Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015434.1 Corchorus olitorius cultivar O-4 contig15467, 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: 173684
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:443 original size:2 final size:2
Alignment explanation
Indices: 436--486 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
426 TTGTCACACT
* * * * *
436 TC TC TC TC TC TC CC TC TC GC TC TC CC TC TC CC TC TC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
478 TC TC TC TC T
1 TC TC TC TC T
487 GTGTGTTTCT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.57, G:0.02, T:0.41
Consensus pattern (2 bp):
TC
Found at i:656 original size:10 final size:10
Alignment explanation
Indices: 641--703 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 10
631 CCTGCGGAGG
641 CCTCTGTCTT
1 CCTCTGTCTT
651 CCTCTGTCTT
1 CCTCTGTCTT
661 -CTC-GT-TT
1 CCTCTGTCTT
668 ACCTTCGTGTCTT
1 -CC-TC-TGTCTT
*
681 CTTGTCTGTCTT
1 C--CTCTGTCTT
693 CCTCTGTCTT
1 CCTCTGTCTT
703 C
1 C
704 TTGTGTACCT
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 4 0.09
10 21 0.49
12 10 0.23
13 4 0.09
ACGTcount: A:0.02, C:0.35, G:0.13, T:0.51
Consensus pattern (10 bp):
CCTCTGTCTT
Found at i:680 original size:20 final size:20
Alignment explanation
Indices: 655--765 Score: 64
Period size: 20 Copynumber: 5.3 Consensus size: 20
645 TGTCTTCCTC
655 TGTCTTCTCGTTTACCTTCG
1 TGTCTTCTCGTTTACCTTCG
* * ** *
675 TGTCTTCTTGTCTGTCTTCCTC
1 TGTCTTCTCGTTTACCTT-C-G
* *
697 TGTCTTCTTGTGTACCTTCG
1 TGTCTTCTCGTTTACCTTCG
* *
717 TGTCTT-T-GTGTCTGCCTTCCTC
1 TGTCTTCTCGT-T-TACCTT-C-G
*
739 TGTGTTCTCGTTTACCTTCG
1 TGTCTTCTCGTTTACCTTCG
759 TGTCTTC
1 TGTCTTC
766 GTGTCTGTCT
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
18 2 0.03
19 1 0.01
20 31 0.46
21 4 0.06
22 25 0.37
23 2 0.03
24 2 0.03
ACGTcount: A:0.03, C:0.29, G:0.17, T:0.51
Consensus pattern (20 bp):
TGTCTTCTCGTTTACCTTCG
Found at i:689 original size:42 final size:42
Alignment explanation
Indices: 643--802 Score: 250
Period size: 42 Copynumber: 3.8 Consensus size: 42
633 TGCGGAGGCC
*
643 TCTGTCTTCCTCTGTCTTCTCGTTTACCTTCGTGTCTTCTTG
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGTCTTCTTG
*
685 TCTGTCTTCCTCTGTCTTCTTGTGTACCTTCGTGTCTT-TGTG
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGTCTTCT-TG
* * * *
727 TCTGCCTTCCTCTGTGTTCTCGTTTACCTTCGTGTCTTCGTG
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGTCTTCTTG
769 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTG
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTG
803 CCTGTTGGCC
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.99
ACGTcount: A:0.03, C:0.30, G:0.17, T:0.50
Consensus pattern (42 bp):
TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGTCTTCTTG
Found at i:747 original size:84 final size:84
Alignment explanation
Indices: 643--802 Score: 284
Period size: 84 Copynumber: 1.9 Consensus size: 84
633 TGCGGAGGCC
* * *
643 TCTGTCTTCCTCTGTCTTCTCGTTTACCTTCGTGTCTTCTTGTCTGTCTTCCTCTGTCTTCTTGT
1 TCTGCCTTCCTCTGTCTTCTCGTTTACCTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGT
708 GTACCTTCGTGTCTTTGTG
66 GTACCTTCGTGTCTTTGTG
*
727 TCTGCCTTCCTCTGTGTTCTCGTTTACCTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGT
1 TCTGCCTTCCTCTGTCTTCTCGTTTACCTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGT
792 GTACCTTCGTG
66 GTACCTTCGTG
803 CCTGTTGGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.03, C:0.30, G:0.17, T:0.50
Consensus pattern (84 bp):
TCTGCCTTCCTCTGTCTTCTCGTTTACCTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGT
GTACCTTCGTGTCTTTGTG
Found at i:845 original size:62 final size:62
Alignment explanation
Indices: 769--1265 Score: 746
Period size: 62 Copynumber: 8.3 Consensus size: 62
759 TGTCTTCGTG
* *
769 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGTTGGCCTCGCCTCCTGGGGAGGCC
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
*
831 TCTGTCTTCTTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGA-G--
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
*
890 ---G----CCTCTGTCTTCTCGTGTACCTTTGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
* * *
945 TCTGTCTTCCTGTGTCTTCTCATGTACCTTCATGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
*
1007 TCTGTCTTCCTGTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
* *
1069 TCTTTCTTCCTCTGTCTACTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGA-G--
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
1128 ---G----CCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
* *
1183 TCTTTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGTAGGCC
1 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
1245 TCTGTCTTCCTCTGTCTTCTC
1 TCTGTCTTCCTCTGTCTTCTC
1266 ATGTCTTCGT
Statistics
Matches: 396, Mismatches: 19, Indels: 40
0.87 0.04 0.09
Matches are distributed among these distances:
52 97 0.24
53 2 0.01
56 1 0.00
58 1 0.00
61 2 0.01
62 293 0.74
ACGTcount: A:0.04, C:0.37, G:0.24, T:0.35
Consensus pattern (62 bp):
TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
Found at i:847 original size:84 final size:83
Alignment explanation
Indices: 661--849 Score: 206
Period size: 84 Copynumber: 2.2 Consensus size: 83
651 CCTCTGTCTT
* * *
661 CTCGTTTACCTTCGTGTCTTCTTGTCTGTCTTCCTCTGTCTTCTTGTGTACCTTCGTGTCTTTGT
1 CTCGTTTA-CTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTTTGT
* * * **
726 GTCTGCCTTCCTCTGTGTT
65 GCCTGCCTTCCTCGGAGGC
745 CTCGTTTACCTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGTTG
1 CTCGTTTA-CTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCT-TTG
*
810 -GCCTCGCC-TCCTGGGGAGGC
64 TGCCT-GCCTTCCT-CGGAGGC
830 CTCTGTCTT-CTTC-TGTCTTC
1 CTC-GT-TTACTTCGTGTCTTC
850 TCGTGTACCT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
84 72 0.79
85 15 0.16
86 2 0.02
87 2 0.02
ACGTcount: A:0.03, C:0.31, G:0.20, T:0.46
Consensus pattern (83 bp):
CTCGTTTACTTCGTGTCTTCGTGTCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTTTGTG
CCTGCCTTCCTCGGAGGC
Found at i:981 original size:114 final size:114
Alignment explanation
Indices: 777--1253 Score: 765
Period size: 114 Copynumber: 4.1 Consensus size: 114
767 TGTCTGTCTT
* * *
777 CCTCTGTCTTCTCGTGTACCTTCGTGCCTGTTGGCCTCGCCTCCTGGGGAGGCCTCTGTCTTCTT
1 CCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGTCTTCCT
842 CTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG
66 CTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG
*
891 CCTCTGTCTTCTCGTGTACCTTTGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGTCTTCCT
1 CCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGTCTTCCT
* * *
956 GTGTCTTCTCATGTACCTTCATGCCTGCTGGCCTCGCCTCCTGCGGAGG
66 CTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG
1005 CCTCTGTCTTCCTGTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCT
1 ---C---C-T-C--TGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCT
* *
1070 CTTTCTTCCTCTGTCTACTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG
56 CTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG
*
1129 CCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTTTCTTCCT
1 CCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGTCTTCCT
*
1194 CTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGTAGG
66 CTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG
1243 CCTCTGTCTTC
1 CCTCTGTCTTC
1254 CTCTGTCTTC
Statistics
Matches: 338, Mismatches: 15, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
114 226 0.67
116 1 0.00
117 2 0.01
118 1 0.00
120 1 0.00
121 2 0.01
122 1 0.00
124 104 0.31
ACGTcount: A:0.04, C:0.38, G:0.24, T:0.34
Consensus pattern (114 bp):
CCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGTCTTCCT
CTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG
Found at i:991 original size:176 final size:173
Alignment explanation
Indices: 768--1253 Score: 707
Period size: 176 Copynumber: 2.8 Consensus size: 173
758 GTGTCTTCGT
* *
768 GTCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGTTGGCCTCGCCTCCTGGGGAGGCCTC
1 GTCTGTCTTCCT-TGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTC
*
833 TGTCTTCTTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGT
65 TGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGT
*
898 CTTCTCGTGTACCTTTGTGCCTGCTGGCCTCGCCTCCTGCGGAG
130 CTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAG
* *
942 GCCTCTGTCTTCCTGTGTCTTCTCATGTACCTTCATGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
1 G--TCTGTCTTCCT-TGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCC
*
1007 TCTGTCTTCCTGTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCT
63 TCTGTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGG-----
*
1072 TTCTTCCTCTGTCTACTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAG
123 -----CCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAG
1128 G-C---C-T-C-TGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCT
1 GTCTGTCTTCCTTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCT
* *
1186 TTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGTAGGCCTCTGTC
66 GTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGTC
1251 TTC
131 TTC
1254 CTCTGTCTTC
Statistics
Matches: 285, Mismatches: 15, Indels: 32
0.86 0.05 0.10
Matches are distributed among these distances:
166 10 0.04
174 1 0.00
176 220 0.77
178 1 0.00
179 1 0.00
180 1 0.00
183 1 0.00
186 50 0.18
ACGTcount: A:0.04, C:0.37, G:0.24, T:0.35
Consensus pattern (173 bp):
GTCTGTCTTCCTTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCT
GTCTTCCTCTGTCTTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAGGCCTCTGTC
TTCTCGTGTACCTTCGTGCCTGCTGGCCTCGCCTCCTGCGGAG
Found at i:3133 original size:40 final size:40
Alignment explanation
Indices: 3085--3164 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
3075 GTTATTACTT
3085 ACATTTTATTTACAAAAAATAATTCCTAATACATCACATC
1 ACATTTTATTTACAAAAAATAATTCCTAATACATCACATC
3125 ACATTTTATTTACAAAAAATAATTCCTAATACATCACATC
1 ACATTTTATTTACAAAAAATAATTCCTAATACATCACATC
3165 TGTTTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (40 bp):
ACATTTTATTTACAAAAAATAATTCCTAATACATCACATC
Found at i:4108 original size:332 final size:333
Alignment explanation
Indices: 3384--6231 Score: 4096
Period size: 332 Copynumber: 8.6 Consensus size: 333
3374 TCAAAAACAA
* * * * * * * * *
3384 AGGAAAAATATTTCGGATTAATTTTTGGAAAATTGTAGTCGAAATTGGGTACTAACCATCACAGA
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * * * * * *
3449 TTTTGGCTTAAAACGCGTTACGGAGGC-CATGACTA-AGTTTTTCTTGTTTTTTGGCGCTGAGA-
66 TTTTGGCTAAAAATGCGTTCCGG-GGCAC-CGAC-ACAGTTTTGCATGATTTTTGGCGCCGAGAG
* * * *
3511 -C--TCA-ATATCTATATTCATC-AAATCAAATCTCAGCCACATTGGATTTAAGGATATGTTTTT
128 TCGTTAATATATCTATATTCATCTAACT-AAATCTCAGCCACATTGGATTTGAGGATTTGTTTTT
* * * *
3571 ATAAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAA-TTAGGAAAAAAAACATTGGAATAA
192 ATGAGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG---AAAAA-ATTGGAAAAA
* * * * * *
3635 CGATATTATAAGCGTTAAAAACCATTCAAACTTTTTGGCGTTGAATTATATATTTTTTATATGAG
253 CGATATTAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATA-TTTTT-TATGAG
*
3700 TATTTTGGCCAAAAATTG
316 TATCTTGGCCAAAAATTG
* *
3718 AGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTCGCCGAAATCGTGTACTAACCATCACGGT
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
3783 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
66 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * *
3848 TTGATATATCTATATTTATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGA
131 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
* *
3913 GTATCTAAATCTTGTTTCG-TTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACAATATTA
196 GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTA
* * * *
3977 GAAACGTCAAAAGCGCTTCCAACTTTTTGGCCTTGAATTATATACTTTTTATGAGTATCTTGGCC
261 GAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCC
4042 AAAAATTG
326 AAAAATTG
* * *
4050 AGAAAAAATATTTTGGGTCAATTTTTGCAAAATTTTAGCCTAAATCGTGTACTAACCATCACGGT
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * * *
4115 TTTTGGCTAAAAATGAGTTCCAGGGCAACGACTCAGTTTTGCATGATTTTCGGCGCCGAGAGTCG
66 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * * *
4180 TTAATAAATCAATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGT
131 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
*
4245 GCCA-CTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGGAAAAAATTGGAAAAACGATATT
196 G-CATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATT
*
4309 AGAAACGTCAAAAGCCCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGC
260 AGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGC
4374 CAAAAATTG
325 CAAAAATTG
* * *
4383 AGGACAATTATTTCGGGTCAATTTTTGCAAAATTTT--------TCATGTACTAACCATCACGGT
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * *
4440 TTTTGGCTTAAAATGCGTTTCGGGGCACCGACTCAGTTTTGCATGATTTTCGGCGCCGAGAGTCG
66 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * * *
4505 TTAATATATCTATATTCATTTAAC-AACATCTCAGCGACAATGGATTTGAGGATTTGTTTTAATG
131 TTAATATATCTATATTCATCTAACTAA-ATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATG
* *
4569 AGCATCTCAATCTTGTTTCGAATTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATT
195 AGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATT
* * *
4634 AGAAAAGACAAAAGCCCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGC
260 AGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGC
4699 CAAAAATTG
325 CAAAAATTG
* *
4708 AGGAAAATTATTTCGGGTCAATTTTTGCAAAAGTTTAGCCGAAATCGTGTACTAACCATCACGGT
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
*
4773 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACATAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
66 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
*
4838 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTACGA
131 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
* *
4903 GTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG-AAAAATTGGAAAAATGATATTA
196 GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTA
* *
4967 GAAACGTCAAAAGCGCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGGCC
261 GAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCC
5032 AAAAATTG
326 AAAAATTG
*
5040 AGGAAAAATATTTCGGGACAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* *
5105 TTTTGGCTAAAAATGCGTTCCAGGGCACCGACACAGTTTTGCATCATTTTTGGCGCCGAGAGTCG
66 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * *
5170 TTAATAAATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATTA
131 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
* * *
5235 GCACCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGGAAAAAAAATTGGAAAAACGATAT
196 GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG--AAAAAATTGGAAAAACGATAT
* * *
5300 TAGAAACGTCAAAAGCCCATCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCCTGC
259 TAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGG
*
5365 CCAAAAATTA
324 CCAAAAATTG
* *
5375 AGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATTACGGT
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * ** **
5440 TTTTGGCTAAAAATGCTTTCTGGCCCACCGACTTAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
66 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * * * * *
5505 TTAATATATCTACATTCATTTAACCAAATCTCAGCGACAATGGATTTGACGATTTGTTTTTATGA
131 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
* *
5570 GTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTCG-AAAAATTGGAAAAACGATATTA
196 GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTA
* * *
5634 GAAACGTCAAAAGACCGTCAAACTTTTTGGCTTTGAATTATATA-TTTTTACGAGTATCTTGGCC
261 GAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCC
5698 AAAAATTG
326 AAAAATTG
* *
5706 AGGAAAATTATTTCGGGTCAATTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * * *
5771 TTTTGGCTAAAAATGCGTTCCGGAGTACCGACCCAGTTTTGCATGATTTTCGGCGCCGAAAGTCG
66 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * * *
5836 TTAATATATCTATATTCATTTAACAAAATCTCAGCGACAATGGATTTGAGGATTTGTTTTTATGA
131 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
* *
5901 GCATCTAAATCTTGTTTCGATTTAAT-GGAAATTAATTTTGG-AAAAA-TGGAAAAATGATATTA
196 GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTA
* *
5963 GAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGCCC
261 GAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCC
6028 AAAAATTG
326 AAAAATTG
* * * * *
6036 AGGAAAAATATTTCGGATCAATTTTTGCAAAATTTTAGCCGAAATCGTGTATGTTA-CATCATGA
1 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA-CTAACCATCACGG
* * * * *
6100 TTTTTGGCTAAAAATACGTTCCTGGACACCGACACAGTTTTGCATGATTTTTCGCACCGAGAGTC
65 TTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTC
* *
6165 GTTAATATATCTATATTCATCTAA-TCAAATTTCAGCCACATTGGATTTGAGGATTTTTTTTTAT
130 GTTAATATATCTATATTCATCTAACT-AAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTAT
6229 GAG
194 GAG
6232 GATTTAGTCT
Statistics
Matches: 2281, Mismatches: 205, Indels: 60
0.90 0.08 0.02
Matches are distributed among these distances:
324 4 0.00
325 299 0.13
329 57 0.02
330 213 0.09
331 230 0.10
332 594 0.26
333 353 0.15
334 129 0.06
335 308 0.14
337 17 0.01
338 74 0.03
339 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (333 bp):
AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
TTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTA
GAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCC
AAAAATTG
Found at i:5445 original size:667 final size:663
Alignment explanation
Indices: 3384--6231 Score: 4067
Period size: 667 Copynumber: 4.3 Consensus size: 663
3374 TCAAAAACAA
* * * * * * * *
3384 AGGAAAAATATTTCGGATTAATTTTTGGAAAATTGTAGTCGAAATTGGGTACTAACCATCACAGA
1 AGGAAAAATATTTCGG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * * * * * *
3449 TTTTGGCTTAAAACGCGTTACGGAGGC-CATGACTAAGTTTTTCTTGTTTTTTGGCGCTGAGA--
65 TTTTGGCTAAAAATGCGTTCCGG-GGCAC-CGACT-AGTTTTGCATGATTTTTGGCGCCGAGAGT
* * * *
3511 C--TCA-ATATCTATATTCATC-AAATCAAATCTCAGCCACATTGGATTTAAGGATATGTTTTTA
127 CGTTAATATATCTATATTCATCTAACT-AAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTA
* * * *
3572 TAAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAA-TTAGGAAAAAAAACATTGGAATAAC
191 TGAGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG---AAAAA-ATTGGAAAAAC
* * * * * *
3636 GATATTATAAGCGTTAAAAACCATTCAAACTTTTTGGCGTTGAATTATATATTTTTTATATGAGT
252 GATATTAGAAACGTCAAAAGCC-GTCAAACTTTTTGGCTTTGAATTATATA-TTTTT-TATGAGT
* * *
3701 ATTTTGGCCAAAAATTGAGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTCGCCGAAATCGT
314 ATCTTGGCCAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGT
3766 GTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATT
379 GTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATT
* * * * * *
3831 TTTGGCGCCGAGAGTCGTTGATATATCTATATTTATCTAACTAAATCTCAGCCACATTGGATTTA
444 TTCGGCGCCGAGAGTCGTTAATATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTG
*
3896 AGGATTTGTTTTTATGAGTATCTAAATCTTGTTTCG-TTTAATCAGAAATTAATTTTGGAAAAAA
509 AGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAA
* * * *
3960 TTGGAAAAACAATATTAGAAACGTCAAAAGCGCTTCCAACTTTTTGGCCTTGAATTATATACTTT
574 TTGGAAAAACGATATTAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTT
*
4025 TTATGAGTATCTTGGCCAAAAATTG
639 TTATGAGTATCTTGCCCAAAAATTG
* * *
4050 AGAAAAAATATTTTGGGTCAATTTTTGCAAAATTTTAGCCTAAATCGTGTACTAACCATCACGGT
1 AGGAAAAATA-TTTCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * *
4115 TTTTGGCTAAAAATGAGTTCCAGGGCAACGACTCAGTTTTGCATGATTTTCGGCGCCGAGAGTCG
65 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACT-AGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * * *
4180 TTAATAAATCAATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGT
129 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
*
4245 GCCA-CTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGGAAAAAATTGGAAAAACGATATT
194 G-CATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATT
4309 AGAAACGTCAAAAGCCCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGC
258 AGAAACGTCAAAAG-CCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGC
* * *
4374 CAAAAATTGAGGACAATTATTTCGGGTCAATTTTTGCAAAATTTT--------TCATGTACTAAC
322 CAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC
* * *
4431 CATCACGGTTTTTGGCTTAAAATGCGTTTCGGGGCACCGACTCAGTTTTGCATGATTTTCGGCGC
387 CATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTCGGCGC
* *
4496 CGAGAGTCGTTAATATATCTATATTCATTTAA-CAACATCTCAGCGACAATGGATTTGAGGATTT
452 CGAGAGTCGTTAATATATCTATATTCATCTAACCAA-ATCTCAGCCACAATGGATTTGAGGATTT
* * *
4560 GTTTTAATGAGCATCTCAATCTTGTTTCGAATTAATCAGAAATTAATTTTGGAAAAAATTGGAAA
516 GTTTTTATGAGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAA
* * * *
4625 AACGATATTAGAAAAGACAAAAGCCCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAG
581 AACGATATTAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAG
*
4690 TATCTTGGCCAAAAATTG
646 TATCTTGCCCAAAAATTG
* *
4708 AGGAAAATTATTTCGGGTCAATTTTTGCAAAAGTTTAGCCGAAATCGTGTACTAACCATCACGGT
1 AGGAAAAATATTTC-GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
4773 TTTTGGCTAAAAATGCGTTCCGGGGCACCGACATAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
65 TTTTGGCTAAAAATGCGTTCCGGGGCACCGAC-TAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
*
4838 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTACGA
129 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
* *
4903 GTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG-AAAAATTGGAAAAATGATATTA
194 GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTA
* *
4967 GAAACGTCAAAAGCGCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGGCC
259 GAAACGTCAAAAGC-CGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCC
*
5032 AAAAATTGAGGAAAAATATTTCGGGACAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
323 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
* * *
5097 ATCACGGTTTTTGGCTAAAAATGCGTTCCAGGGCACCGACACAGTTTTGCATCATTTTTGGCGCC
388 ATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTCGGCGCC
* *
5162 GAGAGTCGTTAATAAATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGATTTGT
453 GAGAGTCGTTAATATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTGAGGATTTGT
* * * *
5227 TTTTATTAGCACCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGGAAAAAAAATTGGAAA
518 TTTTATGAGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG--AAAAAATTGGAAA
* *
5292 AACGATATTAGAAACGTCAAAAGCCCATCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAG
581 AACGATATTAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAG
* *
5357 TATCCTGCCCAAAAATTA
646 TATCTTGCCCAAAAATTG
*
5375 AGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATTACGGT
1 AGGAAAAATATTTCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * **
5440 TTTTGGCTAAAAATGCTTTCTGGCCCACCGACTTAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
65 TTTTGGCTAAAAATGCGTTCCGGGGCACCGAC-TAGTTTTGCATGATTTTTGGCGCCGAGAGTCG
* * * * * *
5505 TTAATATATCTACATTCATTTAACCAAATCTCAGCGACAATGGATTTGACGATTTGTTTTTATGA
129 TTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGA
* *
5570 GTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTCG-AAAAATTGGAAAAACGATATTA
194 GCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTA
*
5634 GAAACGTCAAAAGACCGTCAAACTTTTTGGCTTTGAATTATATA-TTTTTACGAGTATCTTGGCC
259 GAAACGTCAAAAG-CCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCC
* *
5698 AAAAATTGAGGAAAATTATTTCGGGTCAATTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACC
323 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
* * *
5763 ATCACGGTTTTTGGCTAAAAATGCGTTCCGGAGTACCGACCCAGTTTTGCATGATTTTCGGCGCC
388 ATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTCGGCGCC
* * * *
5828 GAAAGTCGTTAATATATCTATATTCATTTAACAAAATCTCAGCGACAATGGATTTGAGGATTTGT
453 GAGAGTCGTTAATATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTGAGGATTTGT
*
5893 TTTTATGAGCATCTAAATCTTGTTTCGATTTAAT-GGAAATTAATTTTGG-AAAAA-TGGAAAAA
518 TTTTATGAGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAA
*
5955 TGATATTAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTA
583 CGATATTAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTA
6020 TCTTGCCCAAAAATTG
648 TCTTGCCCAAAAATTG
* * * *
6036 AGGAAAAATATTTCGGATCAATTTTTGCAAAATTTTAGCCGAAATCGTGTATGTTA-CATCATGA
1 AGGAAAAATATTTCGG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA-CTAACCATCACGG
* * * * * *
6100 TTTTTGGCTAAAAATACGTTCCTGGACACCGACACAGTTTTGCATGATTTTTCGCACCGAGAGTC
64 TTTTTGGCTAAAAATGCGTTCCGGGGCACCGAC-TAGTTTTGCATGATTTTTGGCGCCGAGAGTC
* *
6165 GTTAATATATCTATATTCATCTAA-TCAAATTTCAGCCACATTGGATTTGAGGATTTTTTTTTAT
128 GTTAATATATCTATATTCATCTAACT-AAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTAT
6229 GAG
192 GAG
6232 GATTTAGTCT
Statistics
Matches: 1967, Mismatches: 182, Indels: 71
0.89 0.08 0.03
Matches are distributed among these distances:
656 3 0.00
657 279 0.14
658 322 0.16
659 1 0.00
660 1 0.00
661 251 0.13
662 7 0.00
665 269 0.14
666 306 0.16
667 429 0.22
668 8 0.00
669 2 0.00
670 81 0.04
671 8 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (663 bp):
AGGAAAAATATTTCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTT
TTTGGCTAAAAATGCGTTCCGGGGCACCGACTAGTTTTGCATGATTTTTGGCGCCGAGAGTCGTT
AATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTATGAGC
ATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTAGA
AACGTCAAAAGCCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCCAAA
AATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATC
ACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTCGGCGCCGAG
AGTCGTTAATATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTGAGGATTTGTTTT
TATGAGCATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGA
TATTAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCT
TGCCCAAAAATTG
Found at i:5883 original size:990 final size:984
Alignment explanation
Indices: 3515--6229 Score: 4167
Period size: 990 Copynumber: 2.7 Consensus size: 984
3505 CTGAGACTCA
** * * * * *
3515 ATATCTATATTCATCAAATCAAATCTCAGCCACATTGGATTTAAGGATATGTTTTTATAAGCATC
1 ATATCTATATTCATTTAA-CAAATCTCAGCGACAATGGATTTGAGGATTTGTTTTTATGAGCATC
* * * *
3580 TAAATCTTGTTTCGATTTAATTAGAAATTAA-TTAGGAAAAAAAACATTGGAATAACGATATTAT
65 TAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG---AAAAA-ATTGGAAAAACGATATTAG
* * * * *
3644 AAGCGTTAAAA-ACCATTCAAACTTTTTGGCGTTGAATTATATATTTTTTATATGAGTATTTTGG
126 AAACGTCAAAAGACC-GTCAAACTTTTTGGCTTTGAATTATATA-TTTTT-TATGAGTATCTTGG
* * *
3708 CCAAAAATTGAGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTCGCCGAAATCGTGTACTAA
188 CCAAAAATTGAGGAAAATTATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
3773 CCATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCG
253 CCATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCG
* *
3838 CCGAGAGTCGTTGATATATCTATATTTATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTT
318 CCGAGAGTCGTTAATATATCTATATTCATCTAACTAAATCTCAGCCACA---GA-TT-AGGATTT
3903 GTTTTTATGAGTATCTAAATCTTGTTTCG-TTTAATCAGAAATTAATTTTGGAAAAAATTGGAAA
378 GTTTTTATGAGTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGG-AAAAATTGGAAA
** * *
3967 AACAATATTAGAAACGTCAAAAGCGCTTCCAACTTTTTGGCCTTGAATTATATACTTTTTATGAG
442 AATGATATTAGAAACGTCAAAAGCGCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAG
* * * *
4032 TATCTTGGCCAAAAATTGAGAAAAAATATTTTGGGTCAATTTTTGCAAAATTTTAGCCTAAATCG
507 TATCTTGGCCAAAAATTGAGGAAAAATATTTCGGGACAATTTTTGCAAAATTTTAGCCGAAATCG
* * *
4097 TGTACTAACCATCACGGTTTTTGGCTAAAAATGAGTTCCAGGGCAACGACTCAGTTTTGCATGAT
572 TGTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTCCAGGGCACCGACACAGTTTTGCATGAT
* *
4162 TTTCGGCGCCGAGAGTCGTTAATAAATCAATATTCATCTAACCAAATCTCAGCCACATTGGATTT
637 TTTTGGCGCCGAGAGTCGTTAATAAATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTT
4227 GAGGATTTGTTTTTATGTGCCACTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGGAAAAA
702 GAGGATTTGTTTTTATGTGCCACTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGGAAAAA
*
4292 ATTGGAAAAACGATATTAGAAACGTCAAAAGCCCGTCAAACTTTTTGGCTTTGAATTATATATTT
767 ATTGGAAAAACGATATTAGAAACGTCAAAAGCCCATCAAACTTTTTGGCTTTGAATTATATATTT
* * * * * *
4357 TTTATGAGTATCTTGGCCAAAAATTGAGGACAATTATTTCGGGTCAATTTTTGCAAAATTTTTCA
832 TTTATGAGTATCCTGCCCAAAAATTAAGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTTCA
* **
4422 TGTACTAACCATCACGGTTTTTGGCTTAAAATGCGTTTCGGGGCACCGACTCAGTTTTGCATGAT
897 TGTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGGCCCACCGACTCAGTTTTGCATGAT
4487 TTTCGGCGCCGAGAGTCGTTAAT
962 TTTCGGCGCCGAGAGTCGTTAAT
*
4510 ATATCTATATTCATTTAACAACATCTCAGCGACAATGGATTTGAGGATTTGTTTTAATGAGCATC
1 ATATCTATATTCATTTAACAA-ATCTCAGCGACAATGGATTTGAGGATTTGTTTTTATGAGCATC
* * *
4575 TCAATCTTGTTTCGAATTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTAGAAAA
65 TAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTAGAAAC
* *
4640 GACAAAAGCCCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCCAAAAA
130 GTCAAAAGACCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCCAAAAA
*
4705 TTGAGGAAAATTATTTCGGGTCAATTTTTGCAAAAGTTTAGCCGAAATCGTGTACTAACCATCAC
195 TTGAGGAAAATTATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
*
4770 GGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACATAGTTTTGCATGATTTTTGGCGCCGAGAG
260 GGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAG
4835 TCGTTAATATATCTATATTCATCTAACTAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTTA
325 TCGTTAATATATCTATATTCATCTAACTAAATCTCAGCCACA---GA-TT-AGGATTTGTTTTTA
*
4900 CGAGTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAATTGGAAAAATGATAT
385 TGAGTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAATTGGAAAAATGATAT
4965 TAGAAACGTCAAAAGCGCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGG
450 TAGAAACGTCAAAAGCGCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGG
5030 CCAAAAATTGAGGAAAAATATTTCGGGACAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
515 CCAAAAATTGAGGAAAAATATTTCGGGACAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
*
5095 CCATCACGGTTTTTGGCTAAAAATGCGTTCCAGGGCACCGACACAGTTTTGCATCATTTTTGGCG
580 CCATCACGGTTTTTGGCTAAAAATGCGTTCCAGGGCACCGACACAGTTTTGCATGATTTTTGGCG
5160 CCGAGAGTCGTTAATAAATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGATTT
645 CCGAGAGTCGTTAATAAATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGATTT
*
5225 GTTTTTAT-TAG-CACCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGGAAAAAAAATTG
710 GTTTTTATGT-GCCA-CTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGG--AAAAAATTG
5288 GAAAAACGATATTAGAAACGTCAAAAGCCCATCAAACTTTTTGGCTTTGAATTATATATTTTTTA
771 GAAAAACGATATTAGAAACGTCAAAAGCCCATCAAACTTTTTGGCTTTGAATTATATATTTTTTA
5353 TGAGTATCCTGCCCAAAAATTAAGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTAGCCGAA
836 TGAGTATCCTGCCCAAAAATTAAGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTT-------
* * *
5418 ATCGTGTACTAACCATTACGGTTTTTGGCTAAAAATGC-TTTCTGGCCCACCGACTTAGTTTTGC
894 -TCATGTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTTC-GGCCCACCGACTCAGTTTTGC
*
5482 ATGATTTTTGGCGCCGAGAGTCGTTAAT
957 ATGATTTTCGGCGCCGAGAGTCGTTAAT
* * *
5510 ATATCTACATTCATTTAACCAAATCTCAGCGACAATGGATTTGACGATTTGTTTTTATGAGTATC
1 ATATCTATATTCATTTAA-CAAATCTCAGCGACAATGGATTTGAGGATTTGTTTTTATGAGCATC
*
5575 TAAATCTTGTTTCGATTTAATCAGAAATTAATTTTCG-AAAAATTGGAAAAACGATATTAGAAAC
65 TAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTAGAAAC
*
5639 GTCAAAAGACCGTCAAACTTTTTGGCTTTGAATTATATA-TTTTTACGAGTATCTTGGCCAAAAA
130 GTCAAAAGACCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCCAAAAA
*
5703 TTGAGGAAAATTATTTCGGGTCAATTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
195 TTGAGGAAAATTATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
* * * * *
5768 GGTTTTTGGCTAAAAATGCGTTCCGGAGTACCGACCCAGTTTTGCATGATTTTCGGCGCCGAAAG
260 GGTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAG
* * *
5833 TCGTTAATATATCTATATTCATTTAACAAAATCTCAGCGACAATGGATTTGAGGATTTGTTTTTA
325 TCGTTAATATATCTATATTCATCTAACTAAATCTCAGCCAC-A--GA-TT-AGGATTTGTTTTTA
* *
5898 TGAGCATCTAAATCTTGTTTCGATTTAAT-GGAAATTAATTTTGGAAAAA-TGGAAAAATGATAT
385 TGAGTATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAATTGGAAAAATGATAT
* *
5961 TAGAAACGTCAAAAGCCCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGC
450 TAGAAACGTCAAAAGCGCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGG
*
6026 CCAAAAATTGAGGAAAAATATTTC-GGATCAATTTTTGCAAAATTTTAGCCGAAATCGTGTATGT
515 CCAAAAATTGAGGAAAAATATTTCGGGA-CAATTTTTGCAAAATTTTAGCCGAAATCGTGTA-CT
* * * * * * *
6090 TA-CATCATGATTTTTGGCTAAAAATACGTTCCTGGACACCGACACAGTTTTGCATGATTTTTCG
578 AACCATCACGGTTTTTGGCTAAAAATGCGTTCCAGGGCACCGACACAGTTTTGCATGATTTTTGG
* * * *
6154 CACCGAGAGTCGTTAATATATCTATATTCATCTAATCAAATTTCAGCCACATTGGATTTGAGGAT
643 CGCCGAGAGTCGTTAATAAATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGAT
*
6219 TTTTTTTTATG
708 TTGTTTTTATG
6230 AGGATTTAGT
Statistics
Matches: 1597, Mismatches: 101, Indels: 42
0.92 0.06 0.02
Matches are distributed among these distances:
989 3 0.00
990 540 0.34
991 27 0.02
992 175 0.11
993 7 0.00
994 3 0.00
995 84 0.05
996 263 0.16
997 21 0.01
998 233 0.15
999 68 0.04
1000 170 0.11
1001 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (984 bp):
ATATCTATATTCATTTAACAAATCTCAGCGACAATGGATTTGAGGATTTGTTTTTATGAGCATCT
AAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAAATTGGAAAAACGATATTAGAAACG
TCAAAAGACCGTCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCTTGGCCAAAAAT
TGAGGAAAATTATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACG
GTTTTTGGCTAAAAATGCGTTCCGGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGAGT
CGTTAATATATCTATATTCATCTAACTAAATCTCAGCCACAGATTAGGATTTGTTTTTATGAGTA
TCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTTGGAAAAATTGGAAAAATGATATTAGAAA
CGTCAAAAGCGCTTCAAACTTTTTGGCTTTGAATTATATACTTTTTATGAGTATCTTGGCCAAAA
ATTGAGGAAAAATATTTCGGGACAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCA
CGGTTTTTGGCTAAAAATGCGTTCCAGGGCACCGACACAGTTTTGCATGATTTTTGGCGCCGAGA
GTCGTTAATAAATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTGAGGATTTGTTTTT
ATGTGCCACTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGGAAAAAATTGGAAAAACGAT
ATTAGAAACGTCAAAAGCCCATCAAACTTTTTGGCTTTGAATTATATATTTTTTATGAGTATCCT
GCCCAAAAATTAAGGAAAAATATTTCGAGTCAATTTTTGCAAAATTTTTCATGTACTAACCATCA
CGGTTTTTGGCTAAAAATGCGTTTCGGCCCACCGACTCAGTTTTGCATGATTTTCGGCGCCGAGA
GTCGTTAAT
Found at i:7498 original size:52 final size:52
Alignment explanation
Indices: 7415--7740 Score: 577
Period size: 52 Copynumber: 6.3 Consensus size: 52
7405 AATTTATCTG
*
7415 ATTACTAAATTTTTT-AAACGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
1 ATTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
7466 ATTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
1 ATTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
7518 ATTACTAAATTTTTT-AAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
1 ATTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
7569 ATTACTAAACTTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
1 ATTACTAAA-TTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
*
7622 GTTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
1 ATTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
*
7674 ATTACTAATTTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCT-CCTA
1 ATTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
*
7725 ATTTGCTAAATTTTTT
1 A-TTACTAAATTTTTT
7741 TAAACTTTTT
Statistics
Matches: 265, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
51 65 0.25
52 156 0.59
53 44 0.17
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (52 bp):
ATTACTAAATTTTTTAAAATGTTTGGAGGGACAGCCCTCATCGGTCTCCCTA
Found at i:8343 original size:217 final size:217
Alignment explanation
Indices: 7930--8347 Score: 694
Period size: 224 Copynumber: 1.9 Consensus size: 217
7920 AACTGGGGGG
*
7930 AAAAAAAAAAAAAAAAATTATCAGCCACATGCAATGGAATATTCACAAATAAAACATTTTATTGT
1 AAAAAAAAAAAAAAAAATTATCAGCCACATGCAATGGAATATTCACAAATAAAACATTTTATCGT
*
7995 AAAAAATGGAAATTTAAGAATATGATAAACTTACTTCATTTGCAGCTGCTGGCCACTTATTGTAT
66 AAAAAATGGAAATTTAAGAATATGATAAACTTACTTCATTTGCAGCTGCTGGCCACTTACTGTA-
8060 CTTCCCTCTTCCGCGTCTGTCACTACGATCGTTGTCTATGTTGTCAAAGTACCCTCCATATCTGC
130 -----CTCTTCCGCGTCTGTCACTACGATCGTTGTCTATGTTGTCAAAGTACCCTCCATATCTGC
8125 CTTGTATCAGCTACAAGAACTTCCTGGT
190 CTTGTATCAGCTACAAGAACTTCCTGGT
**
8153 AAAAAAAAGAAAAAAATTTTATCAGCCACATGCAATGGAATATTCACAAATAAAACATTTTATCG
1 AAAAAAAA-AAAAAAAAATTATCAGCCACATGCAATGGAATATTCACAAATAAAACATTTTATCG
* *
8218 TAAAGAATGGAAATTTAAGAATATGATAAACTTACTTCATTTGCAGCTGCTGGCCATTTACTGTA
65 TAAAAAATGGAAATTTAAGAATATGATAAACTTACTTCATTTGCAGCTGCTGGCCACTTACTGTA
* *
8283 -TCTTCCGCGTCTGTCACTACGATTGTTGTCTATGTTGTCAAAGTACCCTCCATGTCTGCCTTGT
130 CTCTTCCGCGTCTGTCACTACGATCGTTGTCTATGTTGTCAAAGTACCCTCCATATCTGCCTTGT
8347 A
195 A
8348 AACGGCGGAT
Statistics
Matches: 186, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
217 63 0.34
223 8 0.04
224 115 0.62
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (217 bp):
AAAAAAAAAAAAAAAAATTATCAGCCACATGCAATGGAATATTCACAAATAAAACATTTTATCGT
AAAAAATGGAAATTTAAGAATATGATAAACTTACTTCATTTGCAGCTGCTGGCCACTTACTGTAC
TCTTCCGCGTCTGTCACTACGATCGTTGTCTATGTTGTCAAAGTACCCTCCATATCTGCCTTGTA
TCAGCTACAAGAACTTCCTGGT
Found at i:15145 original size:22 final size:22
Alignment explanation
Indices: 15119--15162 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15109 GTCAAGCAAA
15119 TATTATATAT-ATATATAATCAT
1 TATTAT-TATCATATATAATCAT
*
15141 TATTATTATCATATATCATCAT
1 TATTATTATCATATATAATCAT
15163 AATAATTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTATTATCATATATAATCAT
Found at i:15164 original size:28 final size:25
Alignment explanation
Indices: 15119--15170 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
15109 GTCAAGCAAA
*
15119 TATTATATATATATATAATCATTAT
1 TATTATATATATATATAATAATTAT
15144 TATTATCATATATCATCATAATAATTA
1 TATTAT-ATATAT-AT-ATAATAATTA
15171 GCAAATAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 6 0.26
27 2 0.09
28 9 0.39
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTATATATATATATAATAATTAT
Found at i:15170 original size:22 final size:22
Alignment explanation
Indices: 15129--15170 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15119 TATTATATAT
* *
15129 ATATATAATCATTATTATTATC
1 ATATATAATCATAATAATTATC
*
15151 ATATATCATCATAATAATTA
1 ATATATAATCATAATAATTA
15171 GCAAATAGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATATAATCATAATAATTATC
Found at i:17020 original size:14 final size:13
Alignment explanation
Indices: 16994--17023 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
16984 GTTTCTGATC
16994 ATATATTATATTA
1 ATATATTATATTA
17007 ATATATTAATATTA
1 ATATATT-ATATTA
17021 ATA
1 ATA
17024 CTAATGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATTATATTA
Found at i:21339 original size:44 final size:44
Alignment explanation
Indices: 21276--21366 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
21266 CTTCTAGTAT
21276 ATAGTAAAAAAATAGAAGAAATTAACTTTATGGGTAATTATTTG
1 ATAGTAAAAAAATAGAAGAAATTAACTTTATGGGTAATTATTTG
21320 ATAGTAAAAAAATAGAAGAAATTAACTTTATGGGTAATTATTTG
1 ATAGTAAAAAAATAGAAGAAATTAACTTTATGGGTAATTATTTG
21364 ATA
1 ATA
21367 CACCGGCGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.34
Consensus pattern (44 bp):
ATAGTAAAAAAATAGAAGAAATTAACTTTATGGGTAATTATTTG
Found at i:22068 original size:2 final size:2
Alignment explanation
Indices: 22061--22097 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22051 TTCATTATGC
22061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22098 AGTTTCTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27057 original size:29 final size:30
Alignment explanation
Indices: 27008--27081 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
26998 TTCTGCCAAC
*
27008 GGTCAAATAAGTCCTTAAACT-TCAATTTT
1 GGTCAAATAAGTCCTTAAACTACCAATTTT
* *
27037 GGTCAAATTAG-CCTCTGAACTACCAATTTT
1 GGTCAAATAAGTCCT-TAAACTACCAATTTT
* *
27067 GGCCAGATAAG-CCTT
1 GGTCAAATAAGTCCTT
27082 TCTGTTATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
28 3 0.08
29 16 0.43
30 18 0.49
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (30 bp):
GGTCAAATAAGTCCTTAAACTACCAATTTT
Found at i:27393 original size:29 final size:30
Alignment explanation
Indices: 27343--27406 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
27333 CAAAGGGCTT
*
27343 ATTTGATCAAAATTGGTAGTTCAGGG-ACTA
1 ATTTGATCAAAATTGGAAGTTC-GGGAACTA
* *
27373 ATTTGGTCAAAATT-GAAGTTCGGGAACTT
1 ATTTGATCAAAATTGGAAGTTCGGGAACTA
27402 ATTTG
1 ATTTG
27407 CGGAAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 3 0.10
29 14 0.47
30 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (30 bp):
ATTTGATCAAAATTGGAAGTTCGGGAACTA
Found at i:30970 original size:75 final size:76
Alignment explanation
Indices: 30847--30992 Score: 267
Period size: 75 Copynumber: 1.9 Consensus size: 76
30837 AGGCAAAAAG
30847 CTATTAAAATCATATATCTAACTCAATCAAATTTAGGATTTTCTTTCTTAATTTTGC-TCTTTTT
1 CTATTAAAATCATATATCTAACTCAATCAAATTTAGGATTTTCTTTCTTAATTTTGCTTCTTTTT
30911 CTATTATAAGC
66 CTATTATAAGC
* *
30922 CTATTAATATCATATATCTAACTCAATCAAATTTAGGATTTTCTTTCTTAATTTTGCTTTTTTTT
1 CTATTAAAATCATATATCTAACTCAATCAAATTTAGGATTTTCTTTCTTAATTTTGCTTCTTTTT
30987 CTATTA
66 CTATTA
30993 ATCCAATGGG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 56 0.82
76 12 0.18
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (76 bp):
CTATTAAAATCATATATCTAACTCAATCAAATTTAGGATTTTCTTTCTTAATTTTGCTTCTTTTT
CTATTATAAGC
Found at i:34198 original size:19 final size:19
Alignment explanation
Indices: 34144--34198 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
34134 TAGCAACTCA
* *
34144 TGTACATATGAGATTACAC
1 TGTACAGATGAGATTATAC
*
34163 TGTACAGATTAGATTATAC
1 TGTACAGATGAGATTATAC
*
34182 TGTACAGATGGGATTAT
1 TGTACAGATGAGATTAT
34199 TAGAGCAGCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (19 bp):
TGTACAGATGAGATTATAC
Found at i:35248 original size:6 final size:6
Alignment explanation
Indices: 35237--35264 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35227 TTTATAACAT
35237 ATATTA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATAT
35265 AATTGACTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:36639 original size:2 final size:2
Alignment explanation
Indices: 36632--36657 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36622 AAATAGACAC
36632 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
36658 CTCACGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38043 original size:42 final size:42
Alignment explanation
Indices: 37985--38067 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
37975 TCTAATAACC
37985 AAATAAATCAACGAAACTCACATCCCGTGAGATTTGAACCCT
1 AAATAAATCAACGAAACTCACATCCCGTGAGATTTGAACCCT
38027 AAATAAATCAACGAAACTCACATCCCGTGAGATTTGAACCC
1 AAATAAATCAACGAAACTCACATCCCGTGAGATTTGAACCC
38068 AAAACCTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (42 bp):
AAATAAATCAACGAAACTCACATCCCGTGAGATTTGAACCCT
Found at i:43388 original size:26 final size:26
Alignment explanation
Indices: 43350--43399 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
43340 TACACATCAA
*
43350 TTTTGATAGAAAAATGGTGTTATTTT
1 TTTTGAGAGAAAAATGGTGTTATTTT
*
43376 TTTTGAGATAAAAATGGTGTTATT
1 TTTTGAGAGAAAAATGGTGTTATT
43400 AAATTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (26 bp):
TTTTGAGAGAAAAATGGTGTTATTTT
Found at i:48267 original size:2 final size:2
Alignment explanation
Indices: 48260--48285 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48250 GAAATATGTA
48260 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
48286 CTAGATGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:61400 original size:35 final size:35
Alignment explanation
Indices: 61361--61435 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
61351 TGAGATTTAC
*
61361 AGGGTAAGTCCCTAAATTTAGGATATTAATTTGCT
1 AGGGTAAGTCCCTAAATTTAGGATATTAATTGGCT
*
61396 AGGGTAAGTCCCTAAATTTAGGATATTAATTGGTT
1 AGGGTAAGTCCCTAAATTTAGGATATTAATTGGCT
61431 AGGGT
1 AGGGT
61436 TTTAGAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (35 bp):
AGGGTAAGTCCCTAAATTTAGGATATTAATTGGCT
Found at i:66207 original size:141 final size:137
Alignment explanation
Indices: 65956--66234 Score: 495
Period size: 141 Copynumber: 2.0 Consensus size: 137
65946 CATGTGTCAC
65956 GCCTTAATTCTACTATAACTTTTTATGAAATTAAATTTATGATATATCTCGAATATTGAACTAAA
1 GCCTTAATTCTACTATAACTTTTTATGAAATTAAATTTATGATATATCTCGAATATTGAACTAAA
*
66021 GTCTAAAATGCACCGTTTTAATTAGGATAAAAAAGTGTTGCCAAAAAAAAAAAGGATAAAAGAGA
66 GTCTAAAATGCACCGTTTTAATTAGGATAAAAAAGTGTTGCC-AAAAAAAAAAGGACAAAAGAGA
66086 AAATGGAT
130 AAATGGAT
*
66094 GCCTTAATTCTACTATAACTTTTTATGAAATTAAATTTATGATGATATATCTCGAATATTGAATT
1 GCCTTAATTCTACTATAACTTTTTATGAAATTAAA-TT-T-ATGATATATCTCGAATATTGAACT
*
66159 AAAGTCTAAAATGCACCGTTTTAATTAGGATAAAAGAGTGTTGCCAAAAAAAAAAGGACAAAAGA
63 AAAGTCTAAAATGCACCGTTTTAATTAGGATAAAAAAGTGTTGCCAAAAAAAAAAGGACAAAAGA
66224 GAAAATGGAT
128 GAAAATGGAT
66234 G
1 G
66235 TACATTGTCT
Statistics
Matches: 135, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
138 35 0.26
139 2 0.01
140 31 0.23
141 67 0.50
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (137 bp):
GCCTTAATTCTACTATAACTTTTTATGAAATTAAATTTATGATATATCTCGAATATTGAACTAAA
GTCTAAAATGCACCGTTTTAATTAGGATAAAAAAGTGTTGCCAAAAAAAAAAGGACAAAAGAGAA
AATGGAT
Found at i:71060 original size:2 final size:2
Alignment explanation
Indices: 71053--71083 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71043 TGCCCCGACT
71053 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
71084 TCAATGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:74388 original size:12 final size:12
Alignment explanation
Indices: 74371--74403 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
74361 AGTAATAAGG
74371 AGTAAATTAACT
1 AGTAAATTAACT
74383 AGTAAATTAACT
1 AGTAAATTAACT
74395 AGTAAATTA
1 AGTAAATTA
74404 CTATAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (12 bp):
AGTAAATTAACT
Found at i:74750 original size:51 final size:51
Alignment explanation
Indices: 74694--74797 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 51
74684 AAAACAAATC
* *
74694 TATAT-AAACCCAAATATGGCCCAAAAAACCAATATGGTCCAATACCCTACA
1 TATATAAAACCC-AATATGGCCCAAAAAACAAATATGGTCCAAAACCCTACA
**
74745 TATATAAAACCCAATATGGCCCAGCAAACAAATATGGTCCAAAACCCTACA
1 TATATAAAACCCAATATGGCCCAAAAAACAAATATGGTCCAAAACCCTACA
74796 TA
1 TA
74798 AAATGGAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 42 0.88
52 6 0.12
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.19
Consensus pattern (51 bp):
TATATAAAACCCAATATGGCCCAAAAAACAAATATGGTCCAAAACCCTACA
Found at i:94375 original size:22 final size:22
Alignment explanation
Indices: 94347--94391 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
94337 TATATTAGTT
94347 ACTCTATATATGTAAAACAGCA
1 ACTCTATATATGTAAAACAGCA
94369 ACTCTATATATGTAAAACAGCA
1 ACTCTATATATGTAAAACAGCA
94391 A
1 A
94392 GATTTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.27
Consensus pattern (22 bp):
ACTCTATATATGTAAAACAGCA
Found at i:100595 original size:26 final size:26
Alignment explanation
Indices: 100566--100637 Score: 135
Period size: 26 Copynumber: 2.8 Consensus size: 26
100556 ATATAATAAT
*
100566 ATAGTATTAATTATTAAGTAGCAAAA
1 ATAGTATTAATTATTAAATAGCAAAA
100592 ATAGTATTAATTATTAAATAGCAAAA
1 ATAGTATTAATTATTAAATAGCAAAA
100618 ATAGTATTAATTATTAAATA
1 ATAGTATTAATTATTAAATA
100638 ATGAAGCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (26 bp):
ATAGTATTAATTATTAAATAGCAAAA
Found at i:114986 original size:2 final size:2
Alignment explanation
Indices: 114979--115003 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
114969 ATATGTAGTG
114979 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
115004 TAAAGACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:126922 original size:30 final size:30
Alignment explanation
Indices: 126886--127029 Score: 135
Period size: 30 Copynumber: 4.8 Consensus size: 30
126876 ACTGGTCGAT
* *
126886 CTTCTTCAGTAACAAGATCAGCTTCCACAA
1 CTTCTTCAGTAACAAAATCAGCTCCCACAA
* *
126916 CTTCTTCAGCACCAAAATCAGCTCCCACAA
1 CTTCTTCAGTAACAAAATCAGCTCCCACAA
* * **
126946 CTTCTTCAGTTATAAAATCAGCTCCCATTA
1 CTTCTTCAGTAACAAAATCAGCTCCCACAA
* * * * ** *
126976 GTTCTTCAGTTATAAAATCAACTCCTGCTA
1 CTTCTTCAGTAACAAAATCAGCTCCCACAA
* *
127006 CGTCTTCTGTAACAAAATCAGCTC
1 CTTCTTCAGTAACAAAATCAGCTC
127030 TCACTACATC
Statistics
Matches: 93, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (30 bp):
CTTCTTCAGTAACAAAATCAGCTCCCACAA
Found at i:130410 original size:31 final size:31
Alignment explanation
Indices: 130347--130530 Score: 192
Period size: 31 Copynumber: 6.0 Consensus size: 31
130337 ACGTGGCACA
* * *
130347 TGTC-CTTTTT-GTGCACGAGGCATGCCATG
1 TGTCACTTTTTGGTACACGTGGCATGCCACG
* *
130376 TGTCACTTTTTGGTACACATGGCATGACACG
1 TGTCACTTTTTGGTACACGTGGCATGCCACG
* * *
130407 TGTCACTTTTTGGTACATGTGGCGTGCCACA
1 TGTCACTTTTTGGTACACGTGGCATGCCACG
* * *
130438 TGTCACTTTTTGATACATGTGACATGCCACG
1 TGTCACTTTTTGGTACACGTGGCATGCCACG
* ** *
130469 TGTCGCTTTTTGGTACACGTGGTGTGCCACA
1 TGTCACTTTTTGGTACACGTGGCATGCCACG
* * *
130500 TGTCGCTTTTTGGTACACATGACATGCCACG
1 TGTCACTTTTTGGTACACGTGGCATGCCACG
130531 CCTGACACCG
Statistics
Matches: 127, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
29 4 0.03
30 6 0.05
31 117 0.92
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.34
Consensus pattern (31 bp):
TGTCACTTTTTGGTACACGTGGCATGCCACG
Found at i:130442 original size:62 final size:62
Alignment explanation
Indices: 130376--130530 Score: 229
Period size: 62 Copynumber: 2.5 Consensus size: 62
130366 GCATGCCATG
* * *
130376 TGTCACTTTTTGGTACACATGGCATGACACGTGTCACTTTTTGGTACATGTGGCGTGCCACA
1 TGTCACTTTTTGGTACACATGACATGCCACGTGTCACTTTTTGGTACACGTGGCGTGCCACA
* ** * *
130438 TGTCACTTTTTGATACATGTGACATGCCACGTGTCGCTTTTTGGTACACGTGGTGTGCCACA
1 TGTCACTTTTTGGTACACATGACATGCCACGTGTCACTTTTTGGTACACGTGGCGTGCCACA
*
130500 TGTCGCTTTTTGGTACACATGACATGCCACG
1 TGTCACTTTTTGGTACACATGACATGCCACG
130531 CCTGACACCG
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 81 1.00
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (62 bp):
TGTCACTTTTTGGTACACATGACATGCCACGTGTCACTTTTTGGTACACGTGGCGTGCCACA
Found at i:138665 original size:29 final size:29
Alignment explanation
Indices: 138632--138723 Score: 132
Period size: 29 Copynumber: 3.2 Consensus size: 29
138622 TGTTGATGTC
138632 TCGCTATCACGTCCATCACCACCTCATTG
1 TCGCTATCACGTCCATCACCACCTCATTG
****
138661 TCGCT-TGTTTTTCCATCACCACCTCATTG
1 TCGCTAT-CACGTCCATCACCACCTCATTG
138690 TCGCTATCACGTCCATCACCACCTCATTG
1 TCGCTATCACGTCCATCACCACCTCATTG
138719 TCGCT
1 TCGCT
138724 TGTTTTTCCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.02
29 51 0.96
30 1 0.02
ACGTcount: A:0.17, C:0.39, G:0.11, T:0.33
Consensus pattern (29 bp):
TCGCTATCACGTCCATCACCACCTCATTG
Found at i:138733 original size:29 final size:29
Alignment explanation
Indices: 138643--138733 Score: 130
Period size: 29 Copynumber: 3.1 Consensus size: 29
138633 CGCTATCACG
138643 TCCATCACCACCTCATTGTCGCTTGTTTT
1 TCCATCACCACCTCATTGTCGCTTGTTTT
****
138672 TCCATCACCACCTCATTGTCGCTAT-CACG
1 TCCATCACCACCTCATTGTCGCT-TGTTTT
138701 TCCATCACCACCTCATTGTCGCTTGTTTT
1 TCCATCACCACCTCATTGTCGCTTGTTTT
138730 TCCA
1 TCCA
138734 AACAAAAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
28 1 0.02
29 50 0.96
30 1 0.02
ACGTcount: A:0.16, C:0.37, G:0.10, T:0.36
Consensus pattern (29 bp):
TCCATCACCACCTCATTGTCGCTTGTTTT
Found at i:147334 original size:19 final size:19
Alignment explanation
Indices: 147307--147344 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
147297 GTAATTGATC
*
147307 GAGATGATAAAAAACCTCT
1 GAGACGATAAAAAACCTCT
147326 GAGACGATAAAAAACCTCT
1 GAGACGATAAAAAACCTCT
147345 AATCCAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.18
Consensus pattern (19 bp):
GAGACGATAAAAAACCTCT
Found at i:167394 original size:332 final size:328
Alignment explanation
Indices: 165987--170826 Score: 4162
Period size: 331 Copynumber: 14.7 Consensus size: 328
165977 TCTTTTGGCG
** ** * * * *
165987 TAATTTTTATGAGTATTATGGTAAAAAATTG-GGATAAAATTTTTCGGGTTAGTTTCTACAAAAT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGG--AAAATTTTTCGGGTCAATTTTTGCAAAAT
* ** * * * * *
166051 TTTAGCCGAAATCGTGTAATAACCGTTACGGTTTCTGGCTAAAAACGCATT-CGGAGCCTCAGCT
64 TTTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAGCC-CGGCT
* **
166115 CAGTTTTGCATGATTTTTGGCACAT-ATTATTATTGAAATATCTATATTCATCTAACCAAATCTC
128 CAGTTTTGCATGATTTTTGGCAC-TGA-GATCCTTGAAATATCTATATTCATCTAACCAAATCTC
* ** *
166179 AGTCACATTATATTTAAGGATTT-TTTTTACGAACATCTGAATCATGTTTCGATTTAATCAGAAA
191 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAA
* * * *
166243 TTAATTTGGAAAGAAATAGGAAAAACGATATTAGAGGCGTGGAAAGCCTTTCAATCTTTTTGGCA
256 TTAATTTGGAAA-AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAT-TTTTTGGAA
*
166308 TTGAATTATG
319 TTGAATTATA
* **
166318 TATTTTTTATGAGTATAATGGCCAAAAATTGAGGAAAATCTTTTCGGGTCAAATCTTTT-CAAAA
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAAT-TTTTCGGGTC-AAT-TTTTGCAAAA
* * * * * *
166382 TGTTCGCCGAAATCGTGTACGT---TATCACGATTTCTGACTAAAAACGCGTTCCGCAGCCCTGA
63 TTTTAGCCGAAATCGTGTAC-TAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAGCCC-GG
* ** * * * * *
166444 TTCAGTTTTGCAAAATTTTTGGCGCCGAGACTCCTTGCAATATTTATATTCGTCTAACCAAATCT
126 CTCAGTTTTGCATGATTTTTGGCACTGAGA-TCCTTGAAATATCTATATTCATCTAACCAAATCT
* * *
166509 CAGCCACATTGGATTTAAGGATTTGTTTTAACGAGCATATGAAGCAT-TTTCGATTTAATCA-AA
190 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAA
* * * * * **
166572 ATTAATTTGG-AAAAACAGGAAAAATGATATTAGAAGGGTGAAAAGGCCTTCAAATATTTTGGCG
255 ATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTC-AATTTTTTGGAA
*
166636 TTAAATTATA
319 TTGAATTATA
* * * * * * *
166646 TAATTTTTATAAGTATTGTGG-AAAAAATTG-GGACAAAATTTTTCGGTTTAGTTTTTACAAAAT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGG--AAAATTTTTCGGGTCAATTTTTGCAAAAT
* ** * * * * *
166709 TTTAGCCGAAATCGTGTAATAACCGTCACGGTTTCTGGCTAAAAACGCGTTCTGGAGTCTCAGCT
64 TTTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAG-CCCGGCT
* * * *
166774 TAGTTTTACATGATTTTTGGCACAT-ATTATCATTGAAATATCTATATTCATCTAACCAAATCTC
128 CAGTTTTGCATGATTTTTGGCAC-TGA-GATCCTTGAAATATCTATATTCATCTAACCAAATCTC
** * * * *
166838 AGCCACATTATATTTATGGATTTTTTTTTGTTTTTACGAACATTTGAATCATGTTTCG-TTATTA
191 AGCCACATTGGATTTAAGGA------TTTGTTTTTACGAGCATCTGAATCATGTTTCGATT-TAA
* * * *
166902 TCAG-----AATTTGGAAAGAAATAGGAAAAATGATATTAGAGGCGTGGAAAGCCTTTCAATCTT
249 TCAGAAATTAATTTGGAAA-AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAT-TT
*
166962 TTTGGAATTGAATTATG
312 TTTGGAATTGAATTATA
* ** *
166979 T-ATTTTTATGAGTATCGTCGCCAAAAATTGAGGAAAATCTTTTCAGTTTAAATCTTTT-CAAAA
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAAT-TTTTC-GGGTCAAT-TTTTGCAAAA
* * * * *
167042 TGTTCGCCGAAATCGTGTACTAACTATCATGATTTTTGGCTAAAAATGCGTTCTGGAGCACCGGC
63 TTTTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAGC-CCGGC
* * * * *
167107 TCAGTTTTGCATGATTTTTGCCGCTGGGACTCCTCT-AAATATTTTTATTCATCTAA-CAAATCT
127 TCAGTTTTGCATGATTTTTGGCACTGAGA-TCCT-TGAAATATCTATATTCATCTAACCAAATCT
* ** *
167170 CAGCCACATTGGATTTAAGGATTTGTTTTAACGAGCATCTGAAGAAT-TTTCGATTTAATGAGAA
190 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAA
*
167234 ATTAATTTGGAAAAAAAATAGGAAAAACGATATTAGAAGCGTAAAAAGCCCTTCAATGTTTTTGG
255 ATTAATTTGG--AAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAT-TTTTTGG
*
167299 AATTGAATTGTA
317 AATTGAATTATA
* * * * *
167311 TAATTCTTATGAGTATTGTGGCCAAAAATGGAGGAAAATCCTTACGGGTCAATTTTTGCAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAAT-TTTTCGGGTCAATTTTTGCAAAATT
* * * * *
167376 TTAGCCGTAATCGTGTACTAACTATAACGATTTTTGGCTAAATACGCGTTTCGGAGCCCCGTCTC
65 TTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAG-CCCGGCTC
* *
167441 AGTTTT-CATGATTTTTGGCGCTGAGACTCCTTGAAATATCTATATTCATCTAACTAAATCTCAG
129 AGTTTTGCATGATTTTTGGCACTGAGA-TCCTTGAAATATCTATATTCATCTAACCAAATCTCAG
** * * * * *
167505 TTACGTTGGATTTCAGGATTTATTTTTACGAGCATGTGAATCATGTTTCGATTTAGTC-GAAAAT
193 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAG-AAAT
* * * * * * *
167569 TAGATTT-GAAAAAATATGAAAAACAATGTTAGAAGTGTGAAAAGCCATTAAATTTTTTAGGATT
257 TA-ATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATTTTTT-GGAAT
167633 TGAATTATA
320 TGAATTATA
* * * ** * * * * *
167642 TAAATTTTATAAATAAAGTGGCCGAAAATTAAGGCAAAATTTTTCAGGTTAGTTTTTGCAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGG-AAAATTTTTCGGGTCAATTTTTGCAAAATT
* * * * * * * *
167707 TTAGGCGAAATTGTGTACTAAAC-ACCACGGTTTTTGGTTAATAACGCGTTCCGGGACCCCGACT
65 TTAGCCGAAATCGTGTACT-AACTATCACGATTTTTGGCTAAAAACGCGTTCC-GGAGCCCGGCT
* * * * * *
167771 TAGTTTTGCATGATTTTTGGCACCGATTATCATTGAAATATCTCTATTCATCTAACAAAATCTCA
128 CAGTTTTGCATGATTTTTGGCACTGA-GATCCTTGAAATATCTATATTCATCTAACCAAATCTCA
* * *
167836 GCGACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATTAGAAAT
192 GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAAT
* * * * *
167901 TAATTCGGGAAAAAGAGG-AAAACGATATTAGAAGCGTGAAAAG-CTTCTCAATCTTTTT-TAGA
257 TAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCT-TCAAT-TTTTTGGA-A
*
167963 TAGAATTATA
319 TTGAATTATA
* *
167973 T-ATTTCTTATGAGTATCGTGGTCC-AAAATTGAGAAAAATTCTTTCGGGTCAATTTTTGTAAAA
1 TAATTT-TTATGAGTATCGTGG-CCAAAAATTGAGGAAAATT-TTTCGGGTCAATTTTTGCAAAA
* * * *
168036 TTTTAGCTGAAAT--TGTA-T-ACTATCACGATTTTAGGCTAAAAATGCGTTCCGGAGCCCTGAC
63 TTTTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAGCCC-GGC
* *
168097 TCAGTTTTGCATGATTTTAGGCACTGAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTC
127 TCAGTTTTGCATGATTTTTGGCACTGAGA-TCCTTGAAATATCTATATTCATCTAACCAAATCTC
* ** * *
168162 AGCCACATTCGATTTAAGGATTTGTTTAAATGAGCAT-TGAAGCAT-TTTCGATTTAATCA-AAA
191 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAA
* * * **
168224 TTAATTTTGAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAATCCCTTCAAATATTTTGGCG
256 TTAA-TTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTC-AATTTTTTGGAA
168289 TTGAATTATA
319 TTGAATTATA
* * * * * * *
168299 -AAATTTTATGAGTATTGTAGCCAAAAATCGAGGCAAAATTTTTCGGGTTAGTTTTT-AAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGG-AAAATTTTTCGGGTCAATTTTTGCAAAA-T
* *
168362 TTTAGCCAAAATCGTGTACTAA-TCATCACGGTTTTTGGCTAAAAACGCGTTCCGG-GTCCTCGG
64 TTTAGCCGAAATCGTGTACTAACT-ATCACGATTTTTGGCTAAAAACGCGTTCCGGAG-CC-CGG
* * *
168425 CTCAGTTTTGCATGATTTTAGGCACAT-ATTATCGTTGAAATATCTATATTCATCTAACCAAATC
126 CTCAGTTTTGCATGATTTTTGGCAC-TGA-GATCCTTGAAATATCTATATTCATCTAACCAAATC
* * * * * * *
168489 TCAGCCACGTTAGATTTAAAGA-TTATTTTTACGAACATCTGAATCATGTTTTGATTAAATCAGA
189 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGA
* * * * *
168553 ATTTAATTTGGAAAAAATAGGAAAAACGATATTAGAGGCGTGGAAAA-TCTTTTAATCTTTTTGG
254 AATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGT-GAAAAGCCCTTCAAT-TTTTTGG
* *
168617 CATTGAATTATG
317 AATTGAATTATA
* * * ** * **
168629 TATTTTTTATGAGTGTCGTGGCCAAAAATTGAGGAAGATCCCTTCAGGTCAACATTTGCAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAAT-TTTTCGGGTCAATTTTTGCAAAATT
* ** * ** * * *
168694 TTAGCCGTAATCGTGTACTTTCTATAACGATTTCGGGCTAAATACGCGTTTCGGAGCCCCGTCTC
65 TTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAG-CCCGGCTC
* * * * * *
168759 AGTTTTCCATGATTTTTGGCGCCGAGACTCCTTGAAATATCTATCTTTATCTAACTAAATCTCA-
129 AGTTTTGCATGATTTTTGGCACTGAGA-TCCTTGAAATATCTATATTCATCTAACCAAATCTCAG
* * * * * * *
168823 CTTACGTTGGATTTTAGGATTTATTTTTATGAGCATGTGAATCATGTTTCGATTTAGTC-GAAAA
193 C-CACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAG-AAA
* * * * * *
168887 TTAAATTT-AAAAAAATAGGAAAAACAATGTTAGAAGTGTGAAAAGCCCTTCAATTTTTAGGATT
256 TT-AATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATTTTTTGGAAT
168951 TGAATTATA
320 TGAATTATA
* * * ** ** * * * *
168960 TAAATTTTATAAATAAAGTGGCTGAAAATTAAGGCAAAGTTTTTCGGGTCAGTTTTTGTAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGG-AAAATTTTTCGGGTCAATTTTTGCAAAATT
** * * * * * *
169025 TTAGGTGAAATTGTGTACTTACCATCAC-AGTTTTTGGTTAAAAACGCGTTCCAGGACCCCAGCT
65 TTAGCCGAAATCGTGTACTAACTATCACGA-TTTTTGGCTAAAAACGCGTTCC-GGAGCCCGGCT
* * * * * * *
169089 TAATTTTGCATGATTTTTGGCACAGATTATCATTGAAATATCTCTATTCATCTAACCAAATCTTA
128 CAGTTTTGCATGATTTTTGGCACTGA-GATCCTTGAAATATCTATATTCATCTAACCAAATCTCA
* * * *
169154 GCCACATTGGGTTTAAGGATTT-TCTTTTACGAGCATTTGAAATCATGTTTCGATTTAATTAAAA
192 GCCACATTGGATTTAAGGATTTGT-TTTTACGAGCATCTG-AATCATGTTTCGATTTAATCAGAA
* * * *
169218 ATTAATTCGG-GAAAATAGGAAAAACAATATTAGATGCGTGAAAAG-CCTCTCAATCATTTTT--
255 ATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCT-TCAAT--TTTTTGG
*
169279 AGTTAGAATTATA
317 AATT-GAATTATA
** * *
169292 T-ATTTCTTATGAGTATAATGGTCC-AAAATTGAGAAAAATTCTTTCGGGACAATTTTTGCAAAA
1 TAATTT-TTATGAGTATCGTGG-CCAAAAATTGAGGAAAATT-TTTCGGGTCAATTTTTGCAAAA
* * * * * *
169355 TTTTACCCAAAATCGTGTACAAACTATCACGATTTTGGGCTAAAAACGCGTTCCGAAGCCCCGAC
63 TTTTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAG-CCCGGC
* * * **
169420 TCAATTTTGCATGATTTTAGG--C---G--CC--G--------AGATTCATCTAACTTAATCTCA
127 TCAGTTTTGCATGATTTTTGGCACTGAGATCCTTGAAATATCTATATTCATCTAACCAAATCTCA
* * * * * * * *
169468 ACCATATTGGATTTAAGGATTTGTTTTTACGAGCACCTAAATAATGTTTTCGTTTTAATTAAAAA
192 GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATG-TTTCGATTTAATCAGAAA
* * * * * * *
169533 TTAATTTGGGAAAAAGAGGAAAAACGATATTAAAAGTGTAAAAAG-TCTCTCAATCTTTTT-TAG
256 TTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCT-TCAAT-TTTTTGGA-
*
169596 ATAGAATTATA
318 ATTGAATTATA
* *
169607 T-ATTTCTTATAAGTATCGTGGTCC-AAAATTG-GGAAAAATTCTTTCTGGTCAATTTTTGCAAA
1 TAATTT-TTATGAGTATCGTGG-CCAAAAATTGAGG-AAAATT-TTTCGGGTCAATTTTTGCAAA
* * * * *
169669 ATTTTAGCCGAAATTGTGTACTAACTATCATGATTTTTGGCTAAAAACGCATTCCGGAGTCGCAG
62 ATTTTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAG-CCCGG
* * * * *
169734 CTCAGTTTTGCATAATTTTTGGCGCCGAGACTCCTTGAAATATCTTTATTCATCTAACCAAATTT
126 CTCAGTTTTGCATGATTTTTGGCACTGAGA-TCCTTGAAATATCTATATTCATCTAACCAAATCT
* ** *
169799 CAGCCACATTGGATTTAACGATTTGTTTAAACGAGCAT-TGAAGCAT-TTTCGATTTAATC-GAA
190 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAA
* *
169861 ATTAATTTGGAAAAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAATATTTA
255 ATTAATTTGG----AAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTC-AATTTTTT
** *
169926 GGCCTTGAATTGTA
315 GGAATTGAATTATA
* * * * * * * * * *
169940 TTATTTTTATGATTATTGTGCCCAAAAATCGAGAAAAAATTTTTCGGGTTAGTTATTACAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAG-GAAAATTTTTCGGGTCAATTTTTGCAAAATT
* * * * * *
170005 TTAGCTGAAATCATGTACTGATTGTCAC-AGTTTTTGGCTAAAAATGCGTTCCGG-GTCCTCGGC
65 TTAGCCGAAATCGTGTACTAACTATCACGA-TTTTTGGCTAAAAACGCGTTCCGGAG-CC-CGGC
* * * *
170068 TCAGTTTTGCATGATTTTAGCCACAT-ATTATCATTGAAATATCTATATTCATCTAACCAAATCT
127 TCAGTTTTGCATGATTTTTGGCAC-TGA-GATCCTTGAAATATCTATATTCATCTAACCAAATCT
* * * * *
170132 CAGCCACATTAGATTTAAAGA-TTATTTTTACGAACATCTGAATCATGTTTTGATTTAATCAGAA
190 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAA
* * * * * * *** *
170196 AATAATTTGGAAAAAATACGTAAAACAATATTAGAGGCGTGGAAAGTTTTTTAATCTTTTT-GAC
255 ATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAAT-TTTTTGGA-
* *
170260 ATTGAATTTTG
318 ATTGAATTATA
* * * *
170271 TATTTTTTATGAGTATCATGGCCAAAAATTGAGGAAAATCCTTTCGGGTCAAATTTTGCAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAAT-TTTTCGGGTCAATTTTTGCAAAATT
* * * * * * * * *
170336 TTAGTCGTAATTGTGTACTAACTATAACGATTTTTGGGTAAATACGCGTTTCGGAGTCTCGTCTC
65 TTAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAG-CCCGGCTC
* * * * *
170401 AGTTTTGCTTGATTTTAGGCGCCGAGACTTCTTGAAATATCTATATTCATCTAACCAAATCTCAG
129 AGTTTTGCATGATTTTTGGCACTGAGA-TCCTTGAAATATCTATATTCATCTAACCAAATCTCAG
* * *
170466 TCACATTGGATTTAAGGATTTGTTTTAACGAGCAT-TGAAGCAT-TTTCGATTTAATCA-AAATT
193 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATT
* * * * * **
170528 AA-TTAGAAATAA-AGGAAAAACAATATTAGAAGCATGAAAAGCCCTTCAAATATTTTGGCGTTG
258 AATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTC-AATTTTTTGGAATTG
170591 AATTATA
322 AATTATA
* ** * * *
170598 TAATTTTTATGAGTATTGTGGCCAAAAATCAAGGCAAAATTTTTCGGGTTAGTTTTTACAAAATT
1 TAATTTTTATGAGTATCGTGGCCAAAAATTGAGG-AAAATTTTTCGGGTCAATTTTTGCAAAATT
** * * * * * *
170663 TTAGCCGAAATCGTGTACTAACCGTCACGGTTATTT-GCTAAAAATGCATT-----TCTCGGCTA
65 TTAGCCGAAATCGTGTACTAACTATCACGATT-TTTGGCTAAAAACGCGTTCCGGAGCCCGGCTC
* * *
170722 AGTTTTGCATGATTTTTGTCACAT-ATTATCATTGAAATATCTATATTCATCTAACCAAATCTCA
129 AGTTTTGCATGATTTTTGGCAC-TGA-GATCCTTGAAATATCTATATTCATCTAACCAAATCTCA
*
170786 GCCACA-TGAGATTTAAGGATTT-TTTTTACGAGCAGCTGAAT
192 GCCACATTG-GATTTAAGGATTTGTTTTTACGAGCATCTGAAT
170827 ACTGGCCGAA
Statistics
Matches: 3619, Mismatches: 705, Indels: 380
0.77 0.15 0.08
Matches are distributed among these distances:
313 6 0.00
314 79 0.02
315 172 0.05
316 1 0.00
317 1 0.00
320 14 0.00
321 81 0.02
322 2 0.00
323 2 0.00
324 14 0.00
325 76 0.02
326 100 0.03
327 283 0.08
328 200 0.06
329 148 0.04
330 172 0.05
331 1030 0.28
332 632 0.17
333 417 0.12
334 162 0.04
335 27 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (328 bp):
TAATTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAATTTTTCGGGTCAATTTTTGCAAAATTT
TAGCCGAAATCGTGTACTAACTATCACGATTTTTGGCTAAAAACGCGTTCCGGAGCCCGGCTCAG
TTTTGCATGATTTTTGGCACTGAGATCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCA
CATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTAAT
TTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATTTTTTGGAATTGAATT
ATA
Found at i:171948 original size:331 final size:331
Alignment explanation
Indices: 170829--173684 Score: 4009
Period size: 331 Copynumber: 8.6 Consensus size: 331
170819 AGCTGAATAC
* * ** *
170829 TGGCCGAAATCGTGTATTAACAATCACAGTTTTTGGCTAAAAACGCGTTCCAAGGCCCCGACACA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* * *
170894 GTTTTGGATGTTTTTTGGCAGCAAAACTTCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
66 GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
* *
170959 CACAATGGATTTAAGGATAAGGCTTCATGACCATCTGAATTATAATTCGAATTAAATAGAAATTA
131 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
* * * *
171024 ATTTAGGAAAATAGGAAAAACGATATTAGAAGCCTGATAAGTCCTAAAATTTTATTGGCGTTGAG
196 ATTTAGGAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTGAG
* * *
171089 TTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATGTTTTCGGAACAGTTTTTGCA
261 TTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATTTTTTTGGGACAGTTTTTGCA
*
171154 AAACTT
326 AAATTT
* *
171160 TGGCCGAAATCGTGTACTAACCATTACAGTTTTTGGCTAAAAACGCGTTCCTGGTCCCCGGCACA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* * *
171225 GTTTTGGCTGATTTTTGGCAGCAAGACTCCTTAAATTAAGTAAATTCATCTAACCAAATCTCAGC
66 GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
*
171290 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAAATAGAAATTA
131 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
*
171355 ATTTA-G------G-AAAAACGATATTAGAAGCTTGAAAAGCCCTTAAATTTTATTGGCGTTGAG
196 ATTTAGGAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTGAG
* *
171412 TTATATATTTTTTATGAGTACTGTGGTTAAAAATTGAGG-AAATTTTTTTGGGACAGTTTTGGCA
261 TTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATTTTTTTGGGACAGTTTTTGCA
171476 AAATTT
326 AAATTT
* *
171482 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAGAAACGCATTCCT-GGCCCCGGCACA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
*
171546 GTTTTGGATGATTTTTGACAG-AGAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAA
66 GTTTTGGATGATTTTTGGCAGCA-AGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTC-A
* * * * * * * *
171610 TCCAAAATGGATTCAAGGATAAGGTTTTACGACCATCTGATTTATAATTCGATTTAATTAAAAAT
129 GCCACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAAT
* ** * *
171675 TAATTCAAAAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCATTAAATATTATTGGCGTTG
194 TAATTTAGGAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTG
* *
171740 AGTTATACATTTTTTATGAGTACTGTGGCTAAAAATTGAGCAAAATTTTTTTGGGACAGTTTTTG
259 AGTTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATTTTTTTGGGACAGTTTTTG
171805 CAAAATTT
324 CAAAATTT
** * * * * * *
171813 TGGCCGAAATAATGTACTAAGCATCATAGTTTTTGGCTAGAAATGCGTTCCTGGGCCCTGGCATA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* * * *
171878 ATTTTGGATGATTTTTGGCAGCATGACTCCATAAAATATCTAAATTCATCTAACCAAATCTCAGC
66 GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
* * *
171943 CAAAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATAATAATTCGAATTAAATAGAAATTA
131 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
* * * *
172008 ATTTAGGAAAATA-AGAAATATGATATTAGAAGCCTGAAAAGCCCTTAAATATTATTGGTGTTGA
196 ATTTAGGAAAATAGA-AAAAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTGA
* * *** *
172072 GTTATATATTTTTTACGAGTACTGTGGCTACAAATTGAGGAAAAAAGTTTTGGGACAGCTTTTGC
260 GTTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATTTTTTTGGGACAGTTTTTGC
*
172137 AAAACTT
325 AAAATTT
* * * *
172144 TGGCCGAAATCGTGTACTAACTATTACAGTTTTTGGCTAAAAACGCGTTTCTGGTCCCCGGCACA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* * * *
172209 GTTTTGGCTGATTTTTGGAAGCAAGACTCCTTAAAATAAGTAAATTCATCTAACCATATCTCAGC
66 GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
*
172274 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTAAATTATAATTCGAATTAATTAGAAATTA
131 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
* *
172339 ATTTAGGAAAATAGGAAAAACGATATTAGAATG-TTGAAAAGCCCTTAAATTTTATTGGCGTTGA
196 ATTTAGGAAAATAGAAAAAACGATATTAGAA-GCCTGAAAAGCCCTTAAATTTTATTGGCGTTGA
* * *
172403 GTAATATATTTTTTATGAGTACTGTGGCTAAAAATTAAGGAAAACTTTTTTGGGGGACAGTTTTT
260 GTTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAA-TTTTTT-TGGGACAGTTTTT
172468 GCAAAATTT
323 GCAAAATTT
* * * *
172477 TGGCCGAAATCGTGTACTAACCATCCCAGTTTTTGGCTAAAAACGCATTCCTAGGCCCCGTCACA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* * *
172542 ATTTTGGATGATTTTTGGCAGCATGACTCCTTAAAATATCTAAATTCATCTAACCAAATCTCAGC
66 GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
* * *
172607 CAAAATGGTTTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAAATAGAAATTA
131 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
* *
172672 ATTTAGGAAAATA-AGAAATACGATATTAGAAGCCTGAAAAGCCCTTAAATATTATTGGCGTTGA
196 ATTTAGGAAAATAGA-AAAAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTGA
*
172736 GTTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATGTTTTTGGGACAGTTTTTTG
260 GTTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATTTTTTTGGGACAG-TTTTTG
172801 CAAAATTT
324 CAAAATTT
* * * * *
172809 TGGCCGAAATCGTGTATTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTTGGCTCCGACATA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* * * *
172874 GTTTTGGATGATTTTTAGAAGCAAGACTCCTAAAAATATGTAAATTCATTTAACCAAATCTCAGC
66 GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
* * *
172939 CACAATGGATTTAAGGATAAGTCTTTACGACCATCTGAATTATAATTCGATTTAATTAGAAATTA
131 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
* * * * * **
173004 ATTTAGGAAACTAGGAAAAACAATATTAGAAACCTGAAAAGCCTTTAAATTTTATTGGTATTGAG
196 ATTTAGGAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTGAG
*
173069 TTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGTAAAA--TTTTTGGGAAAGTTTTTGC
261 TTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGG-AAAATTTTTTTGGGACAGTTTTTGC
173132 AAAATTT
325 AAAATTT
* * * * * * * *
173139 TGGCAGAAATCGTGTATTAACCAACACAATTTTTTGCTAAAAACGCGTTCTTGGGCTCCAGCACA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* *
173204 GTTTTGGATGATTTTTGGCAG-AGAGACTCCTTCAAATATGTAAATTCATCTAACCAAATCTAAG
66 GTTTTGGATGATTTTTGGCAGCA-AGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAG
* * * * * * * * *
173268 CCATAATGGATTTAAGGATAATGTTTTACGACCATCTGATTTATAATTCGATTTAATGAAAAAAT
130 CCACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATT
* ** * * * *
173333 AATTCAAAAAAATAAAAATAAACGATATTAGAAGCCGGAAAAGCCATTAAATTTTACTGGCGTTG
195 AATTTAGGAAAATAGAAA-AAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTG
* * ***
173398 AGTTATATATTTTTTACGAGTACTGTGGCTAAAATTTGAGGAAAAAAGTTTTGGGACAGTTTTTG
259 AGTTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATTTTTTTGGGACAGTTTTTG
*
173463 CAAAACTT
324 CAAAATTT
* * * *
173471 TGGCCGAAATCGTGAACTAACTATCACAGTTTTTGGCTAAAAACGCGTTTCTGGTCCCCGGCACA
1 TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
* * * * * *
173536 GTTTTGGCTGATTTTTGGAAGCAAAACTCCTTAAAATAAGTAAATTCATCTACCCATATCTCAGC
66 GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
* * *
173601 CACAATGGATTTAAGGATAAAGCTTTATAACCATCCGAATTATAATTCGAATTAATTAGAAATTA
131 CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
* *
173666 ATTTAGTAAAATAGGAAAA
196 ATTTAGGAAAATAGAAAAA
Statistics
Matches: 2235, Mismatches: 262, Indels: 56
0.88 0.10 0.02
Matches are distributed among these distances:
320 1 0.00
321 67 0.03
322 138 0.06
323 84 0.04
324 1 0.00
329 2 0.00
330 284 0.13
331 803 0.36
332 555 0.25
333 300 0.13
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (331 bp):
TGGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCTGGGCCCCGGCACA
GTTTTGGATGATTTTTGGCAGCAAGACTCCTTAAAATATGTAAATTCATCTAACCAAATCTCAGC
CACAATGGATTTAAGGATAAGGCTTTATGACCATCTGAATTATAATTCGAATTAATTAGAAATTA
ATTTAGGAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTAAATTTTATTGGCGTTGAG
TTATATATTTTTTATGAGTACTGTGGCTAAAAATTGAGGAAAATTTTTTTGGGACAGTTTTTGCA
AAATTT
Done.