Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000064.1 Hibiscus syriacus cultivar Beakdansim tig00000104_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70430
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Found at i:10895 original size:18 final size:18
Alignment explanation
Indices: 10872--10915 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
10862 TATTTTGGTG
10872 TCGATACTTAAGGGAGTA
1 TCGATACTTAAGGGAGTA
*
10890 TCGATATTTAAGGGAGTA
1 TCGATACTTAAGGGAGTA
10908 TCGATACT
1 TCGATACT
10916 ATGGTGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (18 bp):
TCGATACTTAAGGGAGTA
Found at i:16349 original size:29 final size:29
Alignment explanation
Indices: 16307--16364 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
16297 ATTAATGCTA
16307 ATTCTAATTTGTGTTTTGGACTTACCCAT
1 ATTCTAATTTGTGTTTTGGACTTACCCAT
*
16336 ATTCTACTTTGTGTTTTGGACTTACCCAT
1 ATTCTAATTTGTGTTTTGGACTTACCCAT
16365 GGTGCATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (29 bp):
ATTCTAATTTGTGTTTTGGACTTACCCAT
Found at i:20406 original size:41 final size:39
Alignment explanation
Indices: 20352--20485 Score: 99
Period size: 41 Copynumber: 3.6 Consensus size: 39
20342 ATAGTTGCGT
*
20352 TTTTTC-AATAAACGCCACTATAGATGGACCTATTGCGGCG
1 TTTTTCAAAAAAACGCCACTATAGAT-GA-CTATTGCGGCG
20392 TTTTTCAAAAAAACGCCA-T-T--AT---TATTGCGGC-
1 TTTTTCAAAAAAACGCCACTATAGATGACTATTGCGGCG
* * *
20423 TTTATT-GAAAAAACGCCATTATAGATTGATCTATTACGGCG
1 TTT-TTCAAAAAAACGCCACTATAGA-TGA-CTATTGCGGCG
* *
20464 TTTGTCAAAAACACGCCACTAT
1 TTTTTCAAAAAAACGCCACTAT
20486 TATTGTCCTG
Statistics
Matches: 74, Mismatches: 7, Indels: 25
0.70 0.07 0.24
Matches are distributed among these distances:
31 14 0.19
32 12 0.16
33 1 0.01
35 1 0.01
36 1 0.01
37 2 0.03
39 1 0.01
40 16 0.22
41 26 0.35
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (39 bp):
TTTTTCAAAAAAACGCCACTATAGATGACTATTGCGGCG
Found at i:20437 original size:31 final size:32
Alignment explanation
Indices: 20382--20444 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
20372 TAGATGGACC
20382 TATTGCGGCGTTTTTCAAAAAAACGCCATTAT
1 TATTGCGGCGTTTTTCAAAAAAACGCCATTAT
*
20414 TATTGCGGC-TTTATT-GAAAAAACGCCATTAT
1 TATTGCGGCGTTT-TTCAAAAAAACGCCATTAT
20445 AGATTGATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 18 0.62
32 11 0.38
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (32 bp):
TATTGCGGCGTTTTTCAAAAAAACGCCATTAT
Found at i:22952 original size:3 final size:3
Alignment explanation
Indices: 22944--23039 Score: 129
Period size: 3 Copynumber: 32.0 Consensus size: 3
22934 TATATATATT
* * * * *
22944 TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAT TTA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
22992 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23040 ATAAATCAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:22972 original size:21 final size:21
Alignment explanation
Indices: 22939--23039 Score: 145
Period size: 21 Copynumber: 4.9 Consensus size: 21
22929 ATATATATAT
22939 ATATTTAATAATAATAATAATA
1 ATATTT-ATAATAATAATAATA
22961 ATATTTATAATAATAATAATA
1 ATATTTATAATAATAATAATA
*
22982 ATATTTATAGTAATAATAATA
1 ATATTTATAATAATAATAATA
*
23003 ATA---ATAATAATAATAATT
1 ATATTTATAATAATAATAATA
*
23021 ATAATTATAATAATAATAA
1 ATATTTATAATAATAATAA
23040 ATAAATCAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.22
21 51 0.70
22 6 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (21 bp):
ATATTTATAATAATAATAATA
Found at i:23618 original size:113 final size:113
Alignment explanation
Indices: 23370--23936 Score: 845
Period size: 113 Copynumber: 5.0 Consensus size: 113
23360 ATAGAATTAT
* * *
23370 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
23435 ATTATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
*
23481 GGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
23546 CATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
*
23595 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
23660 ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
23708 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * * * **
23773 CTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAA
63 CTCATTATGAACT-TTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
* * * *
23824 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
23889 ATTATGAACTTTCTCTGGAAATG-TCAATCCATCAAATGATAGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGAT-GATCCATCAAATGATGGATTTGA
23937 ATCTTTGCTA
Statistics
Matches: 418, Mismatches: 29, Indels: 15
0.90 0.06 0.03
Matches are distributed among these distances:
112 73 0.17
113 239 0.57
114 5 0.01
116 99 0.24
117 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA
Found at i:23871 original size:229 final size:226
Alignment explanation
Indices: 23371--23936 Score: 879
Period size: 229 Copynumber: 2.5 Consensus size: 226
23361 TAGAATTATG
* *
23371 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
* * * *
23436 TTATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGATTTGAGGCAAAAGGTTGAACAAAT
*
23500 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGG
* ** *
23565 AAAAGATGATCCATCAAATGATGGATTTGAG
196 AAAAGATGATCCATCAAATGATGAATTCAAA
* *
23596 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
*
23661 TTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTTGA-GCAAAAGGTTGAACAAA
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGAT-GATTTGAGGCAAAAGGTTGAACAAA
23725 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TAC
* * *
23790 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
191 TCTGGAAAAGATGATCCATCAAATGATGAATTCAAA
23825 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
*
23890 TTATGAACTTTCTCTGGAAATG-TCAATCCATCAAATGATAGATTTGA
66 TTATGAACTTTCTCTGGAAAAGAT-AATCCATCAAATGAT-GATTTGA
23937 ATCTTTGCTA
Statistics
Matches: 312, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
225 69 0.22
226 81 0.26
227 5 0.02
228 1 0.00
229 154 0.49
230 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGATTTGAGGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGG
AAAAGATGATCCATCAAATGATGAATTCAAA
Found at i:24800 original size:83 final size:83
Alignment explanation
Indices: 24661--24969 Score: 530
Period size: 83 Copynumber: 3.7 Consensus size: 83
24651 GTAGTTCCTA
* *
24661 CCAAACCAGATCAGATAACTCAAAGATCACTTCCAGAAGATGCTATGAGCAAATTCATCTTTTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
* *
24726 ATCCAATGATTGGTTTTG
66 ATTCAATGATTGGTTCTG
24744 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
24809 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
24827 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATTG-GCAAATTCAACTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCTA
*
24891 AATTCAATGATCGGTTCTG
65 AATTCAATGATTGGTTCTG
*
24910 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCAAATTCATCT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCT
24970 ATTCCAGTTA
Statistics
Matches: 214, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
82 2 0.01
83 210 0.98
84 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
ATTCAATGATTGGTTCTG
Found at i:26129 original size:9 final size:8
Alignment explanation
Indices: 26112--26151 Score: 62
Period size: 9 Copynumber: 4.8 Consensus size: 8
26102 TTGACCCCCC
26112 TTTTTTCT
1 TTTTTTCT
26120 TTTTTCTCT
1 TTTTT-TCT
26129 TTTTTTCT
1 TTTTTTCT
26137 TTTTTCTCT
1 TTTTT-TCT
26146 TTTTTT
1 TTTTTT
26152 TTCTTCAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 14 0.47
9 16 0.53
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:26156 original size:10 final size:10
Alignment explanation
Indices: 26119--26156 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
26109 CCCTTTTTTC
*
26119 TTTTTTCTCT
1 TTTTTTCTTT
26129 TTTTTTC-TT
1 TTTTTTCTTT
*
26138 TTTTCTCTTT
1 TTTTTTCTTT
26148 TTTTTTCTT
1 TTTTTTCTT
26157 CAAGCATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:26156 original size:19 final size:17
Alignment explanation
Indices: 26112--26151 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
26102 TTGACCCCCC
26112 TTTTTTCTTTTTTCTCT
1 TTTTTTCTTTTTTCTCT
26129 TTTTTTCTTTTTTCTCT
1 TTTTTTCTTTTTTCTCT
26146 TTTTTT
1 TTTTTT
26152 TTCTTCAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTCT
Found at i:32456 original size:3 final size:3
Alignment explanation
Indices: 32448--32538 Score: 110
Period size: 3 Copynumber: 30.0 Consensus size: 3
32438 ATTGATTTAT
* * * * *
32448 TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA CTA TAAA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
32494 TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32539 AATATATATA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
3 72 0.99
4 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:34620 original size:24 final size:23
Alignment explanation
Indices: 34580--34629 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
34570 TTAATTTATA
*
34580 ATTTTTTTATATATATACATATT
1 ATTTTTATATATATATACATATT
* *
34603 ATTTTTATACTATTTATATATATT
1 ATTTTTATA-TATATATACATATT
34627 ATT
1 ATT
34630 AATATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTTTATATATATATACATATT
Found at i:41195 original size:16 final size:16
Alignment explanation
Indices: 41145--41185 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
41135 ACCGTTGGCT
41145 GAGGCGGCTGGAGGTA
1 GAGGCGGCTGGAGGTA
*
41161 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGTA
41177 GAGGCGGCT
1 GAGGCGGCT
41186 AGGGTTAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.56, T:0.10
Consensus pattern (16 bp):
GAGGCGGCTGGAGGTA
Found at i:41312 original size:3 final size:3
Alignment explanation
Indices: 41304--41382 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
41294 TATATATATT
* * *
41304 TAA TAA TAA TAA TAA TAA TAA TATT TTA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
41350 TTA TAG TAA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41383 ATAAATCAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
3 62 0.98
4 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:43927 original size:34 final size:34
Alignment explanation
Indices: 43882--43949 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
43872 AGAAGAATTA
*
43882 CTCACCATCACTATGTTCCAGTTCCAAATTCGTT
1 CTCACCATCACTATATTCCAGTTCCAAATTCGTT
* *
43916 CTCATCATCACTATATTCTAGTTCCAAATTCGTT
1 CTCACCATCACTATATTCCAGTTCCAAATTCGTT
43950 TACTAGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.38
Consensus pattern (34 bp):
CTCACCATCACTATATTCCAGTTCCAAATTCGTT
Found at i:46063 original size:34 final size:31
Alignment explanation
Indices: 46016--46081 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
46006 AACATTTACA
*
46016 TACTTCACAAAATCATCTCCATTAGAAGGCAAGT
1 TACTTCACAAAATCA---ACATTAGAAGGCAAGT
**
46050 TACTTCAGTAAATCAACATTAGAAGGCAAGT
1 TACTTCACAAAATCAACATTAGAAGGCAAGT
46081 T
1 T
46082 GAGAGTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 16 0.55
34 13 0.45
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (31 bp):
TACTTCACAAAATCAACATTAGAAGGCAAGT
Found at i:53227 original size:54 final size:52
Alignment explanation
Indices: 53142--54652 Score: 1157
Period size: 54 Copynumber: 27.8 Consensus size: 52
53132 AAACATGTGT
* * * *
53142 GCTCCCTATTCTTTCAGGGAGTGTAGGACTCGATCAATCTTCGATC-AACGGGTTT
1 GCTCCCTCTT-TTTCAGGGAGTATAGAACTCGAT-AATCTTC--TCAAACGGGTTC
*
53197 GCTCCC-CATTTTTCAGGGAGTATAGAACTCGGA-CATCTTCTTCAAACGGGTTC
1 GCTCCCTC-TTTTTCAGGGAGTATAGAACTC-GATAATCTTC-TCAAACGGGTTC
*
53250 GCTCCCTCTTTCTCTAGGGAGTAT-GAAACTCGA-ACATCTTCTTCAAACGGGTTC
1 GCTCCCTCTTTTTC-AGGGAGTATAG-AACTCGATA-ATCTTC-TCAAACGGGTTC
* * * *
53304 ACTCCCTCTTTCTCTAGGGAGTATGGAACTCGGA-CATCTTCTTCAAACGGGTTC
1 GCTCCCTCTTTTTC-AGGGAGTATAGAACTC-GATAATCTTC-TCAAACGGGTTC
* *
53358 GCTCCCTCTTTCTCTCAGGAAGTATAGAA--CGAATAATCTTCTGCAAACAGGTTC
1 GCTCCCTCTTT-T-TCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* *
53412 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTATAAACGGGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
*
53467 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* * * *
53522 ACTCCCTTTTTATTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAATCGGGTTC
1 GCTCCC-TCTT-TTTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* * ** * *
53578 TCTCCCTCTTCTTTCA-GGAGTATGGAACTCGAATAATCTTCTTCTTACGAGTCC
1 GCTCCCTCTT-TTTCAGGGAGTATAGAACTCG-ATAATCTTC-TCAAACGGGTTC
* * * * *
53632 GCTCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACATATTCTGTAAACGAGTTC
1 GCTCCCTCTTTTTC-AGGGAGTATAGAACTCGATA-ATCTTCT-CAAACGGGTTC
* *
53686 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAATAATCTTCTGCAAAC-GGTTC
1 GCTCCCTC-TT-TTTCAGGGAGTATAGAACTC-GATAATCTTCT-CAAACGGGTTC
* * * * * *
53741 ACTCTCTCTTTCTTTAGGGAGTATAGAACTCAAATAATCTTTTGCAAACGAGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTC-GATAATCTTCT-CAAACGGGTTC
* * * *
53796 ACTCCCTCTTTCTTTCAGGAAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTT
1 GCTCCCTC-TT-TTTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* * **
53852 TCTCCCTCTTTCTTTCA--GAGTATGGAACTCGAATAATCTTCTTCTTAC-GGTTC
1 GCTCCCTC-TT-TTTCAGGGAGTATAGAACTCG-ATAATCTTC-TCAAACGGGTTC
* * *
53905 GCTCCCTCTTTCTCTAGGGAGTAT-GAAACTTGA-ATATCTTCTGTAAACGGGTTC
1 GCTCCCTCTTTTTC-AGGGAGTATAG-AACTCGATA-ATCTTCT-CAAACGGGTTC
*
53959 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTACAAACGGGTTC
1 GCTCCCTC-TT-TTTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* *
54015 GCTCCCTCTTTCTTTA-GGAGTATAGAACTCGAATAATCTTCTGCAAACGAGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* * * *
54069 TCTCCCTCTTTCTCTAGGGAGTATAGAACTCGA-ACATCTTCTGTAAATGGGTTC
1 GCTCCCTCTTTTTC-AGGGAGTATAGAACTCGATA-ATCTTCT-CAAACGGGTTC
*
54123 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
1 GCTCCCTC-TT-TTTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* * * *
54179 GCTCCCTCTTTCTTTAGGGAGTA-ACAACTCGAACAATCTTCTGCAAACGAGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* * * * * * *
54233 GCTCTCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTATGAAAATGGGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* * * * *
54288 GTTCTCTCTTTCTTCAGGGAGTATAGAACTTGAATAATC-TCTGCCAATGGGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
*
54342 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGA-ACATCTTCTTCAAACGGGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCGATA-ATCTTC-TCAAACGGGTTC
* * * * *
54396 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCAAAAATCTTCTGAAAACGAGTTC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCGATAATCTTCT-CAAACGGGTTC
* * *
54450 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGA-ACATCTTCAACAATCGTG-TC
1 GCTCCCTCTTT-TTCAGGGAGTATAGAACTCGATA-ATCTTC-TCAAACGGGTTC
* * *
54503 TGCTCCCTATTCCTTCAGAGAGTAT-GAGACTCGA-ACATCTTCTTCAAACGGGTTC
1 -GCTCCCTCTT-TTTCAGGGAGTATAGA-ACTCGATA-ATCTTC-TCAAACGGGTTC
* * * * * * *
54558 GCTCCTTCTTTTTTTAAGGAGTATGGAACTCGAATAATTTTTTACAAATGGGTTC
1 GCTCCCTC-TTTTTCAGGGAGTATAGAACTCG-ATAATCTTCT-CAAACGGGTTC
* *
54613 GCTCCCTCTTTTTAAGGGAGTATAGAATTCGA-ACATCTTC
1 GCTCCCTCTTTTTCAGGGAGTATAGAACTCGATA-ATCTTC
54653 ATTTGCTTCA
Statistics
Matches: 1227, Mismatches: 157, Indels: 146
0.80 0.10 0.10
Matches are distributed among these distances:
51 3 0.00
52 10 0.01
53 88 0.07
54 624 0.51
55 319 0.26
56 178 0.15
57 5 0.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (52 bp):
GCTCCCTCTTTTTCAGGGAGTATAGAACTCGATAATCTTCTCAAACGGGTTC
Found at i:53781 original size:164 final size:166
Alignment explanation
Indices: 53142--54645 Score: 1640
Period size: 164 Copynumber: 9.2 Consensus size: 166
53132 AAACATGTGT
* * * *
53142 GCTCCCT-ATTCTTTCAGGGAGTGTAGGACTCG-ATCAATCTTC-G-ATCAACGGGTTTGCTCCC
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAAT-AATCTTCTGCA--AACGGGTTCGCTCCC
* * * * * *
53203 -CATT-TTTCAGGGAGTATAGAACTCGGA-CATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT
63 TCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
*
53265 AGGGAGTAT-GAAACTCGAA-CATCTTCTTCAAACGGGTTC
128 AGGGAGTATAG-AACTCGAATAATCTTCTT-AAACGGGTTC
* * * * * *
53304 ACTCCCTCTTTCTCT-AGGGAGTATGGAACTCGGA-CATCTTCTTCAAACGGGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
* *
53367 TTCTCTCAGGAAGTATAGAA--CGAATAATCTTCTGCAAACAGGTTCGCTCCCTCTTTCTTTAGG
66 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGG
53430 GAGTATAGAACTCGAATAATCTTCTATAAACGGGTTC
131 GAGTATAGAACTCGAATAATCTTCT-TAAACGGGTTC
* *
53467 GCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTTT
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
* * *
53531 TTATTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAATCGGGTTCTCTCCCTC-TTCTTTCA-
66 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT-AG
* ** * *
53594 GGAGTATGGAACTCGAATAATCTTCTTCTTACGAGTCC
130 GGAGTATAGAACTCGAATAATCTTCTT-AAACGGGTTC
* * * * * *
53632 GCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAA-CATATTCTGTAAACGAGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
* * *
53695 TTCTTTCAGGAAGTATAGAACTCAAATAATCTTCTGCAAAC-GGTTCACTCTCTCTTTCTTTAGG
66 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGG
* *
53759 GAGTATAGAACTCAAATAATCTT-TTGCAAACGAGTTC
131 GAGTATAGAACTCGAATAATCTTCTT--AAACGGGTTC
* * * **
53796 ACTCCCTCTTTCTTTCAGGAAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTTTCTCCCTCT
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
* * ** *
53861 TTCTTTCA-G-AGTATGGAACTCGAATAATCTTCTTCTTAC-GGTTCGCTCCCTCTTTCTCTAGG
66 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGG
*
53923 GAGTAT-GAAACTTGAAT-ATCTTCTGTAAACGGGTTC
131 GAGTATAG-AACTCGAATAATCTTCT-TAAACGGGTTC
* *
53959 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
* * *
54024 TTCTTT-AGG-AGTATAGAACTCGAATAATCTTCTGCAAACGAGTTCTCTCCCTCTTTCTCTAGG
66 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGG
* *
54087 GAGTATAGAACTCGAA-CATCTTCTGTAAATGGGTTC
131 GAGTATAGAACTCGAATAATCTTCT-TAAACGGGTTC
*
54123 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
* * * * *
54188 TTCTTT-AGGGAGTA-ACAACTCGAACAATCTTCTGCAAACGAGTTCGCTCTCTCTTTCTTTAGG
66 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGG
* * * * *
54251 GAGTATGGAACTCGAACAATCTTATGAAAATGGGTTC
131 GAGTATAGAACTCGAATAATCTTCT-TAAACGGGTTC
* * * * *
54288 GTTCTCTCTTTC-TTCAGGGAGTATAGAACTTGAATAATC-TCTGCCAATGGGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
* * *
54351 TTCTTT-AGGGAGTATAGAACTCGAA-CATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGG
66 TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGG
* * *
54414 GAGTATAGAACTC-AAAAATCTTCTGAAAACGAGTTC
131 GAGTATAGAACTCGAATAATCTTCT-TAAACGGGTTC
* ** * *
54450 GCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAA-CATCTTCAACAATCGTG-TCTGCTCCCT-
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC-GCTCCCTC
* * * * * *
54511 ATTCCTTCA-GAGAGTAT-GAGACTCGAA-CATCTTCTTCAAACGGGTTCGCTCCTTCTTTTTTT
65 TTTCTTTCAGGA-AGTATAGA-ACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* * * *
54573 AAGGAGTATGGAACTCGAATAAT-TTTTTACAAATGGGTTC
128 AGGGAGTATAGAACTCGAATAATCTTCTT--AAACGGGTTC
* *
54613 GCTCCCTC-TT-TTTAAGGGAGTATAGAATTCGAA
1 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAA
54646 CATCTTCATT
Statistics
Matches: 1164, Mismatches: 139, Indels: 78
0.84 0.10 0.06
Matches are distributed among these distances:
161 36 0.03
162 220 0.19
163 295 0.25
164 432 0.37
165 119 0.10
166 62 0.05
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (166 bp):
GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCT
TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGG
GAGTATAGAACTCGAATAATCTTCTTAAACGGGTTC
Found at i:53991 original size:437 final size:437
Alignment explanation
Indices: 53142--54651 Score: 1761
Period size: 437 Copynumber: 3.5 Consensus size: 437
53132 AAACATGTGT
* * * * * **
53142 GCTCCCTATTCTTTCAGGGAGTGTAGGACTCG-ATCAATCTTCGATCAACGGGTTTGCTCCC-CA
1 GCTCCCTCTTCTTTCA-GGAGTATAGAACTCGAAT-AATCTTCTA-CAACGAGTCCGCTCCCTC-
* * *
53205 TTTTTC-AGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGG
62 TTTCTCTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGG
* * * * *
53268 GAGTAT-GAAACTCGAA-CATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGA
127 AAGTATAG-AACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTTTAGGGAGTATAGA
* * * *
53331 ACTCGGACATCTTCTT-CAAACGGGTTCGCTCCCTCTTTCTCTCAGGAAGTATAGAA--CGAATA
191 ACTCGAAAATCTT-TTGCAAACGAGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATA
* **
53393 ATCTTCTGCAAACAGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAATAATCTTCTAT
255 ATCTTCTGCAAACGGGTTTTCTCCCTCTTTCTTTCA-GGAGTATAGAACTCGAATAATCTTCT-T
*
53457 -AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTT
318 CAAAC-GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAT-ATCTTCTGTAAACGGGTT
* * * *
53521 CACTCCCTTTTTATTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAATCGGGTTC
381 CGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
* * * *
53578 TCTCCCTCTTCTTTCAGGAGTATGGAACTCGAATAATCTTCTTCTTACGAGTCCGCTCCCTCTTT
1 GCTCCCTCTTCTTTCAGGAGTATAGAACTCGAATAATCTTCTAC-AACGAGTCCGCTCCCTCTTT
* * *
53643 CTCTAGGGAGTATGGAACTCGAACATATTCTGT-AAACGAGTTCGCTCCCTCTTTCTTTCAGGAA
65 CTCTAGGGAGTATAGAACTCGAACATCTTCT-TCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAA
* *
53707 GTATAGAACTCAAATAATCTTCTGCAAAC-GGTTCACTCTCTCTTTCTTTAGGGAGTATAGAACT
129 GTATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTTTAGGGAGTATAGAACT
* * *
53771 CAAATAATCTTTTGCAAACGAGTTCACTCCCTCTTTCTTTCAGGAAGTATAAAACTCGAATAATC
194 CGAA-AATCTTTTGCAAACGAGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATC
* **
53836 TTCTGCAAACGGGTTTTCTCCCTCTTTCTTTCA-GAGTATGGAACTCGAATAATCTTCTTCTTAC
258 TTCTGCAAACGGGTTTTCTCCCTCTTTCTTTCAGGAGTATAGAACTCGAATAATCTTCTTCAAAC
* *
53900 GGTTCGCTCCCTCTTTCTCTAGGGAGTAT-GAAACTTGAATATCTTCTGTAAACGGGTTCGCTCC
323 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAG-AACTCGAATATCTTCTGTAAACGGGTTCGCTCC
*
53964 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTACAAACGGGTTC
387 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
* * *
54015 GCTCCCTCTTTCTTT-AGGAGTATAGAACTCGAATAATCTTCTGCAAACGAGTTCTCTCCCTCTT
1 GCTCCCTC-TTCTTTCAGGAGTATAGAACTCGAATAATCTTCTAC-AACGAGTCCGCTCCCTCTT
*
54079 TCTCTAGGGAGTATAGAACTCGAACATCTTCTGT-AAATGGGTTCGCTCCCTCTTTCTTTCAGGA
64 TCTCTAGGGAGTATAGAACTCGAACATCTTCT-TCAAACGGGTTCGCTCCCTCTTTCTTTCAGGA
* *
54143 AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-ACAAC
128 AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTTTAGGGAGTATAGAAC
* * * * *
54207 TCGAACAATCTTCTGCAAACGAGTTCGCTCTCTCTTTCTTT-AGGGAGTATGGAACTCGAACAAT
193 TCGAA-AATCTTTTGCAAACGAGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAAT
* * * * *
54271 CTTATGAAAATGGGTTCGTTCT--CTCTTTC-TTCAGGGAGTATAGAACTTGAATAATC-TCTGC
257 CTTCTGCAAACGGGTT--TTCTCCCTCTTTCTTTCA-GGAGTATAGAACTCGAATAATCTTCT-T
** *
54332 CAATGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCT-TCAAACGGGTTC
318 CAAACGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATATCTTCTGT-AAACGGGTTC
* * * *
54396 GCTCCCTCTTTCTTT-AGGGAGTATAGAACTC-AAAAATCTTCTGAAAACGAGTTC
382 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
* * * * *
54450 GCTCCCTCTT-TCTTCAGGGAGTATAGAACTCGAA-CATCTTCAACAATCGTGTCTGCTCCCTAT
1 GCTCCCTCTTCT-TTCA-GGAGTATAGAACTCGAATAATCTTCTACAA-CGAGTCCGCTCCCTCT
* * * * *
54513 TCCT-TCAGAGAGTAT-GAGACTCGAACATCTTCTTCAAACGGGTTCGCTCCTTCTTTTTTTAAG
63 TTCTCT-AGGGAGTATAGA-ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTCAG
* * * * * * *
54576 G-AGTATGGAACTCGAATAATTTTTTACAAATGGGTTCGCTCCCTCTTT-TTAAGGGAGTATAGA
126 GAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTTTAGGGAGTATAGA
* *
54639 ATTCGAACATCTT
191 ACTCGAAAATCTT
54652 CATTTGCTTC
Statistics
Matches: 932, Mismatches: 110, Indels: 67
0.84 0.10 0.06
Matches are distributed among these distances:
433 16 0.02
434 61 0.07
435 136 0.15
436 139 0.15
437 388 0.42
438 128 0.14
439 26 0.03
440 37 0.04
441 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (437 bp):
GCTCCCTCTTCTTTCAGGAGTATAGAACTCGAATAATCTTCTACAACGAGTCCGCTCCCTCTTTC
TCTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGT
ATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTTCTTTAGGGAGTATAGAACTCG
AAAATCTTTTGCAAACGAGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTC
TGCAAACGGGTTTTCTCCCTCTTTCTTTCAGGAGTATAGAACTCGAATAATCTTCTTCAAACGGT
TCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATATCTTCTGTAAACGGGTTCGCTCCCTCT
TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
Found at i:55061 original size:37 final size:37
Alignment explanation
Indices: 55004--55158 Score: 215
Period size: 37 Copynumber: 4.2 Consensus size: 37
54994 ACACTCTTCC
* * *
55004 GCTTAAAAT-GATTTGCTTCACTACTCTTCAGTGACG
1 GCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAG
**
55040 GCTTAAGATGGATTTATTTCACTACTCTTCGGTGAAG
1 GCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAG
* * **
55077 GCTTAGGATAGA-CCGCTTCACTACTCTTCGGTGAAG
1 GCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAG
55113 GCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAG
1 GCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAG
55150 GCTTAAGAT
1 GCTTAAGAT
55159 TGACTTTTCC
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
36 38 0.37
37 64 0.63
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (37 bp):
GCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAG
Found at i:55123 original size:73 final size:73
Alignment explanation
Indices: 55018--55154 Score: 238
Period size: 73 Copynumber: 1.9 Consensus size: 73
55008 AAAATGATTT
* *
55018 GCTTCACTACTCTTCAGTGACGGCTTAAGATGGATTTATTTCACTACTCTTCGGTGAAGGCTTAG
1 GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAG
55083 GATAGACC
66 GATAGACC
* *
55091 GCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
55155 AGATTGACTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (73 bp):
GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTAG
GATAGACC
Found at i:56143 original size:81 final size:81
Alignment explanation
Indices: 56029--56911 Score: 829
Period size: 81 Copynumber: 10.9 Consensus size: 81
56019 TTTCAACCTC
* * * * * * *
56029 GATATGTTCCTCTTTTTCGGGTAGGCATATCAACTATGAAAGACATCTCTTCTCCACTAGTCATT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
* * *
56094 TAGGGAAATCAGACTT
66 CAGGGAGATAAGACTT
* * * * ** * *
56110 GATCTATGCCTCTTTTTTGGGTAGACATATCAACTTTGGAAGATGTATCTGCTCCAGTATTCATT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
* * *
56175 CAAGGG-TATAAGAGTC
66 C-AGGGAGATAAGACTT
* * * * *
56191 GATCTGTGCCTCTTCTTT-GGGTAGACAGATCAACTTTGGAAGATATATCTACTCCACTATTTAT
1 GATATGTGCCTCTT-TTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCAT
* *
56255 TTAGGGATATAAGACTT
65 TCAGGGAGATAAGACTT
* * * * * * *
56272 GATTTGTGCCTCTTTTTCGGGTAGACATATCAAATTTGGAGGACGTGTATGCTCCACTATTCATT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
* * *
56337 CAGAGAGACAAGACTC
66 CAGGGAGATAAGACTT
* * * * ** * * * *
56353 GATCTGTGCCTCTTTTTCTGGTAGATAGATCAACATTAAAAGACGTTTATGCTCTACTATTCATT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
* *
56418 CAGGTAGATAAAACTT
66 CAGGGAGATAAGACTT
* * *
56434 GATATGTGCCT-TTTCTTAGGGTAGACAGATCAAATTTGGAAGACATCTCTGCTCTACTATTCAT
1 GATATGTGCCTCTTT-TTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCAT
56498 TCAGGGAGATAAGACTT
65 TCAGGGAGATAAGACTT
* * ** * *
56515 GATATGTTCCTCTTCTTCGGGTAGACAGATCAACTTTGGAAGATGTGTCTGCTCCACTATTGATT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
* *
56580 CAGGGAGACAAGACTC
66 CAGGGAGATAAGACTT
* * * * ** *
56596 GATCTGTGCCTCTTTTTCGAGTAGATAGATCAACTATGGAAGACATC-CTTTATTCACTATTCAT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTC-TGCTCCACTATTCAT
* * *
56660 TTAGGGAAATCAGACTT
65 TCAGGGAGATAAGACTT
* *
56677 GATATGTGCCTCTTTTTCGGGTAGACATATCAACTTTGGAAGACATCTCTGCTCCACTATTCAGT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
* *
56742 CAGGGAGATGAGACTC
66 CAGGGAGATAAGACTT
* * * * * * *
56758 GATATGTGCCTCTTCTTCGAGTAGACAGATCAACTTTGGAAGATATCTATACTCTATTATTCATT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
* * * *
56823 AAGGGACACAAGACTC
66 CAGGGAGATAAGACTT
* * * * * * ** * *
56839 GATCTGTGTCTCCTTTTCAGGTAGATAGATCAACTTTGGAGGATGTGTCTTCTCCACTATTCATT
1 GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
*
56904 TAGGGAGA
66 CAGGGAGA
56912 GGGTAACGAT
Statistics
Matches: 652, Mismatches: 142, Indels: 16
0.80 0.18 0.02
Matches are distributed among these distances:
80 11 0.02
81 631 0.97
82 10 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (81 bp):
GATATGTGCCTCTTTTTCGGGTAGACAGATCAACTTTGGAAGACATCTCTGCTCCACTATTCATT
CAGGGAGATAAGACTT
Found at i:56899 original size:243 final size:240
Alignment explanation
Indices: 56026--56909 Score: 919
Period size: 243 Copynumber: 3.6 Consensus size: 240
56016 CATTTTCAAC
* * * * * * * * *
56026 CTCGATATGTTCCTCTTTTTCGGGTAGGCATATCAACTATGAAAGACATCTCTTCTCCACTAGTC
1 CTCGATATGTGCCTCTTCTTCGGGTAGACAGATCAACTTTGGAAGACATCTATGCTCCACTATTC
* * * * * * * *
56091 ATTTAGGGAAATC-AGACTTGATCTATGCCTCTTTTTTGGGTAGACATATCAACTTTGGAAGATG
66 ATTCAGGGAGA-CAAGACTCGATCTGTGCCTC-TTTTTCGGTAGATAGATCAACTTTGGAAGACG
* * * * * *
56155 TATCTGCTCCAGTATTCATTCAAGGG-TATAAGAGTCGATCTGTGCCTCTTCTTTGGGTAGACAG
129 T-TCTGCTCCACTATTCATT-TAGGGAAATAAGACTTGATATGTGCCTCTT-TTTGGGTAGACAG
* * * * * *
56219 ATCAACTTTGGAAGATATATCTACTCCACTATTTATTTAGGGATATAAGA
191 ATCAACTTTGGAAGACATCTCTGCTCCACTATTCATTCAGGGAGATAAGA
* * * * * * * *
56269 CTTGATTTGTGCCTCTTTTTCGGGTAGACATATCAAATTTGGAGGACGTGTATGCTCCACTATTC
1 CTCGATATGTGCCTCTTCTTCGGGTAGACAGATCAACTTTGGAAGACATCTATGCTCCACTATTC
* * **
56334 ATTCAGAGAGACAAGACTCGATCTGTGCCTCTTTTTCTGGTAGATAGATCAACATTAAAAGACGT
66 ATTCAGGGAGACAAGACTCGATCTGTGCCTCTTTTTC-GGTAGATAGATCAACTTTGGAAGACG-
* * * * * *
56399 TTATGCTCTACTATTCATTCAGGTAGATAAAACTTGATATGTGCCT-TTTCTTAGGGTAGACAGA
129 TTCTGCTCCACTATTCATTTAGGGAAATAAGACTTGATATGTGCCTCTTT-TT-GGGTAGACAGA
* *
56463 TCAAATTTGGAAGACATCTCTGCTCTACTATTCATTCAGGGAGATAAGA
192 TCAACTTTGGAAGACATCTCTGCTCCACTATTCATTCAGGGAGATAAGA
* * ** * * *
56512 CTTGATATGTTCCTCTTCTTCGGGTAGACAGATCAACTTTGGAAGATGTGTCTGCTCCACTATTG
1 CTCGATATGTGCCTCTTCTTCGGGTAGACAGATCAACTTTGGAAGACATCTATGCTCCACTATTC
* *
56577 ATTCAGGGAGACAAGACTCGATCTGTGCCTCTTTTTCGAGTAGATAGATCAACTATGGAAGACAT
66 ATTCAGGGAGACAAGACTCGATCTGTGCCTCTTTTTCG-GTAGATAGATCAACTTTGGAAGACGT
* ** * * *
56642 CCTTTATTCACTATTCATTTAGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACATAT
130 TC-TGCTCCACTATTCATTTAGGGAAATAAGACTTGATATGTGCCTCTTTTT-GGGTAGACAGAT
* *
56707 CAACTTTGGAAGACATCTCTGCTCCACTATTCAGTCAGGGAGATGAGA
193 CAACTTTGGAAGACATCTCTGCTCCACTATTCATTCAGGGAGATAAGA
* * * * *
56755 CTCGATATGTGCCTCTTCTTCGAGTAGACAGATCAACTTTGGAAGATATCTATACTCTATTATTC
1 CTCGATATGTGCCTCTTCTTCGGGTAGACAGATCAACTTTGGAAGACATCTATGCTCCACTATTC
* * * * * *
56820 ATTAAGGGACACAAGACTCGATCTGTGTCTCCTTTTCAGGTAGATAGATCAACTTTGGAGGATGT
66 ATTCAGGGAGACAAGACTCGATCTGTGCCTCTTTTTC-GGTAGATAGATCAACTTTGGAAGACGT
*
56885 GTCTTCTCCACTATTCATTTAGGGA
130 -TCTGCTCCACTATTCATTTAGGGA
56910 GAGGGTAACG
Statistics
Matches: 534, Mismatches: 96, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
241 1 0.00
242 15 0.03
243 512 0.96
244 6 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (240 bp):
CTCGATATGTGCCTCTTCTTCGGGTAGACAGATCAACTTTGGAAGACATCTATGCTCCACTATTC
ATTCAGGGAGACAAGACTCGATCTGTGCCTCTTTTTCGGTAGATAGATCAACTTTGGAAGACGTT
CTGCTCCACTATTCATTTAGGGAAATAAGACTTGATATGTGCCTCTTTTTGGGTAGACAGATCAA
CTTTGGAAGACATCTCTGCTCCACTATTCATTCAGGGAGATAAGA
Found at i:57156 original size:81 final size:81
Alignment explanation
Indices: 56943--57529 Score: 552
Period size: 81 Copynumber: 7.3 Consensus size: 81
56933 ATGTTTCAGT
* * * * * * * * * *
56943 TCCACTATTCATTCAGGTAGACATGACTCAATTTGTGCATCTTTTTTGGTTAGACAAATCAACTT
1 TCCACTATTCATTTAGGGAGATAAGACTCGATCTGTGCCTCTTTTTCGGGTAGACATATCAACTT
** * *
57008 TGGAAGATGTGTCTAC
66 TGGAAGACATCTCTGC
* * * * * **
57024 T-CAGTGTTCATTCAGGGATACAAGACTCGATCTGTGCCTCTTTTTCGGGTAGTTATATCAACTT
1 TCCACTATTCATTTAGGGAGATAAGACTCGATCTGTGCCTCTTTTTCGGGTAGACATATCAACTT
*
57088 TGGAAGACGTCTCTGC
66 TGGAAGACATCTCTGC
* * * * * *
57104 TCCACTATTTATTTAGGGAGATGAGACTCAATCTATGCCTCTTCTTCAGGTAGACATATCAACTT
1 TCCACTATTCATTTAGGGAGATAAGACTCGATCTGTGCCTCTTTTTCGGGTAGACATATCAACTT
** *
57169 TGGAAGATGTGTCTGC
66 TGGAAGACATCTCTGC
* * * * * * *
57185 TCCACTATTGATTCAGGGAGATAAGACTCGATTTGTGCCTCTTTTTCGAGTAGATAGATCAACTA
1 TCCACTATTCATTTAGGGAGATAAGACTCGATCTGTGCCTCTTTTTCGGGTAGACATATCAACTT
*
57250 TGGAAGATATC-CTTGC
66 TGGAAGACATCTC-TGC
* * * * *
57266 TCCAATATTTATTTAGGGAAATCAA-ACTTGATATGTGCCTCTTTTTCGGGTAGACATATCAACT
1 TCCACTATTCATTTAGGGAGAT-AAGACTCGATCTGTGCCTCTTTTTCGGGTAGACATATCAACT
57330 TTGGAAGACATCTCTGC
65 TTGGAAGACATCTCTGC
* * * *
57347 TCCACTATTCAGTCAGGGAGATGAGACTCGATATGTGCCTCTTCTTT-GGGTAGACATATCAACT
1 TCCACTATTCATTTAGGGAGATAAGACTCGATCTGTGCCTCTT-TTTCGGGTAGACATATCAACT
* * *
57411 TTGTAAGATATCTCTAC
65 TTGGAAGACATCTCTGC
* * * * ** * *
57428 TCCATTATTCATTAAGGGACACAAGACTCGATCTGTGCCTCTTTTTTAGGTAGATAGATCAACTT
1 TCCACTATTCATTTAGGGAGATAAGACTCGATCTGTGCCTCTTTTTCGGGTAGACATATCAACTT
* * * *
57493 TGGAGGACGTGTCTTC
66 TGGAAGACATCTCTGC
57509 TCCACTATTCATTTAGGGAGA
1 TCCACTATTCATTTAGGGAGA
57530 GGGTAGACGA
Statistics
Matches: 414, Mismatches: 85, Indels: 14
0.81 0.17 0.03
Matches are distributed among these distances:
80 69 0.17
81 339 0.82
82 6 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
TCCACTATTCATTTAGGGAGATAAGACTCGATCTGTGCCTCTTTTTCGGGTAGACATATCAACTT
TGGAAGACATCTCTGC
Found at i:57256 original size:162 final size:162
Alignment explanation
Indices: 56967--57529 Score: 623
Period size: 162 Copynumber: 3.5 Consensus size: 162
56957 AGGTAGACAT
* * * * * * * * *
56967 GACTCAATTTGTGCATCTTTTT-TGGTTAGACAAATCAACTTTGGAAGATGTGTCTACT-CAGTG
1 GACTCGATCTGTGCCTCTTTTTCAGG-TAGACATATCAACTTTGGAAGACGTGTCTGCTCCACTA
* * * *
57030 TTCATTCAGGGATACAAGACTCGATCTGTGCCTCTTTTTCGGGTAGTTATATCAACTTTGGAAGA
65 TTCATTCAGGGAGATAAGACTCGATATGTGCCTCTTTTTCGGGTAGATATATCAACTTTGGAAGA
** * * *
57095 CGTCTCTGCTCCACTATTTATTTAGGGAGATGA
130 TATCTCTGCTCCAATATTTATTTAGGGAAATAA
* * * *
57128 GACTCAATCTATGCCTCTTCTTCAGGTAGACATATCAACTTTGGAAGATGTGTCTGCTCCACTAT
1 GACTCGATCTGTGCCTCTTTTTCAGGTAGACATATCAACTTTGGAAGACGTGTCTGCTCCACTAT
* * * * *
57193 TGATTCAGGGAGATAAGACTCGATTTGTGCCTCTTTTTCGAGTAGATAGATCAACTATGGAAGAT
66 TCATTCAGGGAGATAAGACTCGATATGTGCCTCTTTTTCGGGTAGATATATCAACTTTGGAAGAT
57258 ATC-CTTGCTCCAATATTTATTTAGGGAAATCAA
131 ATCTC-TGCTCCAATATTTATTTAGGGAAAT-AA
* * * * *
57291 -ACTTGATATGTGCCTCTTTTTCGGGTAGACATATCAACTTTGGAAGACATCTCTGCTCCACTAT
1 GACTCGATCTGTGCCTCTTTTTCAGGTAGACATATCAACTTTGGAAGACGTGTCTGCTCCACTAT
* * * *
57355 TCAGTCAGGGAGATGAGACTCGATATGTGCCTCTTCTTT-GGGTAGACATATCAACTTTGTAAGA
66 TCATTCAGGGAGATAAGACTCGATATGTGCCTCTT-TTTCGGGTAGATATATCAACTTTGGAAGA
* * * * * *
57419 TATCTCTACTCCATTATTCATTAAGGGACACAA
130 TATCTCTGCTCCAATATTTATTTAGGGAAATAA
* * * * *
57452 GACTCGATCTGTGCCTCTTTTTTAGGTAGATAGATCAACTTTGGAGGACGTGTCTTCTCCACTAT
1 GACTCGATCTGTGCCTCTTTTTCAGGTAGACATATCAACTTTGGAAGACGTGTCTGCTCCACTAT
*
57517 TCATTTAGGGAGA
66 TCATTCAGGGAGA
57530 GGGTAGACGA
Statistics
Matches: 337, Mismatches: 58, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
161 51 0.15
162 281 0.83
163 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (162 bp):
GACTCGATCTGTGCCTCTTTTTCAGGTAGACATATCAACTTTGGAAGACGTGTCTGCTCCACTAT
TCATTCAGGGAGATAAGACTCGATATGTGCCTCTTTTTCGGGTAGATATATCAACTTTGGAAGAT
ATCTCTGCTCCAATATTTATTTAGGGAAATAA
Found at i:57525 original size:243 final size:241
Alignment explanation
Indices: 56943--57527 Score: 717
Period size: 243 Copynumber: 2.4 Consensus size: 241
56933 ATGTTTCAGT
* * * * * *
56943 TCCACTATTCATTCAGGTAGACATGACTCAATTTGTGCATCTTTTTTGGTTAGACAAATCAACTT
1 TCCACTATTCATTCAGGGAGACAAGACTCGATTTGTGCCTCTTTTTTGG-TAGATAGATCAACTT
* * * * * *
57008 TGGAAGATGTGTCTACT-CAGTGTTCATTCAGGGATACAAGACTCGATCTGTGCCTCTTTTTCGG
65 TGGAAGA-GTGTCTTCTCCAATATTCATTTAGGGAAACAAGACTCGATATGTGCCTCTTTTTCGG
** * * * * *
57072 GTAGTTATATCAACTTTGGAAGACGTCTCTGCTCCACTATTTATTTAGGGAGATGAGACTCAATC
129 GTAGACATATCAACTTTGGAAGACATCTCTGCTCCACTATTCAGTCAGGGAGATGAGACTCAATA
* * *
57137 TATGCCTCTTCTTCAGGTAGACATATCAACTTTGGAAGATGTGTCTGC
194 TATGCCTCTTCTTCAGGTAGACATATCAACTTTGGAAGATATCTCTAC
* * * *
57185 TCCACTATTGATTCAGGGAGATAAGACTCGATTTGTGCCTCTTTTTCGAGTAGATAGATCAACTA
1 TCCACTATTCATTCAGGGAGACAAGACTCGATTTGTGCCTCTTTTTTG-GTAGATAGATCAACTT
* * *
57250 TGGAAGA-TATCCTTGCTCCAATATTTATTTAGGGAAATCAA-ACTTGATATGTGCCTCTTTTTC
65 TGGAAGAGTGT-CTT-CTCCAATATTCATTTAGGGAAA-CAAGACTCGATATGTGCCTCTTTTTC
*
57313 GGGTAGACATATCAACTTTGGAAGACATCTCTGCTCCACTATTCAGTCAGGGAGATGAGACTCGA
127 GGGTAGACATATCAACTTTGGAAGACATCTCTGCTCCACTATTCAGTCAGGGAGATGAGACTCAA
* ** *
57378 TATGTGCCTCTTCTTTGGGTAGACATATCAACTTTGTAAGATATCTCTAC
192 TATATGCCTCTTCTTCAGGTAGACATATCAACTTTGGAAGATATCTCTAC
* * * *
57428 TCCATTATTCATTAAGGGACACAAGACTCGATCTGTGCCTCTTTTTTAGGTAGATAGATCAACTT
1 TCCACTATTCATTCAGGGAGACAAGACTCGATTTGTGCCTCTTTTTT-GGTAGATAGATCAACTT
* *
57493 TGGAGGACGTGTCTTCTCCACTATTCATTTAGGGA
65 TGGAAGA-GTGTCTTCTCCAATATTCATTTAGGGA
57528 GAGGGTAGAC
Statistics
Matches: 289, Mismatches: 46, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
240 2 0.01
241 2 0.01
242 62 0.21
243 214 0.74
244 7 0.02
245 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (241 bp):
TCCACTATTCATTCAGGGAGACAAGACTCGATTTGTGCCTCTTTTTTGGTAGATAGATCAACTTT
GGAAGAGTGTCTTCTCCAATATTCATTTAGGGAAACAAGACTCGATATGTGCCTCTTTTTCGGGT
AGACATATCAACTTTGGAAGACATCTCTGCTCCACTATTCAGTCAGGGAGATGAGACTCAATATA
TGCCTCTTCTTCAGGTAGACATATCAACTTTGGAAGATATCTCTAC
Found at i:57688 original size:217 final size:217
Alignment explanation
Indices: 57313--57746 Score: 530
Period size: 217 Copynumber: 2.0 Consensus size: 217
57303 CCTCTTTTTC
* * * *
57313 GGGTAGACATATCAACTTTGGAAGACATCTCTGCTCCACTATTCAGTCAGGGAGATGAGACTCGA
1 GGGTAGACAGATCAACTTTGGAAGACATCTCAGCTCCACTATTCAGTCAGGGAGATCAGACTCAA
* * * * *
57378 TATGTGCCTCTTCTTTGGGTAGACATATCAACTTTGTAAGATATCTCTACTCCATTATTCATTAA
66 TATGTGCATCTTCTTTAGGTAGACAAATCAACTTTGGAAGATATCTCTACTCCACTATTCATTAA
* * * * *
57443 GGGACACAAGACTCGATCTGTGCCTCTTTTTTAGGTAGATAGATCAACTTTGGAGGACGTGTCTT
131 GGGACACAAGACTCGATCTGTACCTCTTTTTCAGGTAGATAGATCAACTTTGGAAGACGTCTCTG
*
57508 CTCCACTATTCATTTAGGGAGA
196 CTCCACTATTCATTCAGGGAGA
** * * * *
57530 GGGTAGAC-GATCAACTTTGGAAGATGTTTCAGTTCCACTATTCATTCAGGTAGA-CATGACTCA
1 GGGTAGACAGATCAACTTTGGAAGACATCTCAGCTCCACTATTCAGTCAGGGAGATCA-GACTCA
* * * * * * * *
57593 ATTTGTGCATCTTTTTTCAGTTAGACAAATCAACTTTGGAAGATGTGTCTGCTCTACTGTTCATT
65 ATATGTGCATCTTCTTT-AGGTAGACAAATCAACTTTGGAAGATATCTCTACTCCACTATTCATT
* * * * *
57658 CAGGGATACAAGACTTGATCTGTACCTCTTTTTCGGGTAGATATATCAACTTTGGAAGACGTCTC
129 AAGGGACACAAGACTCGATCTGTACCTCTTTTTCAGGTAGATAGATCAACTTTGGAAGACGTCTC
57723 TGCTCCACTATTCATTCAGGGAGA
194 TGCTCCACTATTCATTCAGGGAGA
57747 TGAGACTCGA
Statistics
Matches: 181, Mismatches: 34, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
215 1 0.01
216 57 0.31
217 123 0.68
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (217 bp):
GGGTAGACAGATCAACTTTGGAAGACATCTCAGCTCCACTATTCAGTCAGGGAGATCAGACTCAA
TATGTGCATCTTCTTTAGGTAGACAAATCAACTTTGGAAGATATCTCTACTCCACTATTCATTAA
GGGACACAAGACTCGATCTGTACCTCTTTTTCAGGTAGATAGATCAACTTTGGAAGACGTCTCTG
CTCCACTATTCATTCAGGGAGA
Found at i:57725 original size:81 final size:81
Alignment explanation
Indices: 57530--57985 Score: 396
Period size: 81 Copynumber: 5.6 Consensus size: 81
57520 TTTAGGGAGA
* * * * * * * * *
57530 GGGTAGA-CGATCAACTTTGGAAGATGTTTCAGTTCCACTATTCATTCAGGTAGACATGACTCAA
1 GGGTAGATAGATCAACTTTGGAAGACGTCTCTGCTCCACTATTCATTCAGGGAGATAAGACTCGA
* * * *
57594 TTTGTGCATCTTTTTTC
66 TCTATGCCTC-TTCTTC
* * * * * * * * * * *
57611 AGTTAGACAAATCAACTTTGGAAGATGTGTCTGCTCTACTGTTCATTCAGGGATACAAGACTTGA
1 GGGTAGATAGATCAACTTTGGAAGACGTCTCTGCTCCACTATTCATTCAGGGAGATAAGACTCGA
* * *
57676 TCTGTACCTCTTTTTC
66 TCTATGCCTCTTCTTC
* *
57692 GGGTAGATATATCAACTTTGGAAGACGTCTCTGCTCCACTATTCATTCAGGGAGATGAGACTCGA
1 GGGTAGATAGATCAACTTTGGAAGACGTCTCTGCTCCACTATTCATTCAGGGAGATAAGACTCGA
*
57757 TCTATGCCTCTTCTTA
66 TCTATGCCTCTTCTTC
* * * * *
57773 GGGTAGATAGATCAACTTTGGAAGATGTCTCTACTCCACTATTCTTTTAGGGAGATTAGACTCGA
1 GGGTAGATAGATCAACTTTGGAAGACGTCTCTGCTCCACTATTCATTCAGGGAGATAAGACTCGA
*
57838 TCTTTGCCTCTTCTTC
66 TCTATGCCTCTTCTTC
* * * * *
57854 GGGTAGACAGATCAACTTTGGAAGAC--ATCTACTCCACTACTCATTCAGGGAGATAAAACTCGA
1 GGGTAGATAGATCAACTTTGGAAGACGTCTCTGCTCCACTATTCATTCAGGGAGATAAGACTCGA
* * * * *
57917 TATGTGCTTCTTTTTT
66 TCTATGCCTCTTCTTC
* * * * * * *
57933 GGGTAAACAGATCTATTTTGGGAAGATGTGTCTTCTCCACTATTCATTCAGGG
1 GGGTAGATAGATCAACTTT-GGAAGACGTCTCTGCTCCACTATTCATTCAGGG
57986 GAAATCAGAC
Statistics
Matches: 310, Mismatches: 61, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
79 58 0.19
80 6 0.02
81 173 0.56
82 73 0.24
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
GGGTAGATAGATCAACTTTGGAAGACGTCTCTGCTCCACTATTCATTCAGGGAGATAAGACTCGA
TCTATGCCTCTTCTTC
Found at i:57868 original size:379 final size:377
Alignment explanation
Indices: 57152--57906 Score: 987
Period size: 379 Copynumber: 2.0 Consensus size: 377
57142 CTCTTCTTCA
* * * * *
57152 GGTAGACATATCAACTTTGGAAGATGTGTCTGCTCCACTATTGATTCAGGGAGATAAGACTCGAT
1 GGTAGACAGATCAACTTTGGAAGATGTGTCAGCTCCACTATTCATTCAGGGAGACAAGACTCAAT
* * * * *
57217 TTGTGCCTCTTTTTCGAGTAGATAGATCAACTATGGAAGATATCCTTGCTCCAATATTTATTTAG
66 TTGTGCATCTTTTTCGAGTAGACAAATCAACTATGGAAGATATCCTTGCTCCAATATTCATTCAG
*
57282 GGAAATCAAACTTGATATGTGCCTCTTTTTCGGGTAGACATATCAACTTTGGAAGACATCTCTGC
131 GGAAATCAAACTTGATATGTACCTCTTTTTCGGGTAGACATATCAACTTTGGAAGACATCTCTGC
* * *
57347 TCCACTATTCAGTCAGGGAGATGAGACTCGATATGTGCCTCTTCTTTGGGTAGACATATCAACTT
196 TCCACTATTCAGTCAGGGAGATGAGACTCGATATATGCCTCTTCTTAGGGTAGACAGATCAACTT
* * * *
57412 TGTAAGATATCTCTACTCCATTATTCATTAAGGGACACAAGACTCGATCTGTGCCTCTTTTTTAG
261 TGGAAGATATCTCTACTCCACTATTCATTAAGGGACACAAGACTCGATCTGTGCCTCTTCTTCAG
* * * * * *
57477 GTAGATAGATCAACTTTGGAGGACGTGTCTTCTCCACTATTCATTTAGGGAGAG
326 GTAGACAGATCAACTTTGGAAGAC--ATCTACTCCACTACTCATTCAGGGAGAG
* * * *
57531 GGTAGAC-GATCAACTTTGGAAGATGTTTCAGTTCCACTATTCATTCAGGTAGACATGACTCAAT
1 GGTAGACAGATCAACTTTGGAAGATGTGTCAGCTCCACTATTCATTCAGGGAGACAAGACTCAAT
* * * * * *
57595 TTGTGCATCTTTTTTC-AGTTAGACAAATCAACTTTGGAAGATGT-GTCTGCTCTACTGTTCATT
66 TTGTGCATC-TTTTTCGAG-TAGACAAATCAACTATGGAAGATATCCT-TGCTCCAATATTCATT
* * * *
57658 CAGGGATA-CAAGACTTGATCTGTACCTCTTTTTCGGGTAGATATATCAACTTTGGAAGACGTCT
128 CAGGGAAATCAA-ACTTGATATGTACCTCTTTTTCGGGTAGACATATCAACTTTGGAAGACATCT
* * *
57722 CTGCTCCACTATTCATTCAGGGAGATGAGACTCGATCTATGCCTCTTCTTAGGGTAGATAGATCA
192 CTGCTCCACTATTCAGTCAGGGAGATGAGACTCGATATATGCCTCTTCTTAGGGTAGACAGATCA
* * * * ** *
57787 ACTTTGGAAGATGTCTCTACTCCACTATTCTTTTAGGGAGATTAGACTCGATCTTTGCCTCTTCT
257 ACTTTGGAAGATATCTCTACTCCACTATTCATTAAGGGACACAAGACTCGATCTGTGCCTCTTCT
*
57852 TCGGGTAGACAGATCAACTTTGGAAGACATCTACTCCACTACTCATTCAGGGAGA
322 TCAGGTAGACAGATCAACTTTGGAAGACATCTACTCCACTACTCATTCAGGGAGA
57907 TAAAACTCGA
Statistics
Matches: 323, Mismatches: 49, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
377 23 0.07
378 62 0.19
379 238 0.74
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (377 bp):
GGTAGACAGATCAACTTTGGAAGATGTGTCAGCTCCACTATTCATTCAGGGAGACAAGACTCAAT
TTGTGCATCTTTTTCGAGTAGACAAATCAACTATGGAAGATATCCTTGCTCCAATATTCATTCAG
GGAAATCAAACTTGATATGTACCTCTTTTTCGGGTAGACATATCAACTTTGGAAGACATCTCTGC
TCCACTATTCAGTCAGGGAGATGAGACTCGATATATGCCTCTTCTTAGGGTAGACAGATCAACTT
TGGAAGATATCTCTACTCCACTATTCATTAAGGGACACAAGACTCGATCTGTGCCTCTTCTTCAG
GTAGACAGATCAACTTTGGAAGACATCTACTCCACTACTCATTCAGGGAGAG
Found at i:58844 original size:44 final size:44
Alignment explanation
Indices: 58794--58877 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
58784 TTTTCTTGAC
* *
58794 GAGAAAGTCAAGTAAGACAACACTAAAGATAGACTCTTCTTCAT
1 GAGAAAGTCAAGGAAGAAAACACTAAAGATAGACTCTTCTTCAT
*
58838 GAGAAAGTCAAGGAAGAAAACACTAAAGATTGACTCTTCT
1 GAGAAAGTCAAGGAAGAAAACACTAAAGATAGACTCTTCT
58878 ATCAATTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (44 bp):
GAGAAAGTCAAGGAAGAAAACACTAAAGATAGACTCTTCTTCAT
Found at i:60718 original size:99 final size:98
Alignment explanation
Indices: 60591--60777 Score: 259
Period size: 99 Copynumber: 1.9 Consensus size: 98
60581 GTAATTTGCC
* * *
60591 TTTATCAGGCTAGCTGATCTTATCCATAAAG-CTGGGGAATTTAACCAATTGCTCTAGAGGGACA
1 TTTACCAGGCTAGCTGATCTTATCCATAAAGAC-GAGCAATTTAACCAATTGCTCTAGAGGGACA
*
60655 ACTCAAGATTTATTGTATATATATTATAATCTCT
65 ACTCAAGATTTATTGTATACATATTATAATCTCT
* ** *
60689 TTTACCAGGCTAGCTGAATCTTATTCATAAAGACGAGCCGTTTAACCAATTGCTCTAGAGGGATA
1 TTTACCAGGCTAGCTG-ATCTTATCCATAAAGACGAGCAATTTAACCAATTGCTCTAGAGGGACA
* *
60754 GCTCAAGCTTTATTGTATACATAT
65 ACTCAAGATTTATTGTATACATAT
60778 GATTACATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
98 15 0.19
99 61 0.79
100 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (98 bp):
TTTACCAGGCTAGCTGATCTTATCCATAAAGACGAGCAATTTAACCAATTGCTCTAGAGGGACAA
CTCAAGATTTATTGTATACATATTATAATCTCT
Done.