGAGTAATGCTCTACCCGAGCCAGATGTAGAATAATGCTCTAC
* * * * *
23130929 TCGAGCAAGATTCAGAGTAATGCTCTACCCGAGCAAGAT-TCAGAATATTGCTTTAT
1 CCGAGCAAGATTCAGAGTAATGCTCTACCCGAGCCAGATGT-AGAATAATGCTCTAC
23130985 CCGAGC
1 CCGAGC
23130991 TAGAATTAGA
Statistics
Matches: 200, Mismatches: 29, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
55 1 0.00
56 199 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (56 bp):
CCGAGCAAGATTCAGAGTAATGCTCTACCCGAGCCAGATGTAGAATAATGCTCTAC
Found at i:23131016 original size:28 final size:28
Alignment explanation
Indices: 23130930--23131017 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
23130920 ATGCTCTACT
*
23130930 CGAGCAAGATTCAGAGTA-AT-GCTCTACC
1 CGAGCAAGATTCAGA--ACATCGCTATACC
* * * *
23130958 CGAGCAAGATTCAGAATATTGCTTTATC
1 CGAGCAAGATTCAGAACATCGCTATACC
*
23130986 CGAGCTAGAATT-AGAACATCGCTATACC
1 CGAGCAAG-ATTCAGAACATCGCTATACC
23131014 CGAG
1 CGAG
23131018 ACTTCCATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 1 0.02
27 2 0.04
28 44 0.88
29 3 0.06
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (28 bp):
CGAGCAAGATTCAGAACATCGCTATACC
Found at i:23146032 original size:20 final size:21
Alignment explanation
Indices: 23146007--23146045 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23145997 TGCATTTTTA
*
23146007 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTCAGTGACT
23146027 GCATTTTCTAACTCAGTGA
1 GCATTTTCTAACTCAGTGA
23146046 TGCTCGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGACT
Found at i:23153764 original size:14 final size:15
Alignment explanation
Indices: 23153733--23153768 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
23153723 ACATCTCAAA
23153733 CTTTTACTTTTTATTT
1 CTTTT-CTTTTTATTT
23153749 CTTTTCTTTTTA-TT
1 CTTTTCTTTTTATTT
23153763 CTTTTC
1 CTTTTC
23153769 ACAACAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 7 0.35
16 5 0.25
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (15 bp):
CTTTTCTTTTTATTT
Found at i:23158993 original size:15 final size:15
Alignment explanation
Indices: 23158975--23159011 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
23158965 ATCATTTTCA
23158975 TCCTTTTC-ATTGATG
1 TCCTTTTCGA-TGATG
23158990 TCCTTTTCGATGATG
1 TCCTTTTCGATGATG
23159005 TCCTTTT
1 TCCTTTT
23159012 TGAACTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.11, C:0.22, G:0.14, T:0.54
Consensus pattern (15 bp):
TCCTTTTCGATGATG
Found at i:23159185 original size:90 final size:89
Alignment explanation
Indices: 23159033--23159288 Score: 300
Period size: 90 Copynumber: 2.9 Consensus size: 89
23159023 TTATTCTGGG
* * * * * ** * * *
23159033 GATGCCATGGTATCTTTCAACCAAGGTCTTACACAATTCCAAAACGATGCAATAATACCTTTCAA
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACATTTCCAAGATAATGCCATAGTATCTTTCAA
*
23159098 CTATGGTCTT-CATCAT-TCCTGATA
66 CTATGGTCTTACA-CATGT-CAGATA
*
23159122 TGATGCCATAATATCTTTCAACTATGGTCTTACACATTTCCAAGATAATGCCATAGTATCTTTCA
1 -GATGCCATAGTATCTTTCAACTATGGTCTTACACATTTCCAAGATAATGCCATAGTATCTTTCA
*
23159187 ACTATGGTCTTACACATGTCAGTTA
65 ACTATGGTCTTACACATGTCAGATA
* * ** *
23159212 AATGCCATAGTATCTTTCAACTATGGTCTTACAGATTTCCGGGATAATGCCATAGTATATTTCAA
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACATTTCCAAGATAATGCCATAGTATCTTTCAA
*
23159277 CTATGGTTTTAC
66 CTATGGTCTTAC
23159289 TGATGCCGAT
Statistics
Matches: 144, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
89 70 0.49
90 71 0.49
91 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (89 bp):
GATGCCATAGTATCTTTCAACTATGGTCTTACACATTTCCAAGATAATGCCATAGTATCTTTCAA
CTATGGTCTTACACATGTCAGATA
Found at i:23159231 original size:44 final size:44
Alignment explanation
Indices: 23159034--23159288 Score: 241
Period size: 45 Copynumber: 5.7 Consensus size: 44
23159024 TATTCTGGGG
* * * *
23159034 ATGCCATGGTATCTTTCAACCAAGGTCTTACACAATTCCA-A-AA
1 ATGCCATAGTATCTTTCAACTATGGTCTTACAC-ATTTCAGATAA
* * * * * *
23159077 CGATGCAATAATACCTTTCAACTATGGTCTT-CATCATTCCTGATATG
1 --ATGCCATAGTATCTTTCAACTATGGTCTTACA-CATTTCAGATA-A
*
23159124 ATGCCATAATATCTTTCAACTATGGTCTTACACATTTCCAAGAT-A
1 ATGCCATAGTATCTTTCAACTATGGTCTTACACATTT-C-AGATAA
* *
23159169 ATGCCATAGTATCTTTCAACTATGGTCTTACACATGTCAGTTAA
1 ATGCCATAGTATCTTTCAACTATGGTCTTACACATTTCAGATAA
* *
23159213 ATGCCATAGTATCTTTCAACTATGGTCTTACAGATTTCCGGGAT-A
1 ATGCCATAGTATCTTTCAACTATGGTCTTACACATTT-C-AGATAA
* *
23159258 ATGCCATAGTATATTTCAACTATGGTTTTAC
1 ATGCCATAGTATCTTTCAACTATGGTCTTAC
23159289 TGATGCCGAT
Statistics
Matches: 178, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
43 3 0.02
44 44 0.25
45 122 0.69
46 6 0.03
47 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (44 bp):
ATGCCATAGTATCTTTCAACTATGGTCTTACACATTTCAGATAA
Done.