Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 79 of 168
Found at i:23151086 original size:16 final size:16
Alignment explanation
Indices: 23151065--23151097 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23151055 GTGAATTCTT
23151065 ATCGTTTCAAGAGTAA
1 ATCGTTTCAAGAGTAA
23151081 ATCGTTTCAAGAGTAA
1 ATCGTTTCAAGAGTAA
23151097 A
1 A
23151098 GTTGACTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
ATCGTTTCAAGAGTAA
Found at i:23151896 original size:20 final size:21
Alignment explanation
Indices: 23151864--23151910 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
23151854 AAATTTTGAA
23151864 AATTTTTATAAA-TATTTTTG
1 AATTTTTATAAATTATTTTTG
23151884 AATTTTTGA-AAATTA-TTTTG
1 AATTTTT-ATAAATTATTTTTG
*
23151904 TATTTTT
1 AATTTTT
23151911 TGTTGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
AATTTTTATAAATTATTTTTG
Found at i:23152448 original size:17 final size:18
Alignment explanation
Indices: 23152410--23152449 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23152400 AGAAAGCCTT
* *
23152410 CAAAAAAGGAATCAACTT
1 CAAAAAAGGAACCAACTG
23152428 CAAAAAAGGAACCAA-TG
1 CAAAAAAGGAACCAACTG
23152445 CAAAA
1 CAAAA
23152450 TTTTCACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (18 bp):
CAAAAAAGGAACCAACTG
Found at i:23153423 original size:23 final size:23
Alignment explanation
Indices: 23153397--23153455 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
23153387 CCGAAGTTCT
23153397 ACTATCACTTGTACCATAGTGCC
1 ACTATCACTTGTACCATAGTGCC
* * *
23153420 ACTAACACTTGCATCATAGTGCC
1 ACTATCACTTGTACCATAGTGCC
23153443 ACTATCACTTGTA
1 ACTATCACTTGTA
23153456 TGCATAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (23 bp):
ACTATCACTTGTACCATAGTGCC
Found at i:23163066 original size:41 final size:41
Alignment explanation
Indices: 23163010--23163092 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
23163000 ACTTGGATAC
23163010 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
1 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
23163051 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
1 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
23163092 A
1 A
23163093 AGGAAACGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (41 bp):
ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
Found at i:23168469 original size:28 final size:28
Alignment explanation
Indices: 23168242--23168464 Score: 302
Period size: 28 Copynumber: 8.0 Consensus size: 28
23168232 GTAATAGTAT
* *
23168242 AGTGTGGGCCTTAGCCCGATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* * *
23168270 AGTGTGGGTCTTAGCCCGATACAATAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
23168298 AGTGTGGGCCTTAGCCCGATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
23168326 AGTGTGAGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
23168354 AGTGTGGGCCTTAGCCCAATATAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* * **
23168382 AATGTGGGCCTTAGCCCATTGTAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
**
23168410 AGTGTAAGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
23168438 AGTATGGGCCTTAGCCCAATATAGTAA
1 AGTGTGGGCCTTAGCCCAATACAGTAA
23168465 TAGTACAATG
Statistics
Matches: 173, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 173 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:23168675 original size:26 final size:26
Alignment explanation
Indices: 23168576--23168676 Score: 130
Period size: 26 Copynumber: 3.9 Consensus size: 26
23168566 ACTAATAGCA
*
23168576 CAGCAAAGCTGCCAGTAATAATAATG
1 CAGCAAAGCTGCCAGTAATAGTAATG
* * *
23168602 CAGTAAAGCTACCAGTAAAAGTAATG
1 CAGCAAAGCTGCCAGTAATAGTAATG
* *
23168628 CAGCAAAGCTGTCAGTATTAGTAATG
1 CAGCAAAGCTGCCAGTAATAGTAATG
**
23168654 CAGCAAAATTGCCAGTAATAGTA
1 CAGCAAAGCTGCCAGTAATAGTA
23168677 TATATCGCAA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTAATG
Found at i:23168880 original size:26 final size:26
Alignment explanation
Indices: 23168850--23169075 Score: 147
Period size: 27 Copynumber: 8.5 Consensus size: 26
23168840 GGGGTATAAC
* *
23168850 AGTCATTTTTCCC-TATGGGGTATTTT
1 AGTCATTTTACCCTTA-GGGGTAATTT
*
23168876 GGTCATTTTACCCTTCAGGGGTAATTT
1 AGTCATTTTACCCTT-AGGGGTAATTT
*
23168903 AGTCATTTTACCCTTCGAGGGTAA-TT
1 AGTCATTTTACCCTTAG-GGGTAATTT
* * *
23168929 CGATCATTTTACCCTTTGGGGGTAATTC
1 AG-TCATTTTACCC-TTAGGGGTAATTT
* *
23168957 AGTCAATTTT-CACTTTAGGGGTAATTC
1 AGTC-ATTTTAC-CCTTAGGGGTAATTT
* *
23168984 AGTCATTTTACCCTTCGGGGGT-ATTC
1 AGTCATTTTACCCTT-AGGGGTAATTT
* * * * *
23169010 GGTCATTTTACCATTCGAGTGTAATTC
1 AGTCATTTTACCCTTAG-GGGTAATTT
* *
23169037 GGTCATTTTACCCTTCGGGGGTAA-TT
1 AGTCATTTTACCCTT-AGGGGTAATTT
*
23169063 CGATCATTTTACC
1 AG-TCATTTTACC
23169076 TTTTTAGGAT
Statistics
Matches: 164, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
25 1 0.01
26 45 0.27
27 105 0.64
28 13 0.08
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
AGTCATTTTACCCTTAGGGGTAATTT
Found at i:23168907 original size:27 final size:27
Alignment explanation
Indices: 23168877--23169075 Score: 212
Period size: 27 Copynumber: 7.4 Consensus size: 27
23168867 GGGTATTTTG
*
23168877 GTCATTTTACCCTTCAGGGGTAATTTA
1 GTCATTTTACCCTTCAGGGGTAATTCA
23168904 GTCATTTTACCCTTC-GAGGGTAATTC-
1 GTCATTTTACCCTTCAG-GGGTAATTCA
**
23168930 GATCATTTTACCCTTTGGGGGTAATTCA
1 G-TCATTTTACCCTTCAGGGGTAATTCA
* *
23168958 GTCAATTTT-CACTTTAGGGGTAATTCA
1 GTC-ATTTTACCCTTCAGGGGTAATTCA
* *
23168985 GTCATTTTACCCTTCGGGGGT-ATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCA
* * *
23169011 GTCATTTTACCATTC-GAGTGTAATTCG
1 GTCATTTTACCCTTCAG-GGGTAATTCA
*
23169038 GTCATTTTACCCTTCGGGGGTAATTC-
1 GTCATTTTACCCTTCAGGGGTAATTCA
23169064 GATCATTTTACC
1 G-TCATTTTACC
23169076 TTTTTAGGAT
Statistics
Matches: 150, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.01
26 29 0.19
27 112 0.75
28 8 0.05
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTTCAGGGGTAATTCA
Found at i:23168942 original size:54 final size:54
Alignment explanation
Indices: 23168878--23169075 Score: 244
Period size: 54 Copynumber: 3.7 Consensus size: 54
23168868 GGTATTTTGG
* *
23168878 TCATTTTACCCTTCAGGGGTAATTTAGTCATTTTACCCTTCGAGGGTAATTCGA
1 TCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATTCGA
* * *
23168932 TCATTTTACCCTTTGGGGGTAATTCAGTCAATTTT-CACTT-TAGGGGTAATTC-A
1 TCATTTTACCCTTCGGGGGTAATTCAGTC-ATTTTACCCTTCGA-GGGTAATTCGA
* * * *
23168985 GTCATTTTACCCTTCGGGGGT-ATTCGGTCATTTTACCATTCGAGTGTAATTCGG
1 -TCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATTCGA
23169039 TCATTTTACCCTTCGGGGGTAATTC-GATCATTTTACC
1 TCATTTTACCCTTCGGGGGTAATTCAG-TCATTTTACC
23169076 TTTTTAGGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
52 5 0.04
53 41 0.33
54 73 0.59
55 5 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (54 bp):
TCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATTCGA
Found at i:23169101 original size:134 final size:134
Alignment explanation
Indices: 23168849--23169101 Score: 332
Period size: 134 Copynumber: 1.9 Consensus size: 134
23168839 AGGGGTATAA
* * * *
23168849 CAGTCATTTTTCCCTATGGGGTATTTTGGTCATTTTACCCTTCAGGGGTAATTTAGTCATTTTAC
1 CAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCATTCAGGGGTAATTCAGTCATTTTAC
* * *
23168914 CCTTCGAGGGTAATTCGATCATTTTACCCTTTGGGGGTAATTCAGTCAATTTTCACTTTAGGGGT
66 CCTTCGAGGGTAATTCGATCATTTTACCCTTTGAGGATAATTCAATCAATTTTCACTTTAGGGGT
23168979 AATT
131 AATT
* *
23168983 CAGTCATTTTACCCT-TCGGGGGTA-TTCGGTCATTTTACCATTC-GAGTGTAATTCGGTCATTT
1 CAGTCATTTTACCCTAT--GGGGTATTTCGGTCATTTTACCATTCAG-GGGTAATTCAGTCATTT
* * * * *
23169045 TACCCTTCGGGGGTAATTCGATCATTTTACCTTTTTAGGATATTTCAATCATTTTTC
63 TACCCTTCGAGGGTAATTCGATCATTTTACCCTTTGAGGATAATTCAATCAATTTTC
23169102 GACCTCTCGA
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
133 2 0.02
134 94 0.92
135 6 0.06
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (134 bp):
CAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCATTCAGGGGTAATTCAGTCATTTTAC
CCTTCGAGGGTAATTCGATCATTTTACCCTTTGAGGATAATTCAATCAATTTTCACTTTAGGGGT
AATT
Found at i:23194885 original size:12 final size:12
Alignment explanation
Indices: 23194868--23194903 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
23194858 TTTTTACCTC
*
23194868 TTTCTTTTCTTT
1 TTTCTTTTCTGT
23194880 TTTCTTTTCTGT
1 TTTCTTTTCTGT
23194892 TTTCTTTT-TGT
1 TTTCTTTTCTGT
23194903 T
1 T
23194904 CTTTCTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTCTTTTCTGT
Found at i:23196639 original size:36 final size:36
Alignment explanation
Indices: 23196561--23196641 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
23196551 GCTAAATCGG
* ** **
23196561 GCACACCACCACCACTAGTAACATTCCTTTCGAGGC
1 GCACACCACCACCACCAACAACATTCCTTTCGAAAC
** *
23196597 ATACACCACCACCACCAACAATATTCCTTTCGAAAC
1 GCACACCACCACCACCAACAACATTCCTTTCGAAAC
23196633 GCACACCAC
1 GCACACCAC
23196642 TGTCTCTAGC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.41, G:0.09, T:0.17
Consensus pattern (36 bp):
GCACACCACCACCACCAACAACATTCCTTTCGAAAC
Found at i:23198321 original size:40 final size:39
Alignment explanation
Indices: 23198274--23198351 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
23198264 TTAGACAAAC
*
23198274 ATTAATGAT-TTCAAAATTAAGACACATAATTAAA-ACACAT
1 ATTAATGATGTTC-AAACTAAG--ACATAATTAAATACACAT
23198314 ATTAATGATGTTCAAACTAAGACATAATTAAATACACA
1 ATTAATGATGTTCAAACTAAGACATAATTAAATACACA
23198352 AACTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
38 11 0.31
39 5 0.14
40 16 0.46
41 3 0.09
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (39 bp):
ATTAATGATGTTCAAACTAAGACATAATTAAATACACAT
Found at i:23201242 original size:85 final size:84
Alignment explanation
Indices: 23201129--23201293 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 84
23201119 ATATATACAA
* *
23201129 TTAATATTTTGTATAATCAAAGTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCA
1 TTAATATTTTGTATAATCAAAGTAATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCA
23201194 TGTCTTTTATATTTTGACC
66 TGTCTTTTATATTTTGACC
* *
23201213 TTAATA-TTTGATATGAATCAAAGTAATATATTAATTATATTATTTCTAAAAGAATATTAATTTT
1 TTAATATTTTG-TAT-AATCAAAGTAATATATTAATTATATTATTTCCAAAAGAATATTAATTTC
23201277 CATGTCTTTTATATTTT
64 CATGTCTTTTATATTTT
23201294 TATTGAAATT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
83 4 0.05
84 9 0.12
85 62 0.83
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (84 bp):
TTAATATTTTGTATAATCAAAGTAATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCA
TGTCTTTTATATTTTGACC
Found at i:23201366 original size:138 final size:138
Alignment explanation
Indices: 23201213--23201537 Score: 474
Period size: 138 Copynumber: 2.3 Consensus size: 138
23201203 TATTTTGACC
* * *
23201213 TTAATA-TTTGATATGAATCAAAGTAATATATTAATTATATTATTTCTAAAAGAATATTAATTTT
1 TTAATATTTTG-TATGAATCAAATTCATATATTAATTATATTATTTCTAAAAAAATATTAATTTT
* * ** * * *
23201277 CATGTCTTTTATATTTTTATTGAAATTAATTAATATAATTGTTTATCTTAATAAATTCGA-TAAA
65 CATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATT-GAGTAAA
23201341 ATATATACAA
129 ATATATACAA
* *
23201351 TTAATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTTC
1 TTAATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCTAAAAAAATATTAATTTTC
*
23201416 ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAAT
66 ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTGAGTAAAAT
23201481 ATATACAA
131 ATATACAA
*
23201489 TTAATATTTTGTATGAATTAAATTCATATATTAATTATATCTATGTTCT
1 TTAATATTTTGTATGAATCAAATTCATATATTAATTATAT-TAT-TTCT
23201538 CTATTTGTGC
Statistics
Matches: 167, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
137 1 0.01
138 157 0.94
139 6 0.04
140 3 0.02
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (138 bp):
TTAATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCTAAAAAAATATTAATTTTC
ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTGAGTAAAAT
ATATACAA
Found at i:23204115 original size:17 final size:17
Alignment explanation
Indices: 23204079--23204115 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23204069 TAATTTATTT
**
23204079 TTTTTCCTTCTTTATGA
1 TTTTTCCTTCTTTAACA
23204096 TTTTTCCTTCTTTAACA
1 TTTTTCCTTCTTTAACA
23204113 TTT
1 TTT
23204116 GGGTACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTCCTTCTTTAACA
Found at i:23206086 original size:17 final size:17
Alignment explanation
Indices: 23206061--23206094 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23206051 CTTTGGTTAT
23206061 ATTTAATTTTCTATATG
1 ATTTAATTTTCTATATG
* *
23206078 ATTTTATTTTTTATATG
1 ATTTAATTTTCTATATG
23206095 TTTCATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTAATTTTCTATATG
Found at i:23207340 original size:37 final size:37
Alignment explanation
Indices: 23207290--23207364 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
23207280 TGTTATTATC
23207290 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
1 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
23207327 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
1 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
23207364 T
1 T
23207365 GCACCTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (37 bp):
TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
Found at i:23209144 original size:44 final size:44
Alignment explanation
Indices: 23209040--23209146 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 44
23209030 TAAATTCATA
* *
23209040 TAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATT
1 TAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATT
* * *
23209085 TATTAATTATGTTAAAATATGATTAAATTATTTATTATTTT-TAT
1 TAATAATTATATTAAAATATGATTAAATTATATATTATTTTAT-T
23209129 TAATAATCT-TATTAAAAT
1 TAATAAT-TATATTAAAAT
23209147 TTAATAACAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 38 0.72
45 14 0.26
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (44 bp):
TAATAATTATATTAAAATATGATTAAATTATATATTATTTTATT
Found at i:23227586 original size:6 final size:5
Alignment explanation
Indices: 23227556--23227604 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
23227546 AAATGCTCGT
* *
23227556 GAAAA AAAAA GAAAA GAAAA GAAAA GAAAAA GAAAA -AAAGA GAGAA GAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA G-AAAA GAAAA GAAA-A GAAAA GAA
23227605 CATATGTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 3 0.08
5 27 0.73
6 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:23227587 original size:21 final size:21
Alignment explanation
Indices: 23227556--23227604 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
23227546 AAATGCTCGT
23227556 GAAAA-AAAAAGAAAAGAAA-A
1 GAAAAGAAAAAGAAAA-AAAGA
23227576 GAAAAGAAAAAGAAAAAAAGA
1 GAAAAGAAAAAGAAAAAAAGA
*
23227597 GAGAAGAA
1 GAAAAGAA
23227605 CATATGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
GAAAAGAAAAAGAAAAAAAGA
Found at i:23230877 original size:15 final size:16
Alignment explanation
Indices: 23230848--23230877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23230838 CAAACATGTT
23230848 TTAACACATTATCAAA
1 TTAACACATTATCAAA
23230864 TTAACACA-TATCAA
1 TTAACACATTATCAA
23230878 TAAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:23237911 original size:21 final size:20
Alignment explanation
Indices: 23237885--23237948 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
23237875 GGATTTTTAA
23237885 AAAATAATGTATGATAATTTT
1 AAAATAATGTAT-ATAATTTT
*
23237906 AAAAT-ATGTTAGTAATAATTTA
1 AAAATAATG-TA-T-ATAATTTT
*
23237928 AAAATAATAGTATATTATTTT
1 AAAATAAT-GTATATAATTTT
23237949 TTAAAAAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 14 0.40
23 4 0.11
24 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
AAAATAATGTATATAATTTT
Found at i:23238108 original size:3 final size:3
Alignment explanation
Indices: 23238096--23238147 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
23238086 AATTTAGAAT
*
23238096 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23238143 ATA AT
1 ATA AT
23238148 GATGATGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23245553 original size:2 final size:2
Alignment explanation
Indices: 23245546--23245596 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
23245536 ACTAACAATT
23245546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23245588 TA TA TA TA T
1 TA TA TA TA T
23245597 CATTTCAAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23250207 original size:28 final size:27
Alignment explanation
Indices: 23250169--23250289 Score: 102
Period size: 27 Copynumber: 4.4 Consensus size: 27
23250159 GTGCACAACG
*
23250169 AAGGCATTCCTTATGGA-ATTTCGCCAGA
1 AAGGCTTTCCTT-T-GATATTTCGCCAGA
* *
23250197 AGGGCTTTCCTTTGATATTTCGCCATA
1 AAGGCTTTCCTTTGATATTTCGCCAGA
* * ** *
23250224 AAGGCTTTTCTTTCATATTTATCCACA
1 AAGGCTTTCCTTTGATATTTCGCCAGA
* * *
23250251 AAGGCTTT-CTTTCATATTTTGCCACA
1 AAGGCTTTCCTTTGATATTTCGCCAGA
23250277 AAGGCTTTTCCTT
1 AAGGC-TTTCCTT
23250290 CCTGACATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
26 23 0.29
27 43 0.54
28 13 0.16
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (27 bp):
AAGGCTTTCCTTTGATATTTCGCCAGA
Found at i:23250216 original size:27 final size:27
Alignment explanation
Indices: 23250186--23250289 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
23250176 TCCTTATGGA
* * *
23250186 ATTTCGCCAGAAGGGCTTTCCTTTGAT
1 ATTTCGCCACAAAGGCTTTCCTTTCAT
* *
23250213 ATTTCGCCATAAAGGCTTTTCTTTCAT
1 ATTTCGCCACAAAGGCTTTCCTTTCAT
**
23250240 ATTTATCCACAAAGGCTTT-CTTTCAT
1 ATTTCGCCACAAAGGCTTTCCTTTCAT
*
23250266 ATTTTGCCACAAAGGCTTTTCCTT
1 ATTTCGCCACAAAGGC-TTTCCTT
23250290 CCTGACATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
26 21 0.32
27 42 0.64
28 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (27 bp):
ATTTCGCCACAAAGGCTTTCCTTTCAT
Found at i:23250266 original size:26 final size:25
Alignment explanation
Indices: 23250199--23250284 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 25
23250189 TCGCCAGAAG
* * *
23250199 GGCTTTCCTTTGATATTTCGCCATAAA
1 GGCTTT-CTTTCATATTT-TCCACAAA
23250226 GGCTTTTCTTTCATATTTATCCACAAA
1 GGC-TTTCTTTCATATTT-TCCACAAA
23250253 GGCTTTCTTTCATATTTTGCCACAAA
1 GGCTTTCTTTCATATTTT-CCACAAA
23250279 GGCTTT
1 GGCTTT
23250285 TCCTTCCTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
25 1 0.02
26 27 0.51
27 22 0.42
28 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (25 bp):
GGCTTTCTTTCATATTTTCCACAAA
Found at i:23254315 original size:46 final size:46
Alignment explanation
Indices: 23254262--23254352 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
23254252 TCTGTTAATG
23254262 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATCT
1 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATCT
*
23254308 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCTTAGGTACAATC
1 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATC
23254353 CTCAAAATAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (46 bp):
TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATCT
Found at i:23255661 original size:25 final size:25
Alignment explanation
Indices: 23255626--23255688 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
23255616 ATTTTACCTA
*
23255626 GTAAAATTTTTACAAATTTATCTGTG
1 GTAAAATTTTGACAAATTTATCT-TG
* *
23255652 GTAAAATTTTGACGATTTTATCTTG
1 GTAAAATTTTGACAAATTTATCTTG
23255677 GTAAAATTTTGA
1 GTAAAATTTTGA
23255689 GAAAATTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (25 bp):
GTAAAATTTTGACAAATTTATCTTG
Found at i:23258751 original size:143 final size:143
Alignment explanation
Indices: 23258493--23258781 Score: 542
Period size: 143 Copynumber: 2.0 Consensus size: 143
23258483 TCCTCAGGTT
23258493 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
1 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
* *
23258558 CTTTCTTAATTTTGAGACCTTATTGAATACTAGGTGTGACAACCCATATACTTGCGGACACCACT
66 CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCCATATACTTGCGGACACCACT
23258623 ACTTTATTATTTA
131 ACTTTATTATTTA
23258636 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
1 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
**
23258701 CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCTGTATACTTGCGGACACCACT
66 CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCCATATACTTGCGGACACCACT
23258766 ACTTTATTATTTA
131 ACTTTATTATTTA
23258779 TCT
1 TCT
23258782 TTTTACTACA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 142 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (143 bp):
TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCCATATACTTGCGGACACCACT
ACTTTATTATTTA
Found at i:23263539 original size:16 final size:16
Alignment explanation
Indices: 23263518--23263553 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
23263508 TTATTTATAC
23263518 TGAAATGATGCCCAAG
1 TGAAATGATGCCCAAG
23263534 TGAAATGATGCCCAAG
1 TGAAATGATGCCCAAG
23263550 TGAA
1 TGAA
23263554 TTTAGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (16 bp):
TGAAATGATGCCCAAG
Found at i:23276230 original size:6 final size:6
Alignment explanation
Indices: 23276219--23276245 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23276209 CGGTTTCCAA
23276219 AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
23276246 CTTTCAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:23276482 original size:20 final size:20
Alignment explanation
Indices: 23276442--23276482 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23276432 ATCGTGATTT
*
23276442 AAAAAGTTATTCCTTTTAAA
1 AAAAAGTTATTCCTTTCAAA
23276462 AAAAAGTTATTACC-TTCAAA
1 AAAAAGTTATT-CCTTTCAAA
23276482 A
1 A
23276483 CCTTGTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAGTTATTCCTTTCAAA
Found at i:23277643 original size:27 final size:26
Alignment explanation
Indices: 23277613--23277710 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
23277603 CTAAACTGAA
*
23277613 GGTATTTTGGTAATTTTGCAAATCAGG
1 GGTACTTTGGTAATTTTGCAAATC-GG
* ** *
23277640 GGTACTTTGTTAATTTCACATATCGAG
1 GGTACTTTGGTAATTTTGCAAATCG-G
* * *
23277667 GGTATTTTGTTAATTTTGCAAACTGGG
1 GGTACTTTGGTAATTTTGCAAA-TCGG
*
23277694 GGTACTTCGGTAATTTT
1 GGTACTTTGGTAATTTT
23277711 ATAAGTCGAG
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.02
27 53 0.95
28 2 0.04
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (26 bp):
GGTACTTTGGTAATTTTGCAAATCGG
Found at i:23277720 original size:54 final size:53
Alignment explanation
Indices: 23277585--23277720 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 53
23277575 TACCCTATAA
* * * *
23277585 GGGTATTTCGGTAATTTTCTAAACTGAAGGTATTTTGGTAATTTTGCAAATCAG
1 GGGTACTTCGGTAATTTTATAATC-GAGGGTATTTTGGTAATTTTGCAAATCAG
* * * * * *
23277639 GGGTACTTTGTTAATTTCACATATCGAGGGTATTTTGTTAATTTTGCAAA-CTGG
1 GGGTACTTCGGTAATTTTATA-ATCGAGGGTATTTTGGTAATTTTGCAAATC-AG
23277693 GGGTACTTCGGTAATTTTATAAGTCGAG
1 GGGTACTTCGGTAATTTTATAA-TCGAG
23277721 ACTATTTCAG
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
53 2 0.03
54 61 0.94
55 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (53 bp):
GGGTACTTCGGTAATTTTATAATCGAGGGTATTTTGGTAATTTTGCAAATCAG
Found at i:23277727 original size:54 final size:54
Alignment explanation
Indices: 23277615--23277737 Score: 124
Period size: 54 Copynumber: 2.3 Consensus size: 54
23277605 AAACTGAAGG
* * **
23277615 TATTTTGGTAATTTTGCAAATCAGGGGTACTTTGTTAATTTCACATATCGAGGG
1 TATTTTGGTAATTTTGCAAATCAGGGGTACTTCGGTAATTTCACATATCGAGAC
* * * *
23277669 TATTTTGTTAATTTTGCAAA-CTGGGGGTACTTCGGTAATTTTATA-AGTCGAGAC
1 TATTTTGGTAATTTTGCAAATC-AGGGGTACTTCGGTAATTTCACATA-TCGAGAC
**
23277723 TATTTCAGTAATTTT
1 TATTTTGGTAATTTT
23277738 ATAAACCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
53 2 0.04
54 54 0.96
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (54 bp):
TATTTTGGTAATTTTGCAAATCAGGGGTACTTCGGTAATTTCACATATCGAGAC
Found at i:23293158 original size:42 final size:42
Alignment explanation
Indices: 23293092--23293210 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
23293082 TACAAGGGAT
* * *
23293092 ACACGACCGTGTCGTCAGGCCGTGTGTCACACATGGCTAAGTC
1 ACACGCCCGTGTC-TCAGGCCGTGTGTCACACACGACTAAGTC
* * * *
23293135 ATATGCCCGTGTCTTAGGCCGTGTGTCACACACGATTAAGTC
1 ACACGCCCGTGTCTCAGGCCGTGTGTCACACACGACTAAGTC
* * *
23293177 ACACGCCCATGTCTCAGTCTGTGTGTCACACACG
1 ACACGCCCGTGTCTCAGGCCGTGTGTCACACACG
23293211 GCCGAGCCAC
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (42 bp):
ACACGCCCGTGTCTCAGGCCGTGTGTCACACACGACTAAGTC
Found at i:23302340 original size:9 final size:9
Alignment explanation
Indices: 23302326--23302356 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23302316 GTTAAACGAA
23302326 TCGAGTTAT
1 TCGAGTTAT
*
23302335 TCGAGTTAA
1 TCGAGTTAT
23302344 TCGAGTTAT
1 TCGAGTTAT
23302353 TCGA
1 TCGA
23302357 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23303360 original size:5 final size:5
Alignment explanation
Indices: 23303350--23303396 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
23303340 CGAAAAATAT
* *
23303350 ATTCG ATTCG ATTCG ATTCG AATTCC ATCTC- ACTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG -ATTCG AT-TCG ATTCG ATTCG ATTCG A
23303397 GAAAACTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (5 bp):
ATTCG
Found at i:23307008 original size:22 final size:21
Alignment explanation
Indices: 23306963--23307006 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
23306953 TAAAATGATA
23306963 TTTGGAAAATTGATTGATTTT
1 TTTGGAAAATTGATTGATTTT
23306984 TTTGGAAAAATTGA-T-ATTTT
1 TTTGG-AAAATTGATTGATTTT
23307004 TTT
1 TTT
23307007 TTATATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 6 0.27
22 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTGGAAAATTGATTGATTTT
Found at i:23315564 original size:3 final size:3
Alignment explanation
Indices: 23315556--23315593 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23315546 CCAAAAAGGA
23315556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23315594 CTAGCTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23316962 original size:76 final size:77
Alignment explanation
Indices: 23316873--23317026 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
23316863 GAAATCCATA
23316873 AACTGTGAC-AAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
1 AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
23316937 CTAAAATGGTTT
66 CTAAAATGGTTT
23316949 AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
1 AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
23317014 CTAAAATGGTTT
66 CTAAAATGGTTT
23317026 A
1 A
23317027 CTGCTATGTC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 9 0.12
77 68 0.88
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (77 bp):
AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
CTAAAATGGTTT
Found at i:23317006 original size:38 final size:38
Alignment explanation
Indices: 23316885--23317006 Score: 112
Period size: 38 Copynumber: 3.2 Consensus size: 38
23316875 CTGTGACAAA
23316885 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
1 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
** *
23316923 AAATAATGTAAGCACTAAAATGGTT--T-AAC-TG-TGACAAAA-
1 AAATAAT-T-A--A--AAAA-GGTTCATGAACATGCCCATAAAAG
23316962 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
1 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
23317000 AAATAAT
1 AAATAAT
23317007 GTAAGCACTA
Statistics
Matches: 65, Mismatches: 6, Indels: 26
0.67 0.06 0.27
Matches are distributed among these distances:
32 4 0.06
33 4 0.06
34 1 0.02
35 4 0.06
36 2 0.03
37 6 0.09
38 15 0.23
39 8 0.12
40 6 0.09
41 2 0.03
42 4 0.06
43 1 0.02
44 4 0.06
45 4 0.06
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.23
Consensus pattern (38 bp):
AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
Found at i:23318113 original size:30 final size:30
Alignment explanation
Indices: 23318077--23318136 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23318067 TAGCCATCAT
*
23318077 GTACAATTACCTTAACATGAGTACCCTATA
1 GTACAATTACCTTAACATAAGTACCCTATA
23318107 GTACAATTACCTTAACATAAGTACCCTATA
1 GTACAATTACCTTAACATAAGTACCCTATA
23318137 ATGGTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.30
Consensus pattern (30 bp):
GTACAATTACCTTAACATAAGTACCCTATA
Found at i:23318800 original size:3 final size:3
Alignment explanation
Indices: 23318792--23318836 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
23318782 CTCATAATCA
23318792 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
23318837 ACAAAAAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:23320183 original size:21 final size:21
Alignment explanation
Indices: 23320144--23320183 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23320134 TATATTAATA
* * *
23320144 TAAAATTTTAATTTTAATTTT
1 TAAAATATTAATATCAATTTT
23320165 TAAAATATTAATATCAATT
1 TAAAATATTAATATCAATT
23320184 AATATTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATATTAATATCAATTTT
Found at i:23320203 original size:39 final size:39
Alignment explanation
Indices: 23320128--23320203 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
23320118 GAATAAAATT
* *
23320128 AAATATTATATTAATATAAAATTTTAATTTTAATTTTTA
1 AAATATTATATCAATATAAAATTTTAATATTAATTTTTA
*
23320167 AAATATTAATATCAAT-TAATATTTTTAATATT-ATTTT
1 AAATATT-ATATCAATATAA-AATTTTAATATTAATTTT
23320204 ACATACATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 15 0.47
40 17 0.53
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (39 bp):
AAATATTATATCAATATAAAATTTTAATATTAATTTTTA
Found at i:23320305 original size:19 final size:17
Alignment explanation
Indices: 23320281--23320315 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
23320271 AACTTATTTA
23320281 ATAATAAGTTTTAACATTG
1 ATAATAA-TTTT-ACATTG
23320300 ATAATAATTTTACATT
1 ATAATAATTTTACATT
23320316 TTAAGTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
ATAATAATTTTACATTG
Found at i:23325849 original size:20 final size:20
Alignment explanation
Indices: 23325820--23325866 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23325810 TTAACATCAT
23325820 ATTTTCTAGAAAATCAATCC
1 ATTTTCTAGAAAATCAATCC
* **
23325840 ATTTTTTAGAAAATTGATCC
1 ATTTTCTAGAAAATCAATCC
23325860 ATTTTCT
1 ATTTTCT
23325867 TAAAGTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (20 bp):
ATTTTCTAGAAAATCAATCC
Found at i:23327292 original size:13 final size:13
Alignment explanation
Indices: 23327274--23327304 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23327264 TTCCAGCAAC
23327274 TATGAATTTATTT
1 TATGAATTTATTT
23327287 TATGAATTTATTT
1 TATGAATTTATTT
*
23327300 GATGA
1 TATGA
23327305 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:23327528 original size:50 final size:50
Alignment explanation
Indices: 23327399--23327638 Score: 284
Period size: 50 Copynumber: 4.7 Consensus size: 50
23327389 ATTTGGGTAA
* * * *
23327399 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTA-ATCATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAGA-C--G
*
23327453 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
23327503 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * * *
23327553 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
**
23327603 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
23327639 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 92 0.56
51 29 0.18
52 2 0.01
53 3 0.02
54 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:23327589 original size:100 final size:103
Alignment explanation
Indices: 23327399--23327646 Score: 358
Period size: 100 Copynumber: 2.4 Consensus size: 103
23327389 ATTTGGGTAA
23327399 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAATCATAAGAGGTCCCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAATCATAAGAGGTCCCCT
* * *
23327464 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
65 ATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * * * *
23327503 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAATCATAAGAGGTCCCCTA
*
23327565 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
23327603 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
23327647 GTTATTATCA
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
100 50 0.38
101 38 0.29
103 2 0.02
104 40 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAATCATAAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:23331310 original size:28 final size:27
Alignment explanation
Indices: 23331257--23331312 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
23331247 ACCTAGTAAT
* **
23331257 TTTATATATTTTTTTTAATATTTTATA
1 TTTATATATTTTTTATAATAAATTATA
*
23331284 TTTATATGTCTTTTTATAATAAATTATA
1 TTTATATAT-TTTTTATAATAAATTATA
23331312 T
1 T
23331313 GTTTAGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTATATATTTTTTATAATAAATTATA
Found at i:23334860 original size:24 final size:24
Alignment explanation
Indices: 23334833--23334892 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
23334823 CTTATTCTAC
*
23334833 TTTTCATACTTTTT-AGAATTTAA
1 TTTTAATACTTTTTAAGAATTTAA
**
23334856 GTTTTTTTA-TTTTTAAGAATTTAA
1 -TTTTAATACTTTTTAAGAATTTAA
*
23334880 TCTTAATACTTTT
1 TTTTAATACTTTT
23334893 CAGATTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (24 bp):
TTTTAATACTTTTTAAGAATTTAA
Found at i:23337979 original size:51 final size:51
Alignment explanation
Indices: 23337923--23338037 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
23337913 TCCTCTCTAA
*
23337923 TCCTCTCAATTTCCTTCCAAAATTCTCTGAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* ** *
23337974 TCCTCTCAATTTTCTTTTAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
23338025 TCCCCTCAATTTC
1 TCCTCTCAATTTC
23338038 ATTTTTTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.28, C:0.27, G:0.01, T:0.44
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:23338077 original size:31 final size:30
Alignment explanation
Indices: 23338039--23338102 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 30
23338029 CTCAATTTCA
23338039 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTTT-AATTTTTTTATAT
23338070 TTTTTTAAAATAATTTTAATTTTTTTATAT
1 TTTTTTAAAATAATTTTAATTTTTTTATAT
23338100 TTT
1 TTT
23338103 CATCAATGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTTTAAAATAATTTTAATTTTTTTATAT
Found at i:23339196 original size:7 final size:7
Alignment explanation
Indices: 23339184--23339215 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
23339174 AGTCGATTGA
23339184 TATTTAG
1 TATTTAG
23339191 TATTTAG
1 TATTTAG
23339198 TATTTAG
1 TATTTAG
23339205 TATTTAG
1 TATTTAG
23339212 TATT
1 TATT
23339216 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:23340417 original size:29 final size:28
Alignment explanation
Indices: 23340392--23340475 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 28
23340382 TTACTAACAA
23340392 TTAACTAACTTAATTAAAAACCCTAACC
1 TTAACTAACTTAATTAAAAACCCTAACC
* *
23340420 CTAACCTAAGTTAATTAAAAACCCTAACCC
1 TTAA-CTAACTTAATTAAAAACCCTAA-CC
* * *
23340450 TAAACTAATTTAATTAAAAACTCTAA
1 TTAACTAACTTAATTAAAAACCCTAA
23340476 TTTAATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 3 0.06
29 41 0.85
30 4 0.08
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.29
Consensus pattern (28 bp):
TTAACTAACTTAATTAAAAACCCTAACC
Found at i:23340516 original size:66 final size:66
Alignment explanation
Indices: 23340445--23340685 Score: 180
Period size: 72 Copynumber: 3.5 Consensus size: 66
23340435 TAAAAACCCT
* *
23340445 AACCCTAAACTAATTTAATTAAAAACTCTAATTTAATTTTACTAACAATTAACTAATTTAATTAA
1 AACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAA
23340510 A
66 A
*** ** * * ** *
23340511 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTACCCTAACCTAATTATTTAATTAA-AAACC
1 AACCCT-A----AA-CTAATTTAATTAAAAACCCTAATTTAATTTTACTA-ACAATTAACTAA-C
* ****
23340575 CTAA-CCCT
58 TTAATTAAA
*
23340583 AACCCTAACCTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAA
1 AACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAA
23340648 A
66 A
23340649 AACCCTAACCCTAGCCTAATTTAATTAAAAACCCTAA
1 AACCCTAA----A--CTAATTTAATTAAAAACCCTAA
23340686 CCCTAAACTA
Statistics
Matches: 125, Mismatches: 34, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
65 10 0.08
66 44 0.35
67 2 0.02
71 3 0.02
72 57 0.46
73 9 0.07
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.32
Consensus pattern (66 bp):
AACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAA
A
Found at i:23340519 original size:29 final size:32
Alignment explanation
Indices: 23340497--23340613 Score: 145
Period size: 29 Copynumber: 3.7 Consensus size: 32
23340487 TAACAATTAA
23340497 CTAATTTAATTAAAAACCCTAAC---CCTAAC
1 CTAATTTAATTAAAAACCCTAACTAACCTAAC
*
23340526 CTAATTTAATTAAAAACCCTACCCTAACCTAA-
1 CTAATTTAATTAAAAACCCTA-ACTAACCTAAC
*
23340558 -TTATTTAATTAAAAACCCTAACCCTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAA--CTAA-CCTAAC
23340592 CTAATTTAATTAAAAACCCTAA
1 CTAATTTAATTAAAAACCCTAA
23340614 TTTAATTTTA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
29 21 0.28
30 1 0.01
31 19 0.25
32 4 0.05
33 10 0.13
35 20 0.27
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (32 bp):
CTAATTTAATTAAAAACCCTAACTAACCTAAC
Found at i:23340538 original size:101 final size:102
Alignment explanation
Indices: 23340363--23340578 Score: 364
Period size: 101 Copynumber: 2.1 Consensus size: 102
23340353 TTTGATGTCA
23340363 TAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAACCTA
1 TAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAACCTA
23340428 AGTTAATTAAAAACCCTAACCCTAAACT-A-ATTTAAT
66 AGTTAATTAAAAACCCT-ACCCTAAACTAATATTTAAT
* *
23340464 TAAAAACTCTAATTTAATTTTACTAACAATTAACTAATTTAATTAAAAACCCTAACCCTAACCTA
1 TAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAACCTA
* *
23340529 ATTTAATTAAAAACCCTACCCTAACCTAATTATTTAAT
66 AGTTAATTAAAAACCCTACCCTAAACTAA-TATTTAAT
23340567 TAAAAACCCTAA
1 TAAAAACCCTAA
23340579 CCCTAACCCT
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
100 9 0.08
101 80 0.75
103 18 0.17
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (102 bp):
TAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAACCTA
AGTTAATTAAAAACCCTACCCTAAACTAATATTTAAT
Found at i:23340617 original size:138 final size:130
Alignment explanation
Indices: 23340396--23340743 Score: 545
Period size: 138 Copynumber: 2.6 Consensus size: 130
23340386 TAACAATTAA
* *
23340396 CTAACTTAATTAAAAACCCTAACCCTAACCTAAGTTAATTAAAAACCCTAACCCTAAACTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAATTT
* *
23340461 AATTAAAAACTCTAATTTAATTTTACTAACAATTAACTAATTTAATTAAAAACCCTAACCCTAAC
66 AATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAAC
*
23340526 CTAATTTAATTAAAAACCCT-ACCCTAACCTAATTATTTAATTAAAAACCCTAACCCTAACCCTA
1 CTAATTTAATTAAAAACCCTAACCCTAACCT-A--ACTTAATTAAAAACCCTAACCCT-A----A
23340590 ACCTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCT
58 A-CTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCT
*
23340655 AACCCTAGC
122 AACCCTAAC
*
23340664 CTAATTTAATTAAAAACCCTAACCCTAAACTAACTTAATTAAAAACCCTAACCCTAAACTAATTT
1 CTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAATTT
23340729 AATTAAAAACCCTAA
66 AATTAAAAACCCTAA
23340744 CCATTAACAC
Statistics
Matches: 201, Mismatches: 7, Indels: 20
0.88 0.03 0.09
Matches are distributed among these distances:
129 10 0.05
130 42 0.21
131 2 0.01
132 22 0.11
133 1 0.00
135 1 0.00
136 22 0.11
137 2 0.01
138 90 0.45
139 9 0.04
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.30
Consensus pattern (130 bp):
CTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAACTAATTT
AATTAAAAACCCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCCTAAC
Found at i:23340657 original size:29 final size:29
Alignment explanation
Indices: 23340631--23340751 Score: 172
Period size: 29 Copynumber: 4.2 Consensus size: 29
23340621 TTACTAACAA
23340631 TTAACTAACTTAATTAAAAACCCTAACCC
1 TTAACTAACTTAATTAAAAACCCTAACCC
* *
23340660 -TAGCCTAATTTAATTAAAAACCCTAACCC
1 TTA-ACTAACTTAATTAAAAACCCTAACCC
*
23340689 TAAACTAACTTAATTAAAAACCCTAACCC
1 TTAACTAACTTAATTAAAAACCCTAACCC
* * *
23340718 TAAACTAATTTAATTAAAAACCCTAACCA
1 TTAACTAACTTAATTAAAAACCCTAACCC
23340747 TTAAC
1 TTAAC
23340752 ACAATTTTTG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (29 bp):
TTAACTAACTTAATTAAAAACCCTAACCC
Found at i:23340808 original size:55 final size:55
Alignment explanation
Indices: 23340740--23340895 Score: 251
Period size: 55 Copynumber: 2.8 Consensus size: 55
23340730 ATTAAAAACC
*
23340740 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATTTTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATATTA
* *
23340795 CTAACCATTAACACAATTTTAGGACTTAATAATTTTACATATTTTGATAATATTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATATTA
*
23340850 CTAACCATTAACAAAAAATTTTTGG-CTTAATAATTTTACATAATTT
1 CTAACCATTAAC--ACAATTTTTGGACTTAATAATTTTACATAATTT
23340896 TACATAATGT
Statistics
Matches: 93, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
55 64 0.69
56 20 0.22
57 9 0.10
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (55 bp):
CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTTGATAATATTA
Found at i:23340894 original size:10 final size:10
Alignment explanation
Indices: 23340879--23340903 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23340869 TTTTGGCTTA
23340879 ATAATTTTAC
1 ATAATTTTAC
23340889 ATAATTTTAC
1 ATAATTTTAC
23340899 ATAAT
1 ATAAT
23340904 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:23340997 original size:125 final size:122
Alignment explanation
Indices: 23340822--23341213 Score: 482
Period size: 125 Copynumber: 3.3 Consensus size: 122
23340812 TTTAGGACTT
*
23340822 AATAATTTTACATATTTTGATA-ATATTACTAACCATTAACAAAAAATTTTTGGCTTAATAATTT
1 AATAATTTTACATATTTTGATATATATTACTAACCATTAACAAAAATTTTTTGGCTTAATAATTT
*
23340886 TACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATTA
66 TACATACTTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACT-ACAATTA
23340944 AATAATTTTACATATTTTGATAATATAATTACTAACCATTAACAAAAATTTTTTGGCTTAATAAT
1 AATAATTTTACATATTTTGAT-ATAT-ATTACTAACCATTAACAAAAATTTTTTGGCTTAATAAT
23341009 TTTACATACTTTTACATAATGTTAGATTTGGTAAAATG--TT-T-TGG-----C--TT-
64 TTTACATACTTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTACAATTA
* * **** *
23341056 AATAATTTTACATACTTTT-ACATA-ATGT--T-A-GATTTGGTAAAATGTTTTGGCTTAATAAT
1 AATAATTTTACATA-TTTTGATATATAT-TACTAACCATTAACAAAAATTTTTTGGCTTAATAAT
23341115 TTTACATACTTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAGCAATTA
64 TTTACATACTTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTA-CAATTA
* * *
23341175 AATAATTTTACATAATTTGATA-ATTTTACTAACAATTAA
1 AATAATTTTACATATTTTGATATATATTACTAACCATTAA
23341214 TACAATTATC
Statistics
Matches: 231, Mismatches: 15, Indels: 48
0.79 0.05 0.16
Matches are distributed among these distances:
106 61 0.26
107 1 0.00
108 3 0.01
109 3 0.01
110 4 0.02
111 3 0.01
112 15 0.06
113 6 0.03
115 1 0.00
116 1 0.00
118 7 0.03
119 17 0.07
120 1 0.00
121 4 0.02
122 25 0.11
123 3 0.01
124 2 0.01
125 74 0.32
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (122 bp):
AATAATTTTACATATTTTGATATATATTACTAACCATTAACAAAAATTTTTTGGCTTAATAATTT
TACATACTTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTACAATTA
Found at i:23341052 original size:53 final size:53
Alignment explanation
Indices: 23340988--23341157 Score: 331
Period size: 53 Copynumber: 3.2 Consensus size: 53
23340978 ACCATTAACA
*
23340988 AAAATTTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
1 AAAATGTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
23341041 AAAATGTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
1 AAAATGTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
23341094 AAAATGTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
1 AAAATGTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
23341147 AAAATGTTTTG
1 AAAATGTTTTG
23341158 TCTGGAACTA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 116 1.00
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (53 bp):
AAAATGTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
Found at i:23344410 original size:123 final size:123
Alignment explanation
Indices: 23344245--23344592 Score: 563
Period size: 123 Copynumber: 2.8 Consensus size: 123
23344235 CCCAAACTTG
* *
23344245 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTTAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
23344310 TAGAAGCGATTTTATACTATTTGCTCAAAAATGTCAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATTATTTCTTACATGAC
* * * * *
23344368 CTACTGTAGCAAAATTGCATCCACGAGGGCACGATTTGACAATTTCTACTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * *
23344433 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTGTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATTATTTCTTACATGAC
23344491 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
23344556 TAGAAGCGATTTTATACAATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAAAAACGTCAA
23344593 CTCGAAATAA
Statistics
Matches: 206, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
123 205 1.00
124 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATTATTTCTTACATGAC
Found at i:23346736 original size:28 final size:29
Alignment explanation
Indices: 23346683--23346747 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
23346673 GATTAGTTAA
*
23346683 GTGACCAATTTACAAAAAATTATAGTTGG
1 GTGACCAATTTACAAAAAATCATAGTTGG
*
23346712 GTGATCAATTTA-AAAAAATCATAGTTGG
1 GTGACCAATTTACAAAAAATCATAGTTGG
23346740 GTGACCAA
1 GTGACCAA
23346748 AAAAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.67
29 11 0.33
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (29 bp):
GTGACCAATTTACAAAAAATCATAGTTGG
Found at i:23347811 original size:31 final size:31
Alignment explanation
Indices: 23347750--23347807 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23347740 TTACAAAATG
*
23347750 GTCATTGAATTATTCAAAAGTTTTTATTAAA
1 GTCATTGAACTATTCAAAAGTTTTTATTAAA
*
23347781 GTCATTGAACTATTCGAAA-TTTTTATT
1 GTCATTGAACTATTCAAAAGTTTTTATT
23347808 TAAATCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAAGTTTTTATTAAA
Found at i:23351753 original size:50 final size:50
Alignment explanation
Indices: 23351696--23351831 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 50
23351686 GTGCCCATGT
* * *
23351696 CATGTCCCAGACATAATCTTACGGGGGACCTCTCATTTTGGTGCCAACGC
1 CATGTCCCAGACATAATCTTACAGGGGACCTCTCATCTCGGTGCCAACGC
* ** *
23351746 TATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATAATCTTACAGGGGACCTCTCATCTCGGTGCCAACGC
** * *
23351796 CATGTCCCAGACATGGTCTTACACGGGACTTCTCAT
1 CATGTCCCAGACATAATCTTACAGGGGACCTCTCAT
23351832 AATCTCAATG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
CATGTCCCAGACATAATCTTACAGGGGACCTCTCATCTCGGTGCCAACGC
Found at i:23355104 original size:41 final size:41
Alignment explanation
Indices: 23355046--23355125 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
23355036 CCTCATCGGA
*
23355046 TAATTCGAAGTAATAAATTGACACCCAGTGCCTCATTGAAT
1 TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATTGAAT
* * * *
23355087 TAATCCGAAGTAGTAAATTGACATCTAGTGTCTCATTGA
1 TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATTGA
23355126 CGCGAAGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (41 bp):
TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATTGAAT
Found at i:23356015 original size:7 final size:7
Alignment explanation
Indices: 23356003--23356068 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
23355993 ATTTTATTAT
23356003 TATAATA
1 TATAATA
23356010 TATAATA
1 TATAATA
23356017 TAATATATA
1 T-ATA-ATA
23356026 TACTTAATA
1 TA--TAATA
*
23356035 -ATTAAGA
1 TA-TAATA
23356042 TATAATA
1 TATAATA
23356049 TTATAATA
1 -TATAATA
23356057 TTATAATA
1 -TATAATA
23356065 TATA
1 TATA
23356069 TTTTAACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:23356055 original size:8 final size:8
Alignment explanation
Indices: 23356000--23356065 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
23355990 TTTATTTTAT
23356000 TATTATAA
1 TATTATAA
23356008 TA-TATAA
1 TATTATAA
*
23356015 TATAAT-A
1 TATTATAA
23356022 TATATACTTAA
1 TAT-TA--TAA
*
23356033 TAAT-TAA
1 TATTATAA
*
23356040 GA-TATAA
1 TATTATAA
23356047 TATTATAA
1 TATTATAA
23356055 TATTATAA
1 TATTATAA
23356063 TAT
1 TAT
23356066 ATATTTTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:23356062 original size:27 final size:26
Alignment explanation
Indices: 23356000--23356068 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
23355990 TTTATTTTAT
23356000 TATTATAATATATAATATAATATATA
1 TATTATAATATATAATATAATATATA
23356026 TACTTAATAAT-TA-AGATATAATATTATAA
1 TA-TT-ATAATATATA-ATATAATA-TAT-A
23356055 TATTATAATATATA
1 TATTATAATATATA
23356069 TTTTAACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 17 0.47
28 12 0.33
29 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
TATTATAATATATAATATAATATATA
Found at i:23375375 original size:41 final size:41
Alignment explanation
Indices: 23375315--23375486 Score: 245
Period size: 41 Copynumber: 4.2 Consensus size: 41
23375305 AAACACTTCT
* *
23375315 TTTTCATTCGTTATCCTTTTCGGATAACATCGTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
* * *
23375356 TTTTCATTTGCTATTCTTTTTGGATAACATCCTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
* *
23375397 TTTTCATTTGTTATTCTTTTCGGATAACTTCCTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
* * * *
23375438 TTTTCATTTTTTATCCTTTTCGGATAACTTTCTTTTCAACC
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
23375479 TTTTCATT
1 TTTTCATT
23375487 GATTTAGAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (41 bp):
TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
Found at i:23376175 original size:31 final size:31
Alignment explanation
Indices: 23376132--23376199 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
23376122 AAAATTCAAT
23376132 AACACTACAAACCCATTCATGAAAAGTCCCTA
1 AACA-TACAAACCCATTCATGAAAAGTCCCTA
23376164 AACATACAAACCCATTCATGAAAAGTCCCTA
1 AACATACAAACCCATTCATGAAAAGTCCCTA
23376195 AACAT
1 AACAT
23376200 TTAATATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.46, C:0.29, G:0.06, T:0.19
Consensus pattern (31 bp):
AACATACAAACCCATTCATGAAAAGTCCCTA
Found at i:23376906 original size:18 final size:19
Alignment explanation
Indices: 23376868--23376906 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
23376858 TATTTTTGTT
23376868 TTTGTTGTTTTCTTAAATTTA
1 TTTGTTGTTTTCTT--ATTTA
23376889 TTTGTTGTTTTCTT-TTTA
1 TTTGTTGTTTTCTTATTTA
23376907 GGTCAGATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
21 14 0.78
ACGTcount: A:0.13, C:0.05, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTGTTGTTTTCTTATTTA
Found at i:23377202 original size:68 final size:69
Alignment explanation
Indices: 23377083--23377214 Score: 171
Period size: 68 Copynumber: 1.9 Consensus size: 69
23377073 TAAATTAAAA
* * *
23377083 AATACATTTAATTAATTCATATTTTTATATATAAAAATATTTATATATAATATAATTTAGTGCAC
1 AATACATTTAATTAATTCATATTGTTATATATAAAAATATTTACATATAATATAAATTAGTGCAC
23377148 ATAT
66 ATAT
* * *
23377152 AATA-ATTTAATTAATTTATATTGTTATCTATAAAAGAT-TTTACCCT-TAATATAAATTAGTGC
1 AATACATTTAATTAATTCATATTGTTATATATAAAA-ATATTTA-CATATAATATAAATTAGTGC
23377214 A
64 A
23377215 TTGGATTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 48 0.87
69 7 0.13
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (69 bp):
AATACATTTAATTAATTCATATTGTTATATATAAAAATATTTACATATAATATAAATTAGTGCAC
ATAT
Found at i:23380568 original size:12 final size:12
Alignment explanation
Indices: 23380551--23380575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23380541 CAGAGGCTAT
23380551 TAACAATATTTA
1 TAACAATATTTA
23380563 TAACAATATTTA
1 TAACAATATTTA
23380575 T
1 T
23380576 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:23382581 original size:11 final size:11
Alignment explanation
Indices: 23382565--23382607 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
23382555 TATAAATTTA
23382565 AATATATTAAT
1 AATATATTAAT
*
23382576 AATATATAAAT
1 AATATATTAAT
23382587 AAT-T-TTAAT
1 AATATATTAAT
*
23382596 AATATAATAAT
1 AATATATTAAT
23382607 A
1 A
23382608 TAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATATTAAT
Found at i:23382603 original size:28 final size:27
Alignment explanation
Indices: 23382549--23382609 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
23382539 TTATCATTTA
*
23382549 AATATATATAAATTTAAATATATTAAT
1 AATATATAAAAATTTAAATATATTAAT
*
23382576 AATATATAAATAATTTTAATA-ATATAAT
1 AATATATAAA-AATTTAAATATAT-TAAT
23382604 AATATA
1 AATATA
23382610 GAAAGAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AATATATAAAAATTTAAATATATTAAT
Found at i:23388697 original size:24 final size:24
Alignment explanation
Indices: 23388653--23388698 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23388643 ATTGGTCATT
* * *
23388653 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGCAAGAATATTTG
23388677 GAGAGATTTGAGCAAGAATATT
1 GAGAGATTTGAGCAAGAATATT
23388699 GAGATTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (24 bp):
GAGAGATTTGAGCAAGAATATTTG
Found at i:23389538 original size:27 final size:27
Alignment explanation
Indices: 23389342--23389549 Score: 227
Period size: 27 Copynumber: 7.7 Consensus size: 27
23389332 AGAGGTCGAT
* *
23389342 AAATGACAGAAATACCTCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* *
23389369 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* *
23389396 GAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* ** *
23389423 GAATGGTCGAAATACTCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* * * **
23389450 GAATGACTGAAATGCCCCCGTAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* * *
23389477 AAATCACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
*
23389504 AAATGACCGAAATACCCCTATAGAGTA
1 AAATGACCGAAATACCCCTATAGGGTA
**
23389531 AAATGACCGTTATACCCCT
1 AAATGACCGAAATACCCCT
23389550 GGGAGATGAA
Statistics
Matches: 150, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTATAGGGTA
Found at i:23396204 original size:35 final size:35
Alignment explanation
Indices: 23396165--23396312 Score: 156
Period size: 35 Copynumber: 4.2 Consensus size: 35
23396155 CCATAATGAT
*
23396165 GGTATATAGGTCCTTC-AGGGTGACACCGTGTAAAC
1 GGTATATAGGTCCTTCGA-GGTGACACCATGTAAAC
* *
23396200 GGTATGTAGGT-CTTCTGAGGCGACACCATGTAAAC
1 GGTATATAGGTCCTTC-GAGGTGACACCATGTAAAC
* * * * *
23396235 AGTATGTAGGTCTTTCGTGGTGACACCATGTAAAT
1 GGTATATAGGTCCTTCGAGGTGACACCATGTAAAC
* * *
23396270 GGTATATAGGTCCTTCGGGGTGTCACCCTGTAAAC
1 GGTATATAGGTCCTTCGAGGTGACACCATGTAAAC
*
23396305 GATATATA
1 GGTATATA
23396313 AATCCTACCG
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
34 4 0.04
35 86 0.91
36 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (35 bp):
GGTATATAGGTCCTTCGAGGTGACACCATGTAAAC
Found at i:23396330 original size:105 final size:104
Alignment explanation
Indices: 23396138--23396331 Score: 230
Period size: 105 Copynumber: 1.8 Consensus size: 104
23396128 ATTATCTAAT
* *
23396138 GGTCTTTCGAGATGACACCATAATGATGGTATATAGGTCCTTCAGGGTGACACCGTGTAAACGGT
1 GGTCTTTCGAGATGACACCATAA-GATGGTATATAGGTCCTTCAGGGTGACACCCTGTAAACGAT
* ** * *
23396203 ATGTAGGTCTTCTGAGGCGACACCATGTAAACAGTATGTA
65 ATATAAATCTACCGAGGCGACACCATGTAAACAGTATGTA
* * * *
23396243 GGTCTTTCGTGGTGACACCATGTAA-ATGGTATATAGGTCCTTCGGGGTGTCACCCTGTAAACGA
1 GGTCTTTCGAGATGACACCA--TAAGATGGTATATAGGTCCTTCAGGGTGACACCCTGTAAACGA
*
23396307 TATATAAATCCTACCG-GGGGACACC
64 TATATAAAT-CTACCGAGGCGACACC
23396332 TTGAAAGGGG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
105 67 0.91
106 4 0.05
107 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (104 bp):
GGTCTTTCGAGATGACACCATAAGATGGTATATAGGTCCTTCAGGGTGACACCCTGTAAACGATA
TATAAATCTACCGAGGCGACACCATGTAAACAGTATGTA
Found at i:23405560 original size:52 final size:51
Alignment explanation
Indices: 23405489--23405697 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
23405479 ATCAAGTGAC
* * *
23405489 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
23405541 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
23405592 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
23405639 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
23405691 ATAAGTG
1 A-AAGTG
23405698 GCTACACTTA
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 92 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:23405611 original size:98 final size:98
Alignment explanation
Indices: 23405475--23405697 Score: 251
Period size: 98 Copynumber: 2.3 Consensus size: 98
23405465 TTTGAGTACT
* *
23405475 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTAC-ACT-TATCTGATCAAGTGA-CAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTATAGCTACGACTATA-CTGATC---TGATCAA
* * *
23405537 GTG-GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
62 GAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * * *
23405573 TCTGATCAAGTGAC-AAGTGAAAAGTGATAAG-TGATAGCTTCGGCTATACTTATCTGATCAAGA
1 TCTGATCAAGTGACAAAGTGATAAGTGAT-AGCT-ATAGCTACGACTATACTGATCTGATCAAGA
*
23405636 GACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
64 GACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
23405671 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
23405698 GCTACACTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
96 3 0.03
97 18 0.17
98 65 0.61
99 18 0.17
100 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTATAGCTACGACTATACTGATCTGATCAAGAGA
CAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:23405705 original size:37 final size:37
Alignment explanation
Indices: 23405661--23405843 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
23405651 GATAGCTTTA
23405661 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
23405698 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
23405735 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
23405772 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
23405809 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
23405844 ATCATACGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 126 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:23406827 original size:21 final size:21
Alignment explanation
Indices: 23406801--23406847 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23406791 CGACGGTGGA
** *
23406801 GGTGGCTAGTGGTTGTCCAAT
1 GGTGGCTAGTGGAGGTCCAAC
23406822 GGTGGCTAGTGGAGGTCCAAC
1 GGTGGCTAGTGGAGGTCCAAC
23406843 GGTGG
1 GGTGG
23406848 TCAACGGTGG
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:0.15, C:0.15, G:0.45, T:0.26
Consensus pattern (21 bp):
GGTGGCTAGTGGAGGTCCAAC
Found at i:23423501 original size:2 final size:2
Alignment explanation
Indices: 23423494--23423525 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23423484 CAAAATGAGA
23423494 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
23423526 GAGAAGGGAT
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:23427778 original size:17 final size:16
Alignment explanation
Indices: 23427756--23427787 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
23427746 TTACAGAATA
23427756 TTGGAAGCTCGATCGGT
1 TTGGAAGCTCG-TCGGT
23427773 TTGGAAGCTCGTCGG
1 TTGGAAGCTCGTCGG
23427788 AGATTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.19, G:0.38, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCGGT
Found at i:23431019 original size:31 final size:31
Alignment explanation
Indices: 23430981--23431042 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
23430971 TTTATAATAA
*
23430981 CTTAACCAATTTATACTTAATCGATCCCTGT
1 CTTAACCAATTTATACCTAATCGATCCCTGT
23431012 CTTAACCAATTTATACCTAATCGATCCCTGT
1 CTTAACCAATTTATACCTAATCGATCCCTGT
23431043 AGAAATGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.37
Consensus pattern (31 bp):
CTTAACCAATTTATACCTAATCGATCCCTGT
Found at i:23431317 original size:3 final size:3
Alignment explanation
Indices: 23431309--23431375 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
23431299 GAGAACTTTG
23431309 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
23431357 AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA A
23431376 CAGAAGTGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:23436635 original size:20 final size:20
Alignment explanation
Indices: 23436580--23436635 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
23436570 TTTTTCTTTT
*
23436580 TGTTAATTTC-TTTACTTTAA
1 TGTTATTTTCATTT-CTTTAA
* * * *
23436600 TTTTGTTTTTAATTCTTTAA
1 TGTTATTTTCATTTCTTTAA
23436620 TGTTATTTTCATTTCT
1 TGTTATTTTCATTTCT
23436636 GTTTTTATCT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (20 bp):
TGTTATTTTCATTTCTTTAA
Found at i:23440439 original size:13 final size:13
Alignment explanation
Indices: 23440421--23440445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23440411 AATTGCTTAT
23440421 CAAATGCATATAC
1 CAAATGCATATAC
23440434 CAAATGCATATA
1 CAAATGCATATA
23440446 TATTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAATGCATATAC
Found at i:23440703 original size:41 final size:42
Alignment explanation
Indices: 23440642--23440725 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
23440632 GCCGACTTTT
** *
23440642 AGCCTGCTAGATGTATAGTCTGAATAATTTCACTGGC-ATAA
1 AGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATAA
*
23440683 AGCCTGCTAGACATAAAGTCTGAATTATTTCACTGGCAATAA
1 AGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATAA
23440725 A
1 A
23440726 TCAAATTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 33 0.87
42 5 0.13
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (42 bp):
AGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATAA
Found at i:23442373 original size:23 final size:23
Alignment explanation
Indices: 23442347--23442393 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
23442337 TATTTGTTTA
*
23442347 ATTATAATA-TTATAATATAATAT
1 ATTATAACATTTATAAT-TAATAT
23442370 ATTATAACATTTATAATTAATAT
1 ATTATAACATTTATAATTAATAT
23442393 A
1 A
23442394 AAAACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTATAACATTTATAATTAATAT
Found at i:23452500 original size:28 final size:28
Alignment explanation
Indices: 23452468--23452568 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
23452458 GATTATAAAT
*
23452468 AATAGCCTTTGTGGTAAACTATGAAAAG
1 AATAGCCTTTGTGGCAAACTATGAAAAG
* * * * *
23452496 AATAGTCGTTGTGACGAACTCTGAAAAG
1 AATAGCCTTTGTGGCAAACTATGAAAAG
* * *
23452524 AATAGCCTTTGTGGCGAACTCTGAAATG
1 AATAGCCTTTGTGGCAAACTATGAAAAG
* *
23452552 GAT-GCCTTTCTGGCAAA
1 AATAGCCTTTGTGGCAAA
23452569 TTCTGAATGG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 12 0.20
28 48 0.80
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (28 bp):
AATAGCCTTTGTGGCAAACTATGAAAAG
Found at i:23452586 original size:27 final size:27
Alignment explanation
Indices: 23452512--23452586 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
23452502 CGTTGTGACG
* * * *
23452512 AACTCTGAAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAATGGATA-CCTTTCTGGCA
*
23452540 AACTCTGAAATGGATGCCTTTCTGGCA
1 AACTCTGAAATGGATACCTTTCTGGCA
*
23452567 AATTCTG-AATGGATCACCTT
1 AACTCTGAAATGGAT-ACCTT
23452587 CGTGGTATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.18
27 19 0.49
28 13 0.33
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (27 bp):
AACTCTGAAATGGATACCTTTCTGGCA
Found at i:23455878 original size:49 final size:49
Alignment explanation
Indices: 23455812--23456040 Score: 192
Period size: 50 Copynumber: 4.5 Consensus size: 49
23455802 CAAAGCTATG
* * * *
23455812 TCCCAGACATAGCCTTACATGGGATGTT-TCTTGTAC-TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATA
* * *
23455861 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
** ** * * *
23455911 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATTCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
** *
23455961 TCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TGCCAATGCCATA
23456017 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
23456041 TCTCTTTACC
Statistics
Matches: 151, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
48 4 0.03
49 25 0.17
50 83 0.55
53 2 0.01
55 1 0.01
56 36 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATA
Found at i:23455916 original size:50 final size:50
Alignment explanation
Indices: 23455848--23456045 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 50
23455838 TTTCTTGTAC
* * **
23455848 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
23455898 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
23455948 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
23456004 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23456046 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 83 0.66
53 2 0.02
56 41 0.33
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:23460397 original size:13 final size:14
Alignment explanation
Indices: 23460379--23460407 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23460369 AAAATTGCTT
23460379 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
23460392 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
23460406 AA
1 AA
23460408 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:23477417 original size:100 final size:100
Alignment explanation
Indices: 23477304--23477484 Score: 301
Period size: 100 Copynumber: 1.8 Consensus size: 100
23477294 GCTTCTTAAT
23477304 TTAATAATAAGTTTGATTTA-AGGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATA
1 TTAATAATAAGTTTGATTTAGA-GTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATA
23477368 ATGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
65 ATGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
* * * * *
23477404 TTAATGATTAGTTTGATTTAGAGTTAATTTAGTCACTTTGAATATTTATTTAATAGAATAAATAA
1 TTAATAATAAGTTTGATTTAGAGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATAA
23477469 TGATTCTAAAATGAAG
66 TGATTCTAAAATGAAG
23477485 CTAAATTTAG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
100 74 0.99
101 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.43
Consensus pattern (100 bp):
TTAATAATAAGTTTGATTTAGAGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATAA
TGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
Found at i:23477638 original size:5 final size:5
Alignment explanation
Indices: 23477628--23477653 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23477618 TGAGCATTCG
23477628 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
23477654 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:23478439 original size:31 final size:30
Alignment explanation
Indices: 23478404--23478463 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
23478394 GGAGGTGGGA
*
23478404 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
23478435 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
23478464 TNNNNNNNNN
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:23479423 original size:9 final size:9
Alignment explanation
Indices: 23479409--23479445 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23479399 TATAGTTTGA
23479409 TATTCGAAT
1 TATTCGAAT
23479418 TATTCGAAT
1 TATTCGAAT
*
23479427 TATTCGAGT
1 TATTCGAAT
23479436 TATTCGAAT
1 TATTCGAAT
23479445 T
1 T
23479446 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23479515 original size:9 final size:9
Alignment explanation
Indices: 23479498--23479528 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23479488 TCGAGTTGAT
23479498 TCGAATAAC
1 TCGAATAAC
*
23479507 TCGATTAAC
1 TCGAATAAC
23479516 TCGAATAAC
1 TCGAATAAC
23479525 TCGA
1 TCGA
23479529 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:23479951 original size:13 final size:13
Alignment explanation
Indices: 23479933--23479957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23479923 AATTTGCTTG
23479933 TAATAATTTTTTT
1 TAATAATTTTTTT
23479946 TAATAATTTTTT
1 TAATAATTTTTT
23479958 GAGTAAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TAATAATTTTTTT
Found at i:23481823 original size:33 final size:32
Alignment explanation
Indices: 23481781--23482039 Score: 128
Period size: 33 Copynumber: 7.6 Consensus size: 32
23481771 AATATAGAGG
23481781 GGTTGCTAAGTGCTGATTCCCCTATTCATCGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCAT-GGT
* * *
23481814 GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CA--T----GGT
*
23481857 GGTTGCTAAGTGCTGATTTCCCC----GA-GG-
1 GGTTGCTAAGTGCTGA-TTCCCCTATTCATGGT
23481884 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCA-TGGT
* * *
23481917 GGTTGCTAAGTGCTGATCTCACCGTATTTTAAATGTGAAAGGG
1 GGTTGCTAAGTGCTGAT-TC-CCCTA--TT-CA--T----GGT
23481960 GGTTGCTAAGTGCTGATTCCCC----CGA-GG-
1 GGTTGCTAAGTGCTGATTCCCCTATTC-ATGGT
23481987 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCA-TGGT
23482020 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
23482040 ACCGCATCTG
Statistics
Matches: 177, Mismatches: 13, Indels: 72
0.68 0.05 0.27
Matches are distributed among these distances:
26 6 0.03
27 38 0.21
28 4 0.02
30 2 0.01
31 1 0.01
32 4 0.02
33 56 0.32
34 4 0.02
35 8 0.05
37 4 0.02
38 2 0.01
39 1 0.01
40 1 0.01
41 2 0.01
42 2 0.01
43 39 0.22
44 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.34
Consensus pattern (32 bp):
GGTTGCTAAGTGCTGATTCCCCTATTCATGGT
Found at i:23481892 original size:27 final size:26
Alignment explanation
Indices: 23481855--23481905 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
23481845 AATGTGAAAG
23481855 GGGGTTGCTAAGTGCTGATTTCCCCGA
1 GGGGTTGCTAAGTGCTGA-TTCCCCGA
23481882 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
23481906 TATTCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:23482108 original size:103 final size:103
Alignment explanation
Indices: 23481777--23482093 Score: 548
Period size: 103 Copynumber: 3.1 Consensus size: 103
23481767 ATTGAATATA
* *
23481777 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATCGGTGGTTGCTAAGTGCTGATCCCACCGTATT
1 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
23481842 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTTCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
23481880 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGA-TCTCACCGTAT
1 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTC-CACCGTAT
23481944 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
65 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
23481983 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
23482048 TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
*
23482085 AAGGGGTTG
1 GAGGGGTTG
23482094 ATGTGTGCCC
Statistics
Matches: 205, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
102 37 0.18
103 166 0.81
104 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (103 bp):
GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:23489133 original size:27 final size:26
Alignment explanation
Indices: 23489096--23489146 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
23489086 AATGTGAAAG
23489096 GGGGTTGCTAAGTGCTGATTTCCCCGA
1 GGGGTTGCTAAGTGCTGA-TTCCCCGA
23489123 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
23489147 TATTCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:23500261 original size:25 final size:27
Alignment explanation
Indices: 23500226--23500280 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
23500216 GAAAGTTAAA
* * *
23500226 TATACACGAATTAATTTATTCATT-TT
1 TATACACGAATAAATTAATTAATTCTT
23500252 TATA-ACGAATAAATTAATTAATTCTT
1 TATACACGAATAAATTAATTAATTCTT
23500278 TAT
1 TAT
23500281 CTTATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (27 bp):
TATACACGAATAAATTAATTAATTCTT
Found at i:23502388 original size:65 final size:65
Alignment explanation
Indices: 23502257--23502388 Score: 162
Period size: 65 Copynumber: 2.0 Consensus size: 65
23502247 CTCATTAGAA
* * *
23502257 AAGTTGGTGTTATTTTACCATTTTATGTTGTTTTTAAGTATGTTTCATTTTCTTGCATAAAGAAT
1 AAGTTGGTGTTATTTTACCATTTTATGTTGATTTTAAATATGTTTCATTTTCTTGCATAAAAAAT
** *
23502322 AAGTTGGTGTTATTTTGGCATATTTATGTT-ATTTTAAATATGTTT-ATTTTTTTG-ATTCAAAA
1 AAGTTGGTGTTATTTTACCAT-TTTATGTTGATTTTAAATATGTTTCATTTTCTTGCA-T-AAAA
23502384 AAT
63 AAT
23502387 AA
1 AA
23502389 AAAAGTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
63 1 0.02
64 9 0.16
65 40 0.69
66 8 0.14
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.52
Consensus pattern (65 bp):
AAGTTGGTGTTATTTTACCATTTTATGTTGATTTTAAATATGTTTCATTTTCTTGCATAAAAAAT
Found at i:23506953 original size:18 final size:18
Alignment explanation
Indices: 23506919--23506953 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23506909 TTCTTTCTCA
**
23506919 TTTTCAGCAACTTCTTCT
1 TTTTCAGCAACAACTTCT
23506937 TTTTCAGCAACAACTTC
1 TTTTCAGCAACAACTTC
23506954 CTCTTCTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTTCAGCAACAACTTCT
Found at i:23506965 original size:21 final size:21
Alignment explanation
Indices: 23506926--23506976 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
23506916 TCATTTTCAG
* * *
23506926 CAACTTCTTCTTTTTCAGCAA
1 CAACTTCCTCTTCTGCAGCAA
*
23506947 CAACTTCCTCTTCTGCAGCGA
1 CAACTTCCTCTTCTGCAGCAA
*
23506968 TAACTTCCT
1 CAACTTCCT
23506977 TCTTAACAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (21 bp):
CAACTTCCTCTTCTGCAGCAA
Found at i:23508188 original size:22 final size:22
Alignment explanation
Indices: 23508172--23508218 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
23508162 GAATGTGTTG
23508172 ACAGTAAGATTTCAATGCGTCA
1 ACAGTAAGATTTCAATGCGTCA
23508194 ACAGTAAGATTTCAATGCGTCA
1 ACAGTAAGATTTCAATGCGTCA
23508216 ACA
1 ACA
23508219 TTGGTACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (22 bp):
ACAGTAAGATTTCAATGCGTCA
Done.