Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 103 of 228
Found at i:29867388 original size:39 final size:39
Alignment explanation
Indices: 29867329--29867421 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
29867319 TTTTATTACT
* *
29867329 AGTGTTTTATCCACAACGAGTGGTACATCCACAATGATG
1 AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
29867368 AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
1 AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
29867407 AGTGGTTTATCCACA
1 AGTGGTTTATCCACA
29867422 GCGTGGTGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (39 bp):
AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
Found at i:29869499 original size:41 final size:40
Alignment explanation
Indices: 29869440--29869569 Score: 206
Period size: 41 Copynumber: 3.1 Consensus size: 40
29869430 TATCTTATGC
29869440 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC-GT
* *
29869481 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGAT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG-T
29869522 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC-GT
29869563 GAATCTG
1 G-ATCTG
29869570 TTAAATTAAG
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
40 1 0.01
41 75 0.91
42 6 0.07
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (40 bp):
GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGT
Found at i:29881242 original size:17 final size:18
Alignment explanation
Indices: 29881220--29881260 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
29881210 TTTTGGAATT
*
29881220 ATATTTTTAA-CTTTATA
1 ATATTTTTAATCTTTAAA
*
29881237 ATATTTTTAATTTTTAAA
1 ATATTTTTAATCTTTAAA
29881255 ATATTT
1 ATATTT
29881261 ATTGGATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTTTAATCTTTAAA
Found at i:29884086 original size:18 final size:19
Alignment explanation
Indices: 29884063--29884112 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
29884053 CCATGTGTGT
29884063 CACACGGGA-GTGTAGAGG
1 CACACGGGATGTGTAGAGG
* *
29884081 CACAC-GGATGTGTGGGGG
1 CACACGGGATGTGTAGAGG
29884099 CACACGGGCATGTG
1 CACACGGG-ATGTG
29884113 CTATTGCACG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 3 0.11
18 17 0.63
19 2 0.07
20 5 0.19
ACGTcount: A:0.22, C:0.20, G:0.44, T:0.14
Consensus pattern (19 bp):
CACACGGGATGTGTAGAGG
Found at i:29884199 original size:49 final size:49
Alignment explanation
Indices: 29884099--29884202 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 49
29884089 TGTGTGGGGG
* * * *
29884099 CACACGGGCATGTGCTATTGCACGGGTAAGTCAGGTAGGTCGTGCAAGA
1 CACACGGGCATGTGCGATTACACGGGTAAATCAGGTAGGTCGTACAAGA
* * * *
29884148 CACACGGGTATGTGCGATTACACGGGTAAATCAGGTAGGTTGTATAGGA
1 CACACGGGCATGTGCGATTACACGGGTAAATCAGGTAGGTCGTACAAGA
29884197 CACACG
1 CACACG
29884203 AGCTGGTCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (49 bp):
CACACGGGCATGTGCGATTACACGGGTAAATCAGGTAGGTCGTACAAGA
Found at i:29885616 original size:27 final size:27
Alignment explanation
Indices: 29885592--29885643 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
29885582 GTGCAGTATA
*
29885592 TGTGGCAAAGCCACCAGTAATAGTAAT
1 TGTGGCAAAGCCACCAGTAACAGTAAT
* *
29885619 TGTGGCAGAGCCACTAGTAACAGTA
1 TGTGGCAAAGCCACCAGTAACAGTA
29885644 CTTCCTCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGTAACAGTAAT
Found at i:29885906 original size:52 final size:52
Alignment explanation
Indices: 29885828--29885971 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 52
29885818 CCTTCGGGGG
* *
29885828 TATTTCGATAATTTACCCATCAAGGGTATTTCAGTAATTTACCCATCAGGGT
1 TATTTCGATAATTTACCCATCGAGGGTATTTCAGTAATTTACCCATCAGGGA
* *
29885880 TATTTTGATAATTTACCCATCGAGGGTATCTT-AGTAATTTACCCTTCAGGGA
1 TATTTCGATAATTTACCCATCGAGGGTAT-TTCAGTAATTTACCCATCAGGGA
* * *
29885932 TATTTCGATAATTTTCCCATCGAAGGTATTTCGGTAATTT
1 TATTTCGATAATTTACCCATCGAGGGTATTTCAGTAATTT
29885972 TTATCCTTGT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 78 0.95
53 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (52 bp):
TATTTCGATAATTTACCCATCGAGGGTATTTCAGTAATTTACCCATCAGGGA
Found at i:29885972 original size:26 final size:25
Alignment explanation
Indices: 29885825--29885971 Score: 163
Period size: 26 Copynumber: 5.7 Consensus size: 25
29885815 GACCCTTCGG
29885825 GGGTATTTCGATAATTTACCCATCAA
1 GGGTATTTCGATAATTTACCCATC-A
29885851 GGGTATTTC-AGTAATTTACCCATCA
1 GGGTATTTCGA-TAATTTACCCATCA
*
29885876 GGGTTATTTTGATAATTTACCCATCGA
1 GGG-TATTTCGATAATTTACCCATC-A
* *
29885903 GGGTATCTTAG-TAATTTACCCTTCA
1 GGGTAT-TTCGATAATTTACCCATCA
*
29885928 GGGATATTTCGATAATTTTCCCATCGA
1 GGG-TATTTCGATAATTTACCCATC-A
* *
29885955 AGGTATTTCGGTAATTT
1 GGGTATTTCGATAATTT
29885972 TTATCCTTGT
Statistics
Matches: 105, Mismatches: 8, Indels: 16
0.81 0.06 0.12
Matches are distributed among these distances:
25 12 0.11
26 82 0.78
27 11 0.10
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (25 bp):
GGGTATTTCGATAATTTACCCATCA
Found at i:29890928 original size:12 final size:12
Alignment explanation
Indices: 29890889--29890932 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
29890879 CTTAACTCCC
*
29890889 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
29890901 ATTTTAAAAATA
1 TTTTTTAAAATA
29890913 TTTTTTAAAAT-
1 TTTTTTAAAATA
29890924 TTTTTTAAA
1 TTTTTTAAA
29890933 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:29892702 original size:18 final size:18
Alignment explanation
Indices: 29892675--29892714 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
29892665 CAGGTGCGTT
* *
29892675 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATACGTA
29892693 TCCTAACCCTTATACGTA
1 TCCTAACCCTTATACGTA
29892711 TCCT
1 TCCT
29892715 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.38
Consensus pattern (18 bp):
TCCTAACCCTTATACGTA
Found at i:29893228 original size:70 final size:71
Alignment explanation
Indices: 29893143--29893274 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
29893133 TATTTTGATA
* * * *
29893143 TTATTTTATGCAATAAAATAGA-AAATTTTTTGAGTTATTTTGATATTCTTTGATGTAATAAAAT
1 TTATTTGATGCAATAAAACAGATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAAT
29893207 AGAAGT
66 AGAAGT
* ***
29893213 TTATTTGATGTAATAAAACAGATTTTTTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
1 TTATTTGATGCAATAAAACAGATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
29893275 CATGAGCTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
70 19 0.36
71 34 0.64
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (71 bp):
TTATTTGATGCAATAAAACAGATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAAT
AGAAGT
Found at i:29894487 original size:125 final size:125
Alignment explanation
Indices: 29894243--29894469 Score: 384
Period size: 125 Copynumber: 1.8 Consensus size: 125
29894233 TCCAAACATG
* *
29894243 CTACTGTAGCAAAAGCGCGTCCATGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCATGAAGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTGC
* *
29894308 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTCCTCAAC
66 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAAAAAAAAAATATTTCTTCCTCAAC
*
29894368 CTACTGTAGCAAAAGCGCATCC-TCGAGGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCAT-GAAGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTG
*
29894432 CTAGAAGTGATTTTATACTATTTGATCACAAACGTCAA
65 CTAGAAGCGATTTTATACTATTTGATCACAAACGTCAA
29894470 CTCGAAATTA
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 94 0.99
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCATCCATGAAGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGATCACAAACGTCAAAAAAAAAATATTTCTTCCTCAAC
Found at i:29900098 original size:321 final size:322
Alignment explanation
Indices: 29899487--29900131 Score: 1118
Period size: 321 Copynumber: 2.0 Consensus size: 322
29899477 GAGCCCTGTT
29899487 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATTAGGT
1 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATTAGGT
*
29899552 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATCCGCTAATCAATCTAATCCCAACTAATGCAAAC
66 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATCCGCTAATCAATCTAATCCCAACTAATACAAAC
* * * *
29899617 ATTGCTACTAATTATTTTCTTAAGGAGATGGTTATAGAAGAAGATTTGTGGAATCTGGAACTCTT
131 ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
* * *
29899682 TCAGGTTTGGTTGTCAGAAGAAATTATTGGACGTATTATTAGTATTCCACCTCCACAACCCTTGG
196 TCAGGTTTGATTCTCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
*
29899747 CAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTATTTTTCTGTTAAGAGTGTC
261 CAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
* * *
29899809 TAAGGTATGGCCTTTGCTTTGAG-AAATTTTTTTTGGTCAATTGGAAATGGTAATAAC-TTCAGG
1 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATT-AGG
29899872 TGTTAGAAGGACAGTTGGATTCCAAAGGTTGATACC-CTAATCAATCTAATCCCAACTAATACAA
65 TGTTAGAAGGACAGTTGGATTCCAAAGGTTGAT-CCGCTAATCAATCTAATCCCAACTAATACAA
29899936 ACATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTC
129 ACATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTC
29900001 TTTCAGGTTTGATTACT-AGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCT
194 TTTCAGGTTTGATT-CTCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCT
*
29900065 TGGCAGGATTTGACAAGATTGCTTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
258 TGGCAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
29900130 TA
1 TA
29900132 TCGTATAGTT
Statistics
Matches: 307, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
320 2 0.01
321 281 0.92
322 24 0.08
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (322 bp):
TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATTAGGT
GTTAGAAGGACAGTTGGATTCCAAAGGTTGATCCGCTAATCAATCTAATCCCAACTAATACAAAC
ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
TCAGGTTTGATTCTCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
CAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
Found at i:29901356 original size:6 final size:6
Alignment explanation
Indices: 29901347--29901371 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29901337 TAAATAATAA
29901347 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
29901372 GATGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:29909864 original size:13 final size:13
Alignment explanation
Indices: 29909846--29909871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29909836 AAAAATAAAA
29909846 CAAAAAGTTGTAG
1 CAAAAAGTTGTAG
29909859 CAAAAAGTTGTAG
1 CAAAAAGTTGTAG
29909872 AATAACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
CAAAAAGTTGTAG
Found at i:29911130 original size:17 final size:16
Alignment explanation
Indices: 29911108--29911142 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
29911098 TTTCAACCAG
29911108 TATAATAATAAATAATA
1 TATAATAATAAAT-ATA
*
29911125 TATAATAATTAATATA
1 TATAATAATAAATATA
29911141 TA
1 TA
29911143 ACTATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAATAATAAATATA
Found at i:29911149 original size:14 final size:14
Alignment explanation
Indices: 29911112--29911155 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
29911102 AACCAGTATA
*
29911112 ATAATAAATAATAT
1 ATAATAATTAATAT
29911126 ATAATAATTAATAT
1 ATAATAATTAATAT
29911140 ATAACT-ATTAATAT
1 ATAA-TAATTAATAT
29911154 AT
1 AT
29911156 TATAGATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATTAATAT
Found at i:29911702 original size:23 final size:26
Alignment explanation
Indices: 29911676--29911728 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 26
29911666 TTATTTTGAG
29911676 TTTGGGTAATAA-TGAGTATA-T-TA
1 TTTGGGTAATAACTGAGTATAGTATA
* *
29911699 TTTGGGTTATAACTTAGTATAGTATA
1 TTTGGGTAATAACTGAGTATAGTATA
29911725 TTTG
1 TTTG
29911729 AGTTTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 7 0.28
25 1 0.04
26 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (26 bp):
TTTGGGTAATAACTGAGTATAGTATA
Found at i:29912219 original size:14 final size:15
Alignment explanation
Indices: 29912192--29912221 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
29912182 GAGCCCGCTC
29912192 TAGTTTTAAAATATA
1 TAGTTTTAAAATATA
29912207 TAGTTTT-AAATATA
1 TAGTTTTAAAATATA
29912221 T
1 T
29912222 GAACAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TAGTTTTAAAATATA
Found at i:29921169 original size:18 final size:18
Alignment explanation
Indices: 29921146--29921184 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
29921136 TGTTTCCTTG
*
29921146 AAAACAATTATTTTCAGA
1 AAAACAATCATTTTCAGA
* *
29921164 AAAACAGTCATTTTCATA
1 AAAACAATCATTTTCAGA
29921182 AAA
1 AAA
29921185 TCGTTTTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAACAATCATTTTCAGA
Found at i:29925402 original size:5 final size:6
Alignment explanation
Indices: 29925370--29925400 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
29925360 TTAAGATACC
29925370 AATAAA AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
29925401 TACTCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:29925871 original size:3 final size:3
Alignment explanation
Indices: 29925863--29925888 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29925853 GACCATGATC
29925863 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
29925889 ATGTAGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29930128 original size:26 final size:26
Alignment explanation
Indices: 29930043--29930128 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
29930033 TGTATCATTA
*
29930043 TATTAAATTATTTAAATATTTCATGTATT
1 TATTAAATTATTTAAATA-TT-ATTTA-T
* * *
29930072 ATATTAAAATATTTAAA-AATACCATTA-
1 -TATTAAATTATTTAAATATTA--TTTAT
29930099 TATTAAATTATTTAAATATTATTTAT
1 TATTAAATTATTTAAATATTATTTAT
29930125 TATT
1 TATT
29930129 TTACTTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
25 3 0.07
26 19 0.42
27 4 0.09
28 1 0.02
29 3 0.07
30 15 0.33
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (26 bp):
TATTAAATTATTTAAATATTATTTAT
Found at i:29936644 original size:22 final size:21
Alignment explanation
Indices: 29936609--29936666 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
29936599 AAAGGGTATC
* * *
29936609 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCCAAGAT
29936630 TACAAAATCATATCTTCCAAGAT
1 TAC-AAATCATATC-TCCAAGAT
* *
29936653 TGCATATCATATCT
1 TACAAATCATATCT
29936667 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:29937131 original size:88 final size:87
Alignment explanation
Indices: 29937039--29937766 Score: 866
Period size: 88 Copynumber: 8.3 Consensus size: 87
29937029 AACTTGATCT
* *
29937039 GCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTT-AGCTGTCGGTGCAGGAAGGCAA
1 GCTGCAAC-CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA-CTGTCGGTACAGGAAGGCAA
29937103 GATCTGCTATTTTTAACCTGCTCC
64 GATCTGCTATTTTTAACCTGCTCC
* *
29937127 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
*
29937192 ATCTGCTATTTTTAACCTGCTCT
65 ATCTGCTATTTTTAACCTGCTCC
* * * *
29937215 GCTGCAAACCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 GCTGC-AACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
29937280 ATCTACTAATTTTAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * * * *
29937303 GCTGCAACCTAGGGTGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATTGGTGCAAGAAGGAAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
29937368 ATCTGCTATTTTTTACCTACTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * *
29937391 GCTGCAACCCAGAGAGGCAAGGCTAGTGTCTTC-AGTCTGCTTCACTGTCAGTACAGGAAGGCAA
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGA-TCTGCTTCACTGTCGGTACAGGAAGGCAA
*
29937455 GATCTGCTATCTTTAACCTGCTCC
64 GATCTGCTATTTTTAACCTGCTCC
* ** ** ** *
29937479 GCTGCCACCGAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTTAGTACAGGAAGACAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
29937544 ATCTGATATCTTTAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * * *
29937567 GCTGCCACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTCATTATCGGTACAGGAAGGCAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
29937632 ATCTGCTATCTTCAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * * * * * **
29937655 ACTACAACCCAGGGAGGCAAGGTTGGTATCTTTGATCTGCTTCGCCGTTAGTACAGGAAGGCAAG
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* * *
29937720 ATCTGTTATTTTCAACCTGCTTC
65 ATCTGCTATTTTTAACCTGCTCC
*
29937743 GCTGCAAACCAGGAAGGCAAGGCT
1 GCTGC-AACCAGGGAGGCAAGGCT
29937767 TTGTGATTTC
Statistics
Matches: 559, Mismatches: 71, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
87 7 0.01
88 542 0.97
89 10 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (87 bp):
GCTGCAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGA
TCTGCTATTTTTAACCTGCTCC
Found at i:29937145 original size:44 final size:44
Alignment explanation
Indices: 29937092--29937311 Score: 147
Period size: 44 Copynumber: 5.0 Consensus size: 44
29937082 GCTGTCGGTG
29937092 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
29937136 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* *
29937180 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAAC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * * * * ****
29937224 CAGGGAGGCAAGGT-TGGTGTCTTTGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* *
29937268 CAGGAAGGCAAGATCTACTAATTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
29937312 TAGGGTGGCA
Statistics
Matches: 118, Mismatches: 54, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 35 0.30
44 50 0.42
45 33 0.28
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
Found at i:29937511 original size:264 final size:263
Alignment explanation
Indices: 29937025--29937766 Score: 956
Period size: 264 Copynumber: 2.8 Consensus size: 263
29937015 AGACTTATAG
* * * * *
29937025 CTTTAACTTGATCTGCTGCAA-CTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTT-AGCTGTC
1 CTTTAACCTGCTCCGCTGCAACCT-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA-CTATC
29937088 GGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGG
64 GGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGG
* * *
29937153 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCT
129 TGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCT
* ** * * * * *
29937218 GCAAACCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC
193 GCAAACCAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATC
29937283 T-ACTAAT
258 TGA-T-AT
* *
29937290 -TTTAACCTGCTCCGCTGCAACCTAGGGTGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATTGG
1 CTTTAACCTGCTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATCGG
* * * * * *
29937354 TGCAAGAAGGAAAGATCTGCTATTTTTTACCTACTCCGCTGCAACCCAGAGAGGCAAGGCTAGTG
66 TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
*
29937419 TCTTC-AGTCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTG
131 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTAACCTGCTCCGCTG
* *
29937483 C-CACCGAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTTAGTACAGGAAGACAAGATC
194 CAAACC-AGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATC
29937547 TGATAT
258 TGATAT
* * * * *
29937553 CTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTCATTATCGG
1 CTTTAACCTGCTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATCGG
* * * * * * *
29937618 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGTTGGTA
66 TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
* * * * *
29937683 TCTTTGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTTCGCTGC
131 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTT-AACCTGCTCCGCTGC
*
29937748 AAACCAGGAAGGCAAGGCT
195 AAACCAGGGAGGCAAGGCT
29937767 TTGTGATTTC
Statistics
Matches: 412, Mismatches: 55, Indels: 21
0.84 0.11 0.04
Matches are distributed among these distances:
263 10 0.02
264 394 0.96
265 8 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (263 bp):
CTTTAACCTGCTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATCGG
TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTGCA
AACCAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGA
TAT
Found at i:29937558 original size:45 final size:45
Alignment explanation
Indices: 29937427--29937763 Score: 165
Period size: 44 Copynumber: 7.6 Consensus size: 45
29937417 TGTCTTCAGT
*
29937427 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * * * * * * * *
29937472 CTGCTCCGCTGCCA--CCGAGGGAGGCAAG-GCTAATGTCTTTAAT
1 CTGCTTCACTGTCAGTAC-AGGAAGGCAAGATCTGATATCTTTAAC
* *
29937515 CTGCTTCACTGTTAGTACAGGAAGACAAGATCTGATATCTTTAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * * * * * * ** *
29937560 CTGCTCCGCTGCCA--CCGAGGGAGGCAAG-GCTGGTATCTTCGAT
1 CTGCTTCACTGTCAGTAC-AGGAAGGCAAGATCTGATATCTTTAAC
* * * * * *
29937603 CTGTTTCATTATCGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * *** * * * * *
29937648 CTGCTCCACT-ACAACCCAGGGAGGCAAGGT-TGGTATCTTTGAT
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * * *
29937691 CTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGTTAT-TTTCAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTT-AAC
* *
29937736 CTGCTTCGCTG-CA-AACCAGGAAGGCAAG
1 CTGCTTCACTGTCAGTA-CAGGAAGGCAAG
29937764 GCTTTGTGAT
Statistics
Matches: 204, Mismatches: 76, Indels: 25
0.67 0.25 0.08
Matches are distributed among these distances:
43 56 0.27
44 80 0.39
45 68 0.33
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (45 bp):
CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
Found at i:29944700 original size:19 final size:19
Alignment explanation
Indices: 29944676--29944726 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
29944666 CATATCTTCC
29944676 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
29944695 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
29944714 AAGATTGCATATC
1 AAGATTGCATATC
29944727 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:29949060 original size:70 final size:73
Alignment explanation
Indices: 29948985--29949119 Score: 195
Period size: 73 Copynumber: 1.9 Consensus size: 73
29948975 AATTCTGTTA
* * *
29948985 TCTTTGTTTAGTTTA-TTT-TTT-TTATTTGTTTAATCATTATCTTTCCTCTGATTTGCCATCAA
1 TCTTTGTTTAGTTTATTTTGTTTATTATTTGTTTAATCATCATCCTACCTCTGATTTGCCATCAA
29949047 TTCCCTTG
66 TTCCCTTG
* * *
29949055 TCTTTGTTTTGTTTATTTTGTTTATTATTTGTTTAATCGTCATCCTACCTCTGTTTTGCCATCAA
1 TCTTTGTTTAGTTTATTTTGTTTATTATTTGTTTAATCATCATCCTACCTCTGATTTGCCATCAA
29949120 CTCTGTGGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
70 14 0.25
71 3 0.05
72 3 0.05
73 36 0.64
ACGTcount: A:0.16, C:0.17, G:0.10, T:0.58
Consensus pattern (73 bp):
TCTTTGTTTAGTTTATTTTGTTTATTATTTGTTTAATCATCATCCTACCTCTGATTTGCCATCAA
TTCCCTTG
Found at i:29952981 original size:19 final size:20
Alignment explanation
Indices: 29952954--29953020 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
29952944 AAATATAAAA
*
29952954 TTTGAAATTTTTATAAA-TAT
1 TTTG-AATTTTTAAAAATTAT
29952974 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
**
29952993 TTTGAATTTTTGGAAATTAT
1 TTTGAATTTTTAAAAATTAT
29953013 TTTGAATT
1 TTTGAATT
29953021 ATTCTGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 8 0.19
19 11 0.26
20 23 0.55
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:29960559 original size:17 final size:17
Alignment explanation
Indices: 29960506--29960560 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
29960496 GCCTGAAGTT
*
29960506 AGAAGGAGAGAGGAAGAG
1 AGAA-GAGAGAGAAAGAG
29960524 -GAAG-GAG-GACAAGATG
1 AGAAGAGAGAGA-AAGA-G
29960540 AGAAGAGAGAGAAAGAG
1 AGAAGAGAGAGAAAGAG
29960557 AGAA
1 AGAA
29960561 AAGGGGAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 2 0.06
17 12 0.39
18 7 0.23
19 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.02
Consensus pattern (17 bp):
AGAAGAGAGAGAAAGAG
Found at i:29961478 original size:30 final size:30
Alignment explanation
Indices: 29961409--29961488 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
29961399 AATTACATAC
29961409 ATTTTAATTTAATATGTAA-TATTATACAACA
1 ATTTTAATTT--TATGTAATTATTATACAACA
* *
29961440 ACTTTAATTTTATGTAATTATATATATAA-A
1 ATTTTAATTTTATGTAATTAT-TATACAACA
*
29961470 ATTTTAATTTTATTTAATT
1 ATTTTAATTTTATGTAATT
29961489 TAACAAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 7 0.16
30 21 0.49
31 15 0.35
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTTTAATTTTATGTAATTATTATACAACA
Found at i:29966621 original size:54 final size:54
Alignment explanation
Indices: 29966516--29966664 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 54
29966506 TGTCACATAT
* *
29966516 CCGTGTGACTCAAGTTAGAGAGTTACACGGTCAGACACACGACTTCACACACGC
1 CCGTGTGACTCAAGTTAGAGAGTTACACGCTCAGACACACGACCTCACACACGC
* * * * * *
29966570 CCGTGTGACTTAAGTTAGAGAGTTACATGCTCTGGCACACGGCCT-AGCACACGT
1 CCGTGTGACTCAAGTTAGAGAGTTACACGCTCAGACACACGACCTCA-CACACGC
* ** * *
29966624 CTGTGTGACTCAAGCCAAAGAGTTACACAG-GCAGACACACG
1 CCGTGTGACTCAAGTTAGAGAGTTACAC-GCTCAGACACACG
29966665 CCCATGTGAT
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
53 1 0.01
54 74 0.97
55 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (54 bp):
CCGTGTGACTCAAGTTAGAGAGTTACACGCTCAGACACACGACCTCACACACGC
Found at i:29988650 original size:15 final size:17
Alignment explanation
Indices: 29988625--29988656 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
29988615 TAGCTAGGAC
29988625 CTGTATACTGTA-TAAT
1 CTGTATACTGTACTAAT
29988641 CTGT-TACTGTACTAAT
1 CTGTATACTGTACTAAT
29988657 TATTGTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (17 bp):
CTGTATACTGTACTAAT
Found at i:29988665 original size:18 final size:18
Alignment explanation
Indices: 29988642--29988687 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
29988632 CTGTATAATC
29988642 TGTTACTGTACTAATTAT
1 TGTTACTGTACTAATTAT
*
29988660 TGTTACTGTACTGATTAT
1 TGTTACTGTACTAATTAT
29988678 TGTTACTGTA
1 TGTTACTGTA
29988688 ATGCGGCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (18 bp):
TGTTACTGTACTAATTAT
Found at i:29989184 original size:18 final size:18
Alignment explanation
Indices: 29989149--29989186 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
29989139 ACAATAAGTG
*
29989149 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
29989167 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
29989185 AC
1 AC
29989187 TTTATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:29992229 original size:31 final size:31
Alignment explanation
Indices: 29992194--29992276 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
29992184 GTATATGTTT
* * *
29992194 TATACATTGTCAAATTTTATTTTTATATAGA
1 TATACATTGCCAAATTTGATTTGTATATAGA
29992225 TATACATTGCCAAATTTGATTTGTATATAGA
1 TATACATTGCCAAATTTGATTTGTATATAGA
* *
29992256 TATATATTGCCGAA-TTGATTT
1 TATACATTGCCAAATTTGATTT
29992277 CAGCATTAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 7 0.15
31 40 0.85
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (31 bp):
TATACATTGCCAAATTTGATTTGTATATAGA
Found at i:29996069 original size:45 final size:45
Alignment explanation
Indices: 29996005--29996229 Score: 324
Period size: 45 Copynumber: 5.0 Consensus size: 45
29995995 GCTATACACC
*
29996005 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
* * * *
29996050 TAAAAATAAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
*
29996095 TAAAAGTGAGTAAGACCATAGCTGAAAAAGATGCTATGACATCATGA
1 TAAAAATGAGTAAGACCATAGCTG--AAAGATGCTATGACATCATGA
*
29996142 TAAAAATGAGTAAGACCATAGCTGAAAGATGATATGACATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
* * * * *
29996187 TAGAGATGAGTAAGACTATAGATAAAAGATGCTATGACATCAT
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAT
29996230 ATGAAAGCGC
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 120 0.74
47 42 0.26
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
Found at i:29996160 original size:92 final size:91
Alignment explanation
Indices: 29996005--29996229 Score: 330
Period size: 92 Copynumber: 2.5 Consensus size: 91
29995995 GCTATACACC
* *
29996005 TAAAAATGAGTAAGACCATAGCTG-AAAGATGCTATGGCATCATGATAAAAATAAGTAAGACCAT
1 TAAAAGTGAGTAAGACCATAGCTGAAAAGATGCTATGACATCATGATAAAAATAAGTAAGACCAT
* * *
29996069 AGTTGAAAGATGTTATGGCATCATGA
66 AGCTGAAAGATGATATGACATCATGA
*
29996095 TAAAAGTGAGTAAGACCATAGCTGAAAAAGATGCTATGACATCATGATAAAAATGAGTAAGACCA
1 TAAAAGTGAGTAAGACCATAGCTG-AAAAGATGCTATGACATCATGATAAAAATAAGTAAGACCA
29996160 TAGCTGAAAGATGATATGACATCATGA
65 TAGCTGAAAGATGATATGACATCATGA
* * *
29996187 T-AGAGATGAGTAAGACTATAGAT-AAAAGATGCTATGACATCAT
1 TAAAAG-TGAGTAAGACCATAGCTGAAAAGATGCTATGACATCAT
29996230 ATGAAAGCGC
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
90 43 0.35
91 3 0.02
92 77 0.63
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (91 bp):
TAAAAGTGAGTAAGACCATAGCTGAAAAGATGCTATGACATCATGATAAAAATAAGTAAGACCAT
AGCTGAAAGATGATATGACATCATGA
Found at i:29996193 original size:22 final size:24
Alignment explanation
Indices: 29996074--29996230 Score: 86
Period size: 23 Copynumber: 6.8 Consensus size: 24
29996064 ACCATAGTTG
* *
29996074 AAAGATGTTATGGCATCAT-GATA
1 AAAGATGATATGACATCATAGATA
* *
29996097 AAAG-TGAGTAAGAC--CATAGCTGAA
1 AAAGATGA-TATGACATCATAGAT--A
*
29996121 AAAGATGCTATGACATCAT-GATA
1 AAAGATGATATGACATCATAGATA
* * *
29996144 AAA-ATGAGTAAGAC--CATAGCTG
1 AAAGATGA-TATGACATCATAGATA
29996166 AAAGATGATATGACATCAT-GAT-
1 AAAGATGATATGACATCATAGATA
* *
29996188 AGAGATGAGTAAGAC-T-ATAGATA
1 AAAGATGA-TATGACATCATAGATA
*
29996211 AAAGATGCTATGACATCATA
1 AAAGATGATATGACATCATA
29996231 TGAAAGCGCG
Statistics
Matches: 99, Mismatches: 18, Indels: 33
0.66 0.12 0.22
Matches are distributed among these distances:
21 8 0.08
22 33 0.33
23 35 0.35
24 16 0.16
25 4 0.04
26 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (24 bp):
AAAGATGATATGACATCATAGATA
Found at i:29997142 original size:20 final size:22
Alignment explanation
Indices: 29997117--29997158 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
29997107 AACATAAATT
*
29997117 AAATGA-TAGAAATA-AATTAA
1 AAATGATTAAAAATATAATTAA
29997137 AAATGATTAAAAATATAATTAA
1 AAATGATTAAAAATATAATTAA
29997159 TAACATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATGATTAAAAATATAATTAA
Found at i:29998703 original size:18 final size:18
Alignment explanation
Indices: 29998673--29998717 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
29998663 ATAATAATAA
29998673 TTAATAAAATATTATTAC
1 TTAATAAAATATTATTAC
* *
29998691 TTATTAAACTATTATTAC
1 TTAATAAAATATTATTAC
29998709 TTAATAAAA
1 TTAATAAAA
29998718 AATCATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATAAAATATTATTAC
Found at i:30000286 original size:25 final size:24
Alignment explanation
Indices: 30000227--30000286 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
30000217 AGTGAACTAC
* **
30000227 AAAAGAAAAATCTACTCTAAAAAG
1 AAAAGAAAAACCTAAACTAAAAAG
* *
30000251 AGAAGAGAAAACCTAAACTAAAACTG
1 AAAAGA-AAAACCTAAACTAAAA-AG
30000277 AAAAGAAAAA
1 AAAAGAAAAA
30000287 GAAAAGAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 5 0.18
25 17 0.61
26 6 0.21
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (24 bp):
AAAAGAAAAACCTAAACTAAAAAG
Found at i:30002885 original size:20 final size:20
Alignment explanation
Indices: 30002840--30002886 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
30002830 TGTGCCCTAG
30002840 CTGTGTGGAGGTCTACACGC
1 CTGTGTGGAGGTCTACACGC
* * *
30002860 CCGTGTGGTGGTCTACATGC
1 CTGTGTGGAGGTCTACACGC
*
30002880 TTGTGTG
1 CTGTGTG
30002887 CAAGATGCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.21, G:0.36, T:0.32
Consensus pattern (20 bp):
CTGTGTGGAGGTCTACACGC
Found at i:30006044 original size:19 final size:20
Alignment explanation
Indices: 30006020--30006067 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
30006010 GTCACATTGC
*
30006020 AAATATAAATAAA-AATTAT
1 AAATATAAATAAATAATTAA
30006039 AAATAT--ATAAATTAATTAA
1 AAATATAAATAAA-TAATTAA
30006058 AAATATAAAT
1 AAATATAAAT
30006068 TTTCACATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 5 0.21
19 17 0.71
21 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATAAATAAATAATTAA
Found at i:30006501 original size:25 final size:24
Alignment explanation
Indices: 30006448--30006518 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 24
30006438 TTTAATTGTA
**
30006448 TATATTTTTATAAATATATATTTTG
1 TATATTTTTA-AAATATATAAATTG
30006473 TATATTTTTAAAATAATAATAAATT-
1 TATATTTTTAAAAT-AT-ATAAATTG
30006498 TATATTTTATAAAA-AT-TAAAT
1 TATATTTT-TAAAATATATAAAT
30006519 ATATAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 5 0.12
24 6 0.15
25 20 0.49
26 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TATATTTTTAAAATATATAAATTG
Found at i:30006620 original size:20 final size:18
Alignment explanation
Indices: 30006590--30006643 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
30006580 TGTGAAAAAA
*
30006590 TTTACTTTTTAAATTAAT
1 TTTAATTTTTAAATTAAT
*
30006608 TTATATATTTTTAAAGTTTAT
1 TT-TA-ATTTTTAAA-TTAAT
*
30006629 TTTAATTTTTTAATT
1 TTTAATTTTTAAATT
30006644 TATATTTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.13
19 10 0.33
20 10 0.33
21 6 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTAATTTTTAAATTAAT
Found at i:30006649 original size:20 final size:22
Alignment explanation
Indices: 30006595--30006650 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
30006585 AAAAATTTAC
30006595 TTTTTAAATTA-ATTTATATA-
1 TTTTTAAATTATATTTATATAT
30006615 TTTTTAAAGTT-TATTT-TA-AT
1 TTTTTAAA-TTATATTTATATAT
*
30006635 TTTTTAATTTATATTT
1 TTTTTAAATTATATTT
30006651 GTCATGTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.10
20 22 0.71
21 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTAAATTATATTTATATAT
Found at i:30008633 original size:51 final size:51
Alignment explanation
Indices: 30008557--30008747 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 51
30008547 TGCCTATAAA
* *
30008557 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATC-GATA-GATAATGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA-AGGAT-ATGGT
* * * *
30008608 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGT
* * * * *
30008659 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGGA-CAGGAAAG-TTTGAT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GGAAGGATATGGT
* * *
30008709 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTATCG
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
30008748 AATGATAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
50 40 0.33
51 78 0.64
52 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGT
Found at i:30010111 original size:20 final size:20
Alignment explanation
Indices: 30010088--30010142 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
30010078 AGTTTAATTC
30010088 AGCTCAATTTTAGCTCAATA
1 AGCTCAATTTTAGCTCAATA
* *
30010108 AGCTC-GTTCTTAGCTCAATG
1 AGCTCAATT-TTAGCTCAATA
*
30010128 AGCTCATTTTTAGCT
1 AGCTCAATTTTAGCT
30010143 TACTTTAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTTAGCTCAATA
Found at i:30011679 original size:13 final size:13
Alignment explanation
Indices: 30011644--30011685 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
30011634 GTGAGTTTGT
*
30011644 AAAAAAATATTCAA
1 AAAAAAAT-TTCGA
30011658 AAAAAAATTTCGA
1 AAAAAAATTTCGA
30011671 AAAAAAATTT-GA
1 AAAAAAATTTCGA
30011683 AAA
1 AAA
30011686 TTCAAAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 5 0.19
13 14 0.52
14 8 0.30
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (13 bp):
AAAAAAATTTCGA
Found at i:30012903 original size:12 final size:12
Alignment explanation
Indices: 30012886--30012953 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
30012876 AGTGAAAAGC
30012886 AAAAAGAGATTG
1 AAAAAGAGATTG
*
30012898 AAAAAGAAATTG
1 AAAAAGAGATTG
*
30012910 --AAAGAGA-AG
1 AAAAAGAGATTG
*
30012919 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
30012934 AAAAAGAAATTG
1 AAAAAGAGATTG
30012946 AAAAAGAG
1 AAAAAGAG
30012954 TCTTCAAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
9 1 0.02
10 6 0.14
11 4 0.09
12 20 0.47
13 5 0.12
15 7 0.16
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:30012927 original size:15 final size:15
Alignment explanation
Indices: 30012909--30012942 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30012899 AAAAGAAATT
30012909 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
30012924 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
30012939 GAAA
1 GAAA
30012943 TTGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:30012948 original size:21 final size:20
Alignment explanation
Indices: 30012896--30012948 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 20
30012886 AAAAAGAGAT
30012896 TGAAAAAGAAATTGAAAGA-
1 TGAAAAAGAAATTGAAAGAG
*
30012915 -GAAGAA-AAA--GAAAGAG
1 TGAAAAAGAAATTGAAAGAG
30012931 TGGAAAAAGAAATTGAAA
1 T-GAAAAAGAAATTGAAA
30012949 AAGAGTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
15 6 0.23
17 3 0.12
18 10 0.38
19 3 0.12
21 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (20 bp):
TGAAAAAGAAATTGAAAGAG
Found at i:30014762 original size:20 final size:20
Alignment explanation
Indices: 30014729--30014791 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
30014719 AGCTCAATCA
*
30014729 AGTTCAATTCAGCTCAATTTT
1 AGTTCAA-TGAGCTCAATTTT
*
30014750 AGTTCAATGAGCTC-GTTCTT
1 AGTTCAATGAGCTCAATT-TT
* *
30014770 AGCTCAATGAGCTCATTTTT
1 AGTTCAATGAGCTCAATTTT
30014790 AG
1 AG
30014792 CTTACTTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.06
20 25 0.69
21 9 0.25
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
AGTTCAATGAGCTCAATTTT
Found at i:30014792 original size:20 final size:20
Alignment explanation
Indices: 30014739--30014793 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
30014729 AGTTCAATTC
* *
30014739 AGCTCAATTTTAGTTCAATG
1 AGCTCATTTTTAGCTCAATG
* *
30014759 AGCTCGTTCTTAGCTCAATG
1 AGCTCATTTTTAGCTCAATG
30014779 AGCTCATTTTTAGCT
1 AGCTCATTTTTAGCT
30014794 TACTTTAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (20 bp):
AGCTCATTTTTAGCTCAATG
Found at i:30018044 original size:43 final size:43
Alignment explanation
Indices: 30017993--30018079 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
30017983 ACCTTTAAAC
*
30017993 AATTATAGTCTTCTTGATGAGTCCCCAACCAAAACCACCATAG
1 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACCATAG
*
30018036 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACTATAG
1 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACCATAG
30018079 A
1 A
30018080 CTTTACTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (43 bp):
AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACCATAG
Found at i:30020473 original size:21 final size:21
Alignment explanation
Indices: 30020449--30020501 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
30020439 ATGAATATAT
*
30020449 AATAAAATAATACTTAATAAC
1 AATAAAATAATACTTAATAAA
*
30020470 AATAAAATCAA-ATTTAATAAA
1 AATAAAAT-AATACTTAATAAA
30020491 AAT-AAATAATA
1 AATAAAATAATA
30020502 AATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 5 0.18
21 19 0.68
22 2 0.07
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAAAATAATACTTAATAAA
Found at i:30021935 original size:45 final size:44
Alignment explanation
Indices: 30021840--30021956 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 44
30021830 TTCTAATCCA
* * *
30021840 CTCCACTACAACTTTAGGGAGATAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTTAGTCTG
* * *
30021884 CCCCACTGCAATTTTAGGGGGATAAGACTTGCTTT-TTTGAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTG-TTTATTT-AGTCTG
*
30021929 CTCCACTGCAACTTCAGGGAGATAAGAC
1 CTCCACTGCAACTTTAGGGAGATAAGAC
30021957 CCGATGTGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 28 0.46
45 33 0.54
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTTAGTCTG
Found at i:30022030 original size:45 final size:43
Alignment explanation
Indices: 30021977--30022087 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 43
30021967 CTACTATAAA
30021977 GCAACTTCAGAGAGATAAGA-TTCGC-CACCTTTAGTCTGCCTC-ACT
1 GCAACTTCAG-GAGATAAGACTT-GCTCA-C-TTAGTCTG-CTCAACT
*
30022022 GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCAACT
1 GCAACTTCAGGA-GATAAGACTTGCTCACTTAGTCTGCTCAACT
30022066 GCAACTTCAGGGAGATAAGACT
1 GCAACTTCA-GGAGATAAGACT
30022088 AGATGCGATC
Statistics
Matches: 60, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
43 3 0.05
44 31 0.52
45 23 0.38
46 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (43 bp):
GCAACTTCAGGAGATAAGACTTGCTCACTTAGTCTGCTCAACT
Found at i:30022081 original size:130 final size:130
Alignment explanation
Indices: 30021875--30022126 Score: 353
Period size: 130 Copynumber: 1.9 Consensus size: 130
30021865 GATTTGTTTA
* * * ** *
30021875 TTTAGTCTGCCCCACTGCAATTTTAGGGGGATAAGACTTGCTTTTTTGAGTCTGCTCCACTGCAA
1 TTTAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCAACTGCAA
* *
30021940 CTTCAGGGAGATAAGACCCGATGTGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCAC
66 CTTCAGGGAGATAAGACCAGATGCGATCTACTAT-AAGCAACTTCAGAGAGATAAGATTCGCCAC
30022005 C
130 C
*
30022006 TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTT-AGTCTGCTCAACTGCAA
1 TTTAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCAACTGCAA
* * * ** *
30022070 CTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGGAACTTCAGAGAGATAAGAT
66 CTTCAGGGAGATAAGACCAGATGCGATCTACTATAAGCAACTTCAGAGAGATAAGAT
30022127 CTGTGATTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 20 0.19
130 45 0.42
131 41 0.39
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (130 bp):
TTTAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCAACTGCAA
CTTCAGGGAGATAAGACCAGATGCGATCTACTATAAGCAACTTCAGAGAGATAAGATTCGCCACC
Found at i:30022165 original size:44 final size:44
Alignment explanation
Indices: 30022108--30022215 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
30022098 TGCTCTCTGG
*
30022108 AACTTCAGAGAGATAAGATCT-GTGATTTTAATCTGCTCCACTAC
1 AACTTCAGGGAGATAAGAT-TAGTGATTTTAATCTGCTCCACTAC
* * * *
30022152 AACTTCAGGGAGATAGGATTATTGGTTTTAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTAGTGATTTTAATCTGCTCCACTAC
*
30022196 AGCTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
30022216 CACCATCTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTAGTGATTTTAATCTGCTCCACTAC
Found at i:30022202 original size:128 final size:129
Alignment explanation
Indices: 30021875--30022213 Score: 312
Period size: 128 Copynumber: 2.6 Consensus size: 129
30021865 GATTTGTTTA
* * * * * * * * *
30021875 TTTAGTCTGCCCCACTGCAATTTTAGGGGGATAAGACTTGCTTTTTTGAGTCTGCTCCACTGCAA
1 TTTAATCTGCCTCACTACAACTTCAGGAGGATAAGAATTGC-TTATT-AATCTGCTCCACTGCAA
* *
30021940 CTTCAGGGAGATAAGACCCGATGTGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCAC
64 CTTCAGGGAGATAAGACCAGATGCGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCAC
30022005 C
129 C
* * * * *
30022006 TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCAACTGCAAC
1 TTTAATCTGCCTCACTACAACTTCAGGAGGATAAGAATTGCTTA-TTAATCTGCTCCACTGCAAC
* * * ** * **
30022071 TTCAGGGAGATAAGACTAGATGCGATCTGCTCT-CTGGAACTTCAGAGAGATAAGA-TCTGTGA-
65 TTCAGGGAGATAAGACCAGATGCGATCTACTATAAAGCAACTTCAGAGAGATAAGATTC-GCCAC
*
30022133 T
129 C
* *
30022134 TTTAATCTG-CTCCACTACAACTTCAGG-GAGATAGGATTATTGGTT-TTAATCTGCTCCACTGC
1 TTTAATCTGCCT-CACTACAACTTCAGGAG-GATAAGA--ATTGCTTATTAATCTGCTCCACTGC
*
30022196 AGCTTCAGGGAGATAAGA
62 AACTTCAGGGAGATAAGA
30022214 TTCACCATCT
Statistics
Matches: 177, Mismatches: 25, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
127 3 0.02
128 62 0.35
129 21 0.12
130 52 0.29
131 39 0.22
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (129 bp):
TTTAATCTGCCTCACTACAACTTCAGGAGGATAAGAATTGCTTATTAATCTGCTCCACTGCAACT
TCAGGGAGATAAGACCAGATGCGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCACC
Found at i:30022701 original size:260 final size:260
Alignment explanation
Indices: 30022240--30022758 Score: 813
Period size: 260 Copynumber: 2.0 Consensus size: 260
30022230 TTTTTAATTG
* * * *
30022240 CAATGTTGGGGAAACAAGATTCACCGTCGTAGATTCAATTTGTTCCACTACACCGCCAAGGAAGT
1 CAATGTTGAGGAAACAAGATTCACCGTCATAGATTCAATCTATTCCACTACACCGCCAAGGAAGT
* *
30022305 AAGATTCGCCGTTTCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
66 AAGATTCACCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
** *
30022370 CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCTGTT
131 CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCATC
* * *
30022435 GTGGCTTCAATCTGCTCTGCTACAATGCCAGGGAAGTAAGATTCGCCGTTACGGCTTCAATCTTA
196 GTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTACGGCTTCAATCTTA
* *
30022500 CAATGTTGAGGAAACAAGATTCACCGTCATAGCTTCAATCTATTCCACTACACCGCCAGGGAAGT
1 CAATGTTGAGGAAACAAGATTCACCGTCATAGATTCAATCTATTCCACTACACCGCCAAGGAAGT
* * *
30022565 AAGATTCATCGTTGCGGCTTCAATTTTTTTCACTTTAATGCCAAAGAGATAGGATTCGCTGCCCA
66 AAGATTCACCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
* ** *
30022630 CAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCGCCATC
131 CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCATC
* * **
30022695 GTGGCTTCAATCTGCTCCGCTATAACGCTAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTT
196 GTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTACGGCTTCAATCTT
30022759 TTCCATTGCT
Statistics
Matches: 234, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
260 234 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (260 bp):
CAATGTTGAGGAAACAAGATTCACCGTCATAGATTCAATCTATTCCACTACACCGCCAAGGAAGT
AAGATTCACCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCATC
GTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTACGGCTTCAATCTTA
Found at i:30022855 original size:45 final size:45
Alignment explanation
Indices: 30022806--30022945 Score: 158
Period size: 45 Copynumber: 3.2 Consensus size: 45
30022796 CGATCTGCTT
* *
30022806 CACTGCTAATACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
1 CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
** * * * * * * *
30022851 CACTGCTGCT-CAGGGAGACAAG-GCTGGTATCTTCGATCTACTT
1 CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
*
30022894 CACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
1 CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
30022939 CACTGCT
1 CACTGCT
30022946 GTTTAGGGAG
Statistics
Matches: 72, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
43 22 0.31
44 21 0.29
45 29 0.40
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (45 bp):
CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
Found at i:30022896 original size:88 final size:88
Alignment explanation
Indices: 30022792--30022961 Score: 286
Period size: 88 Copynumber: 1.9 Consensus size: 88
30022782 AAGACTGATG
* * * *
30022792 TCTTCGATCTGCTTCACTGCTAATACAGGAAGGCAAGATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
30022857 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGTA
30022880 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
* *
30022945 TGTTTAGGGAGACAAGG
66 TGCTCAGGGAGACAAGG
30022962 TTGGAGTTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGGCTGGTA
Found at i:30022958 original size:44 final size:44
Alignment explanation
Indices: 30022825--30022960 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 44
30022815 TACAGGAAGG
* *
30022825 CAAGATCTGTTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
* * * * * * ** * *
30022869 CAAG-GCTGGTATCTTCGATCTACTTCACTGCCAATACAGGAAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTG-CTGTTCAGGGAGA
*
30022913 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTTAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
30022957 CAAG
1 CAAG
30022961 GTTGGAGTTT
Statistics
Matches: 68, Mismatches: 22, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
43 20 0.29
44 28 0.41
45 20 0.29
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
Found at i:30024219 original size:18 final size:17
Alignment explanation
Indices: 30024198--30024262 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 17
30024188 TGGGCCTCTC
*
30024198 CTTTTCCTCTTCTTATTT
1 CTTTTCCTTTTCTT-TTT
*
30024216 CTTTCTCTTTTTCTTTTT
1 CTTT-TCCTTTTCTTTTT
*
30024234 CTTTTTTCTTTTCTTTTT
1 C-TTTTCCTTTTCTTTTT
30024252 CTTTTCCTTTT
1 CTTTTCCTTTT
30024263 TTCCATCATC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 9 0.22
18 20 0.50
19 11 0.28
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
CTTTTCCTTTTCTTTTT
Found at i:30024228 original size:25 final size:25
Alignment explanation
Indices: 30024194--30024252 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
30024184 TGCCTGGGCC
*
30024194 TCTCCTTTTCCTCTTCTTATTTCTT
1 TCTCTTTTTCCTCTTCTTATTTCTT
* * *
30024219 TCTCTTTTTCTTTTTCTTTTTTCTT
1 TCTCTTTTTCCTCTTCTTATTTCTT
30024244 T-TCTTTTTC
1 TCTCTTTTTC
30024253 TTTTCCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (25 bp):
TCTCTTTTTCCTCTTCTTATTTCTT
Found at i:30024230 original size:12 final size:11
Alignment explanation
Indices: 30024207--30024263 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 11
30024197 CCTTTTCCTC
30024207 TTCTTATTTCTT
1 TTCTT-TTTCTT
30024219 TCTCTTTTTCTTT
1 T-TCTTTTTC-TT
30024232 TTCTTTTTTCTT
1 TTC-TTTTTCTT
30024244 TTCTTTTTCTT
1 TTCTTTTTCTT
30024255 TTCCTTTTT
1 TT-CTTTTT
30024264 TCCATCATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.24
12 18 0.44
13 13 0.32
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:30024248 original size:24 final size:25
Alignment explanation
Indices: 30024207--30024265 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 25
30024197 CCTTTTCCTC
*
30024207 TTCTTATTTCTTTCTCTTTTTCTTT
1 TTCTTTTTTCTTTCTCTTTTTCTTT
30024232 TTCTTTTTTCTTT-TCTTTTTCTTT
1 TTCTTTTTTCTTTCTCTTTTTCTTT
*
30024256 TCCTTTTTTC
1 TTCTTTTTTC
30024266 CATCATCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTCTTTTTTCTTTCTCTTTTTCTTT
Found at i:30024291 original size:14 final size:14
Alignment explanation
Indices: 30024258--30024291 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30024248 TTTTCTTTTC
30024258 CTTTTTTCCATCAT
1 CTTTTTTCCATCAT
*
30024272 CATTTTTCCATCAT
1 CTTTTTTCCATCAT
30024286 -TTTTTT
1 CTTTTTT
30024292 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (14 bp):
CTTTTTTCCATCAT
Found at i:30025139 original size:25 final size:25
Alignment explanation
Indices: 30025086--30025151 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
30025076 AAGAAGATCC
* *
30025086 AAAAGAATGAAAGAATAATTGTTCG
1 AAAAGAATGAAAGAATAATTGCTCA
30025111 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-GCTCA
30025136 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
30025152 TGTATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 23 0.64
26 5 0.14
27 5 0.14
ACGTcount: A:0.55, C:0.06, G:0.20, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTGCTCA
Found at i:30031313 original size:21 final size:21
Alignment explanation
Indices: 30031283--30031336 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
30031273 ATGAATATAT
30031283 AATAACAATAATACTTAATAAA
1 AATAA-AATAATACTTAATAAA
* *
30031305 AATAAAATAAAATTTAATAAA
1 AATAAAATAATACTTAATAAA
30031326 AAT-AAATAATA
1 AATAAAATAATA
30031337 AAATAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.24
21 17 0.59
22 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAAAATAATACTTAATAAA
Found at i:30031343 original size:21 final size:20
Alignment explanation
Indices: 30031283--30031346 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
30031273 ATGAATATAT
*
30031283 AATAACAATAATACTTAATAAA
1 AATAA-AATAA-AATTAATAAA
30031305 AATAAAATAAAATTTAATAAA
1 AATAAAATAAAA-TTAATAAA
30031326 AATAAATAATAAAA-TAATAAA
1 AAT-AA-AATAAAATTAATAAA
30031347 TAAAAAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 23 0.61
22 7 0.18
23 7 0.18
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAAAATAAAATTAATAAA
Found at i:30031344 original size:15 final size:15
Alignment explanation
Indices: 30031298--30031353 Score: 59
Period size: 14 Copynumber: 4.0 Consensus size: 15
30031288 CAATAATACT
30031298 TAATAAA-AATAAAA
1 TAATAAATAATAAAA
*
30031312 TAA-AATTTAAT-AAA
1 TAATAA-ATAATAAAA
30031326 -AATAAATAATAAAA
1 TAATAAATAATAAAA
30031340 TAATAAATAA-AAAA
1 TAATAAATAATAAAA
30031354 AGACTAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 8 0.23
14 15 0.43
15 12 0.34
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:30031354 original size:28 final size:27
Alignment explanation
Indices: 30031299--30031354 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
30031289 AATAATACTT
* *
30031299 AATAAAAATAAAATAAAATTTAATAAA
1 AATAAAAATAAAATAAAATATAAAAAA
30031326 AATAAATAATAAAATAATAA-ATAAAAAA
1 AATAAA-AATAAAATAA-AATATAAAAAA
30031354 A
1 A
30031355 GACTAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 17 0.68
29 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (27 bp):
AATAAAAATAAAATAAAATATAAAAAA
Found at i:30033374 original size:23 final size:22
Alignment explanation
Indices: 30033331--30033374 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
30033321 CCATTATTCA
* * *
30033331 TTTTCTCCTCTTTTTTTCTATT
1 TTTTCTCATCTTTTGTCCTATT
30033353 TTTTACTCATCTTTTGTCCTAT
1 TTTT-CTCATCTTTTGTCCTAT
30033375 CTCTTTGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTCTCATCTTTTGTCCTATT
Found at i:30033969 original size:30 final size:30
Alignment explanation
Indices: 30033935--30034008 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
30033925 GGTCCTAACT
30033935 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
1 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
30033965 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
1 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
*
30033995 ATTGTTTGATTGTT
1 ATTGTTTGTTTGTT
30034009 TGCTAGGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.14, C:0.03, G:0.26, T:0.58
Consensus pattern (30 bp):
ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
Found at i:30034486 original size:22 final size:22
Alignment explanation
Indices: 30034456--30034526 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
30034446 TCGATTTATT
30034456 TGCAATTTACTGGCAGCTTGTC
1 TGCAATTTACTGGCAGCTTGTC
* * * *
30034478 TACAATTTAATGG-TGACTTATC
1 TGCAATTTACTGGCAG-CTTGTC
30034500 -GCAATTTACTGGCAGCTTGTC
1 TGCAATTTACTGGCAGCTTGTC
30034521 TGCAAT
1 TGCAAT
30034527 CCATTGGTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 16 0.42
22 22 0.58
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (22 bp):
TGCAATTTACTGGCAGCTTGTC
Found at i:30036568 original size:13 final size:14
Alignment explanation
Indices: 30036540--30036573 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
30036530 TGAGTTGTGC
30036540 GTTTGAGGTCTTGG
1 GTTTGAGGTCTTGG
*
30036554 GTTTG-GGTTTTGG
1 GTTTGAGGTCTTGG
30036567 GTTTGAG
1 GTTTGAG
30036574 TCCTTGCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.06, C:0.03, G:0.44, T:0.47
Consensus pattern (14 bp):
GTTTGAGGTCTTGG
Found at i:30037639 original size:17 final size:17
Alignment explanation
Indices: 30037612--30037656 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
30037602 CTGGGCTATT
30037612 TGGGCCGTGTGGGCCACA
1 TGGG-CGTGTGGGCCACA
30037630 TGGGCGTGTGGGCCACA
1 TGGGCGTGTGGGCCACA
* *
30037647 CGAGCGTGTG
1 TGGGCGTGTG
30037657 TGAGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
TGGGCGTGTGGGCCACA
Found at i:30038185 original size:16 final size:15
Alignment explanation
Indices: 30038164--30038204 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
30038154 TGAATCTGAA
30038164 CTGTACTGTAAAGATT
1 CTGTACTGTAAA-ATT
*
30038180 CTGTACTGTTAAATT
1 CTGTACTGTAAAATT
30038195 -TGT-CTGTAAA
1 CTGTACTGTAAA
30038205 TAATTGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 3 0.13
15 3 0.13
16 11 0.48
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (15 bp):
CTGTACTGTAAAATT
Found at i:30038987 original size:12 final size:11
Alignment explanation
Indices: 30038965--30038992 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30038955 AAAGAACAGG
30038965 AAAAGAAAAAA
1 AAAAGAAAAAA
30038976 AAAAGAAAAAA
1 AAAAGAAAAAA
30038987 AAAAGA
1 AAAAGA
30038993 TGAAGGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:30043103 original size:53 final size:53
Alignment explanation
Indices: 30043023--30043171 Score: 228
Period size: 53 Copynumber: 2.8 Consensus size: 53
30043013 GTATTTTTCA
* * *
30043023 ATTTGTAAG-ACGCAATGTTATTGGTCTTGAACAAAATCGTTTAATTATGTTTT
1 ATTTGTAAGAAAG-AATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
30043076 ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
1 ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
* * *
30043129 ATTTGTAAGACACAATTTTGTTGGTCTTGAACAAAATCGTTTA
1 ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTA
30043172 CTTTTTTTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 87 0.98
54 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (53 bp):
ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
Found at i:30043558 original size:16 final size:16
Alignment explanation
Indices: 30043537--30043572 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30043527 GGGGCATTTT
*
30043537 TAAAAGAAATAAAAAA
1 TAAAAGAAACAAAAAA
*
30043553 TAAAAGAACCAAAAAA
1 TAAAAGAAACAAAAAA
30043569 TAAA
1 TAAA
30043573 TATGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (16 bp):
TAAAAGAAACAAAAAA
Found at i:30060999 original size:43 final size:43
Alignment explanation
Indices: 30060949--30061129 Score: 147
Period size: 43 Copynumber: 4.2 Consensus size: 43
30060939 TAATAAAAAT
*
30060949 GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTCCCACAAAC
1 GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTACCACAAAC
* * * * *
30060992 GCCGCTAAAGGCCAGGACCTTTAGCGGCGCTTTTACCACAAAT
1 GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTACCACAAAC
* * * *
30061035 GCTGCT-AAAGATCATGACCTTTTA-CGGCGCTTCTACCACAAAC
1 GCCGCTAAAAG-TCAAGACC-TTTAGCGGCACTTTTACCACAAAC
* * * ** *
30061078 GCCACTATGAAG--AATGACCTTTAGCGACA-TTTTTTCACAAAT
1 GCCGCTA-AAAGTCAA-GACCTTTAGCGGCACTTTTACCACAAAC
30061120 GCCGCTAAAA
1 GCCGCTAAAA
30061130 ACATGACTTT
Statistics
Matches: 108, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.02
42 23 0.21
43 76 0.70
44 4 0.04
45 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTACCACAAAC
Found at i:30061074 original size:86 final size:85
Alignment explanation
Indices: 30060903--30061080 Score: 198
Period size: 86 Copynumber: 2.1 Consensus size: 85
30060893 TTTTAGAAAT
* * * * *
30060903 AAACACCGCTAAAGGTCATGACTTTTAGCAGCGCTTTAATAAAAATGCCGCTAAAAGTCAAGACC
1 AAACGCCGCTAAAGGCCAGGACCTTTAGCAGCGCTTTAACAAAAATGCCGCTAAAAGTCAAGACC
* *
30060968 TTTAGCGGCACTTTTCCCAC
66 TTTAGCGGCACTTCTACCAC
* * * * *
30060988 AAACGCCGCTAAAGGCCAGGACCTTTAGCGGCGCTTTTACCACAAATGCTGCT-AAAGATCATGA
1 AAACGCCGCTAAAGGCCAGGACCTTTAGCAGCGC-TTTAACAAAAATGCCGCTAAAAG-TCAAGA
*
30061052 CCTTTTA-CGGCGCTTCTACCAC
64 CC-TTTAGCGGCACTTCTACCAC
30061074 AAACGCC
1 AAACGCC
30061081 ACTATGAAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
85 33 0.43
86 40 0.52
87 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTAAAGGCCAGGACCTTTAGCAGCGCTTTAACAAAAATGCCGCTAAAAGTCAAGACC
TTTAGCGGCACTTCTACCAC
Found at i:30064204 original size:6 final size:6
Alignment explanation
Indices: 30064193--30064230 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
30064183 ACCCCCCTAA
*
30064193 AAAAAT AAAAAT AAAACT AAAAAT -AAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
30064231 TCAATCCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:30064213 original size:12 final size:11
Alignment explanation
Indices: 30064194--30064231 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 11
30064184 CCCCCCTAAA
30064194 AAAATAAAAAT
1 AAAATAAAAAT
30064205 AAAACTAAAAAT
1 AAAA-TAAAAAT
30064217 AAAAT-AAAAT
1 AAAATAAAAAT
30064227 AAAAT
1 AAAAT
30064232 CAATCCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 11 0.42
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:30064520 original size:22 final size:22
Alignment explanation
Indices: 30064492--30064540 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
30064482 AAAACAAAAA
30064492 GAAAACAAAAAAGAAAAATGAG
1 GAAAACAAAAAAGAAAAATGAG
30064514 GAAAACAAAAAAGAAAAATGAG
1 GAAAACAAAAAAGAAAAATGAG
30064536 GAAAA
1 GAAAA
30064541 TAACATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.04
Consensus pattern (22 bp):
GAAAACAAAAAAGAAAAATGAG
Found at i:30065468 original size:7 final size:7
Alignment explanation
Indices: 30065458--30065531 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
30065448 ACCCCTATAT
30065458 CCTAAAC
1 CCTAAAC
*
30065465 CCTAAAT
1 CCTAAAC
* *
30065472 CATAAAA
1 CCTAAAC
*
30065479 CATAAAC
1 CCTAAAC
30065486 CCTAAACC
1 CCTAAA-C
30065494 CCT-AAC
1 CCTAAAC
*
30065500 CCTTAAC
1 CCTAAAC
*
30065507 CCTTAAC
1 CCTAAAC
*
30065514 CTCTAACC
1 C-CTAAAC
*
30065522 CCTAACC
1 CCTAAAC
30065529 CCT
1 CCT
30065532 CTTTTACAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
6 4 0.07
7 44 0.77
8 9 0.16
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:30065500 original size:14 final size:13
Alignment explanation
Indices: 30065483--30065529 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
30065473 ATAAAACATA
30065483 AACCCTAAACCCCT
1 AACCCT-AACCCCT
*
30065497 AACCCTTAACCCTT
1 AACCC-TAACCCCT
30065511 AACCTCTAACCCCT
1 AACC-CTAACCCCT
30065525 AACCC
1 AACCC
30065530 CTCTTTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 1 0.03
14 26 0.90
15 2 0.07
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (13 bp):
AACCCTAACCCCT
Found at i:30065507 original size:21 final size:21
Alignment explanation
Indices: 30065483--30065529 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
30065473 ATAAAACATA
*
30065483 AACCCTAAACCCCTAACCCTT
1 AACCCTAAACCCCTAACCCCT
* *
30065504 AACCCTTAACCTCTAACCCCT
1 AACCCTAAACCCCTAACCCCT
30065525 AACCC
1 AACCC
30065530 CTCTTTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Found at i:30065833 original size:14 final size:15
Alignment explanation
Indices: 30065814--30065846 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
30065804 CTTAAACCAG
30065814 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
30065828 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
30065843 AATC
1 AATC
30065847 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:30066344 original size:41 final size:40
Alignment explanation
Indices: 30066251--30066363 Score: 172
Period size: 41 Copynumber: 2.8 Consensus size: 40
30066241 AAATGTTTTT
*
30066251 GCGGCGCTTTTTCAAAAACGCCGCTAAATCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTA
* *
30066291 GCGGCGCTTTTTCAAAAAATGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGC-CCGAGCATTA
*
30066333 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
30066364 ACGAAAGGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 14 0.21
41 31 0.47
42 21 0.32
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTA
Found at i:30066493 original size:39 final size:38
Alignment explanation
Indices: 30066405--30066495 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 38
30066395 TAGGTTTTTT
*
30066405 GCGGCGCTTTTTAAGAAAGCCGCTAATGCTCATTTTTA
1 GCGGCGCTTTTTAAGAAAGCCGCTAATGCTCATCTTTA
* * *
30066443 ACGGCGTTTTTTGA-AAAGCGCTGCTAATGCTCGATCTTTA
1 GCGGCGCTTTTTAAGAAAGC-C-GCTAATGCTC-ATCTTTA
*
30066483 GCGGCGTTTTTTA
1 GCGGCGCTTTTTA
30066496 TCCAAACGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
37 5 0.11
38 12 0.27
39 10 0.23
40 17 0.39
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (38 bp):
GCGGCGCTTTTTAAGAAAGCCGCTAATGCTCATCTTTA
Found at i:30066983 original size:21 final size:20
Alignment explanation
Indices: 30066910--30066983 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 20
30066900 AAAAAATTAA
* *
30066910 AATTTTTATAAATT-TTTGG
1 AATTTTTAAAAATTATTTTG
*
30066929 AATTTTCAAAAA-TATTTTG
1 AATTTTTAAAAATTATTTTG
*
30066948 AATTTTAAAAAAATTATTTTG
1 AATTTT-TAAAAATTATTTTG
30066969 AATTTTTAAATAATT
1 AATTTTTAAA-AATT
30066984 TTTGTCGAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
19 20 0.43
20 8 0.17
21 17 0.37
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:30071222 original size:18 final size:18
Alignment explanation
Indices: 30071176--30071226 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
30071166 AGCTCTCAGG
30071176 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
30071194 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
30071212 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
30071227 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:30074008 original size:33 final size:32
Alignment explanation
Indices: 30073941--30074027 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
30073931 AACTTTTCCG
* *
30073941 GAAAATATTTTCAAGAAATCTATCAAAAAGCA
1 GAAAATATTTTCAAGAAATCAATCAAAAACCA
* *
30073973 GAAAATATTTTACACAG-ATTCAATCAAACACCA
1 GAAAATATTTT-CA-AGAAATCAATCAAAAACCA
*
30074006 GAAAATATTTTCCAGTAAATCA
1 GAAAATATTTTCAAG-AAATCA
30074028 TTTTATAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 2 0.04
32 12 0.27
33 29 0.64
34 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAAGAAATCAATCAAAAACCA
Found at i:30074057 original size:20 final size:20
Alignment explanation
Indices: 30074019--30074058 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30074009 AATATTTTCC
* *
30074019 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
30074039 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
30074059 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30074073 original size:34 final size:35
Alignment explanation
Indices: 30074007--30074073 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30073997 CAAACACCAG
* *
30074007 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
30074042 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
30074074 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30074080 original size:14 final size:14
Alignment explanation
Indices: 30074042--30074081 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30074032 ATAGAAAAGT
*
30074042 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
30074056 AAATCATTTTACGG
1 AAAACATTTTACAG
30074070 AAAACATTTTAC
1 AAAACATTTTAC
30074082 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:30075448 original size:15 final size:15
Alignment explanation
Indices: 30075428--30075458 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30075418 CCGAGTTTGT
30075428 AACACCTGAAAACCA
1 AACACCTGAAAACCA
*
30075443 AACACCTGAAATCCA
1 AACACCTGAAAACCA
30075458 A
1 A
30075459 CCTAAACATT
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:0.52, C:0.32, G:0.06, T:0.10
Consensus pattern (15 bp):
AACACCTGAAAACCA
Found at i:30082083 original size:51 final size:51
Alignment explanation
Indices: 30082028--30082471 Score: 391
Period size: 51 Copynumber: 8.7 Consensus size: 51
30082018 GTGAAAGTGT
* * *
30082028 TGGTCACGTGTGTAGTACTATGTGAAGGCTATTACATGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * * * ** * * * * *
30082079 TGGTCACATATGCAGTACTAAGTGAAGGCTACAATATGTATCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* * *
30082130 TGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * ** * * * *
30082181 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* * ** *
30082232 TGGTTACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * * *
30082283 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA--TAA
* * *
30082334 TAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-A
* *
30082384 TGATCACGTGTGTAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
*
30082433 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
30082472 TATCGAATGA
Statistics
Matches: 313, Mismatches: 70, Indels: 21
0.77 0.17 0.05
Matches are distributed among these distances:
50 87 0.28
51 223 0.71
52 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
Found at i:30082186 original size:102 final size:102
Alignment explanation
Indices: 30082027--30082477 Score: 586
Period size: 102 Copynumber: 4.4 Consensus size: 102
30082017 AGTGAAAGTG
* * * *
30082027 TTGGTCACGTGTGTAGTACTATGTGAAGGCTATTACATGAATCGATAAATAATGGTCACATATGC
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
*
30082092 AGTACTAAGTGAAGGCTACAATATGTATCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
* *
30082129 TTGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
30082194 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
* * * *
30082231 TTGGTTACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* * *
30082296 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
* * * * * *
30082333 TTAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTG
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTG
* ** ** * **
30082396 TAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
65 TAGTACTAAGTGAAGGCTACAATATGTACCG-AGAAGCT
* *
30082433 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
30082478 ATGATAATAG
Statistics
Matches: 311, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
100 39 0.13
101 43 0.14
102 229 0.74
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
Found at i:30085420 original size:26 final size:27
Alignment explanation
Indices: 30085391--30085445 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
30085381 ACAAATTTCA
30085391 ACTCTT-AGGGGTATAACAGTTATTTT
1 ACTCTTCAGGGGTATAACAGTTATTTT
* ** *
30085417 ACTCTTCGGGGGTATTTCGGTTATTTT
1 ACTCTTCAGGGGTATAACAGTTATTTT
30085444 AC
1 AC
30085446 CCATCTGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
ACTCTTCAGGGGTATAACAGTTATTTT
Found at i:30085455 original size:27 final size:26
Alignment explanation
Indices: 30085412--30085712 Score: 271
Period size: 27 Copynumber: 11.2 Consensus size: 26
30085402 TATAACAGTT
* *
30085412 ATTTTACTCTTCGGGGGTATTTCGGTT
1 ATTTTACCCTTC-GGGGTATTTCGGTC
* *
30085439 ATTTTACCCATCTGGGGTATTTCGATC
1 ATTTTACCCTTC-GGGGTATTTCGGTC
* *
30085466 ATTTTACCCATTAGAGGTATTTCGGTC
1 ATTTTACCC-TTCGGGGTATTTCGGTC
* *
30085493 ATTTTACCCATTTGGGGTATTTCGATC
1 ATTTTACCC-TTCGGGGTATTTCGGTC
* * *
30085520 ATTTTACCTTTCGGAGGTATTTTGATC
1 ATTTTACCCTTCGG-GGTATTTCGGTC
30085547 ATTTTACCCTTCGAGGGTATTTTC-GTC
1 ATTTTACCCTTCG-GGGTA-TTTCGGTC
* * * *
30085574 ATTTTACCATTTGAAGGTATTTCAGTC
1 ATTTTACCCTTCG-GGGTATTTCGGTC
**
30085601 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCG-GGGTATTTCGGTC
* * * *
30085628 ATTCTACTCTTCGAGGGTATTTCGATT
1 ATTTTACCCTTCG-GGGTATTTCGGTC
* *
30085655 ATTTTACCCTTCGAAGGTATTTCGGTT
1 ATTTTACCCTTCG-GGGTATTTCGGTC
*
30085682 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTC-GGGGTATTTCGGTC
30085709 ATTT
1 ATTT
30085713 CCCCATGAAT
Statistics
Matches: 232, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 8 0.03
27 218 0.94
28 6 0.03
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTCGGGGTATTTCGGTC
Found at i:30085539 original size:81 final size:82
Alignment explanation
Indices: 30085427--30085712 Score: 327
Period size: 81 Copynumber: 3.5 Consensus size: 82
30085417 ACTCTTCGGG
* * * *
30085427 GGTATTTCGGTTATTTTACCCATCTGG-GGTATTTCGATCATTTTACCCATTAGA-GGTATTTCG
1 GGTATTTCGATCATTTTACCCTTC-GGAGGTATTTCGATCATTTTACCC-TTCGAGGGTATTTCG
*
30085490 GTCATTTTACCCATTTG-G
64 GTCATTTTACCCATTTGAA
* *
30085508 GGTATTTCGATCATTTTACCTTTCGGAGGTATTTTGATCATTTTACCCTTCGAGGGTATTTTC-G
1 GGTATTTCGATCATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGAGGGTA-TTTCGG
30085572 TCATTTTA-CCATTTGAA
65 TCATTTTACCCATTTGAA
* * *
30085589 GGTATTTC-AGTCATTTTACCCTTC-GAGGGTATTTCAATCATTCTACTCTTCGAGGGTATTTCG
1 GGTATTTCGA-TCATTTTACCCTTCGGA-GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
30085652 ATTATTTTACCC-TTCGAA
64 GTCATTTTACCCATTTGAA
* * *
30085670 GGTATTTCGGTTATTTTACCCTTCGGGGGTATTTCGATCATTT
1 GGTATTTCGATCATTTTACCCTTCGGAGGTATTTCGATCATTT
30085713 CCCCATGAAT
Statistics
Matches: 175, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
80 20 0.11
81 148 0.85
82 7 0.04
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (82 bp):
GGTATTTCGATCATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGT
CATTTTACCCATTTGAA
Found at i:30108885 original size:24 final size:24
Alignment explanation
Indices: 30108853--30108899 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
30108843 GTATCTAATT
*
30108853 ATGAAAATACATTTGAATTTGTAC
1 ATGAAAATACATTTGAATCTGTAC
* **
30108877 ATGATAATATGTTTGAATCTGTA
1 ATGAAAATACATTTGAATCTGTA
30108900 TCTATAAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (24 bp):
ATGAAAATACATTTGAATCTGTAC
Found at i:30129371 original size:32 final size:30
Alignment explanation
Indices: 30129329--30129431 Score: 134
Period size: 32 Copynumber: 3.3 Consensus size: 30
30129319 TTATGGGCCT
*
30129329 TTGTGCCAATCATATTACTGTTACTGATGGC
1 TTGTGCCAATCATATTACTG-TACTAATGGC
*
30129360 TGTGTGCCAATCATATCACTGCTACTAATGGC
1 T-TGTGCCAATCATATTACTG-TACTAATGGC
*
30129392 TTTGTGCCAATCATATTACTGTACTTATGGC
1 -TTGTGCCAATCATATTACTGTACTAATGGC
30129423 TTGTAGCCA
1 TTGT-GCCA
30129432 TTCAGTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
30 4 0.06
31 14 0.22
32 45 0.70
33 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (30 bp):
TTGTGCCAATCATATTACTGTACTAATGGC
Found at i:30136413 original size:22 final size:21
Alignment explanation
Indices: 30136388--30136431 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
30136378 TGATAAACTT
30136388 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
30136410 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
30136431 T
1 T
30136432 TAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:30145601 original size:17 final size:17
Alignment explanation
Indices: 30145579--30145631 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
30145569 TCTACATGTT
30145579 TGTGGCTCACAAGGGTG
1 TGTGGCTCACAAGGGTG
**
30145596 TGTGG--C-C-AGCCTG
1 TGTGGCTCACAAGGGTG
*
30145609 TGTGGCTCACACGGGTG
1 TGTGGCTCACAAGGGTG
30145626 TGTGGC
1 TGTGGC
30145632 CAGCTCGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 9 0.33
14 1 0.04
15 2 0.07
16 1 0.04
17 14 0.52
ACGTcount: A:0.11, C:0.23, G:0.42, T:0.25
Consensus pattern (17 bp):
TGTGGCTCACAAGGGTG
Found at i:30145613 original size:30 final size:30
Alignment explanation
Indices: 30145579--30145673 Score: 140
Period size: 30 Copynumber: 3.2 Consensus size: 30
30145569 TCTACATGTT
*
30145579 TGTGGCTCACAAGGGTGTGTGGCCAGCCTG
1 TGTGGCTCACACGGGTGTGTGGCCAGCCTG
30145609 TGTGGCTCACACGGGTGTGTGGCCAG-CTCG
1 TGTGGCTCACACGGGTGTGTGGCCAGCCT-G
*
30145639 TGTGGCTCACACGGATGTGTGGCCAGGCC-G
1 TGTGGCTCACACGGGTGTGTGGCCA-GCCTG
30145669 TGTGG
1 TGTGG
30145674 AAATGCCCTG
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 2 0.03
30 56 0.93
31 1 0.02
32 1 0.02
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.23
Consensus pattern (30 bp):
TGTGGCTCACACGGGTGTGTGGCCAGCCTG
Found at i:30150030 original size:14 final size:14
Alignment explanation
Indices: 30150006--30150038 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30149996 AATAGCATAG
30150006 AAATG-ATATAAAA
1 AAATGAATATAAAA
30150019 AAATGAATATAAAA
1 AAATGAATATAAAA
*
30150033 TAATGA
1 AAATGA
30150039 CGTGCGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (14 bp):
AAATGAATATAAAA
Found at i:30150896 original size:19 final size:19
Alignment explanation
Indices: 30150858--30150971 Score: 138
Period size: 19 Copynumber: 5.8 Consensus size: 19
30150848 AAATTAAATC
*
30150858 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
30150878 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
30150897 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
30150916 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
* *
30150937 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
30150956 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
30150972 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
19 56 0.68
20 10 0.12
21 16 0.20
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:30150946 original size:40 final size:40
Alignment explanation
Indices: 30150858--30150970 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
30150848 AAATTAAATC
* *
30150858 TCTAAGATTACAAAATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGC-ATATCATATCTAAGATTGCATATATCATA
30150897 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
30150937 TCTAGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
30150971 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
38 16 0.23
39 10 0.14
40 43 0.62
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:30150954 original size:59 final size:58
Alignment explanation
Indices: 30150858--30150971 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 58
30150848 AAATTAAATC
*
30150858 TCTAAGATTACAAAATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* * * *
30150916 TCTAAGATTGCATATATCATATCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACA-AAATCATATCTAAGATTACATATCATATCTAAGATTGCATATC
30150972 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 11 0.22
59 39 0.78
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (58 bp):
TCTAAGATTACAAAATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:30151560 original size:44 final size:44
Alignment explanation
Indices: 30151491--30151761 Score: 248
Period size: 44 Copynumber: 6.2 Consensus size: 44
30151481 CTGTCGGTGC
* * * *
30151491 AGGAAGGCAAGACCTGCTATT-TTCGATCTACTTCACGCCAATAA
1 AGGAAGACAAGATCTGCT-TTCTTCGATCTACTTCACACCAATAT
* * *
30151535 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATAT
* * *
30151580 GGGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-ACCAATAT
* * ** *
30151623 AGGAAGACAGGACCTGCTATT-TTCGATCTACTTCAGGCCAATAC
1 AGGAAGACAAGATCTGCT-TTCTTCGATCTACTTCACACCAATAT
* * *
30151667 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATAT
* * *
30151712 AGGAAGATAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-ACCAATAT
*
30151755 AGAAAGA
1 AGGAAGA
30151762 TAGGACCTGC
Statistics
Matches: 184, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
42 2 0.01
43 37 0.20
44 104 0.57
45 41 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATAT
Done.