Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007640.1 Hibiscus syriacus cultivar Beakdansim tig00024058_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: 29177
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Found at i:1209 original size:321 final size:320
Alignment explanation
Indices: 486--1327 Score: 845
Period size: 321 Copynumber: 2.6 Consensus size: 320
476 GATCTTACAT
* *
486 AGTTGGAGGCGTAGAATCGATTCCGCACGCTCTTGACTCTCGGCGAGGC-TCTCTGAGCCGAAAC
1 AGTTGGAGGCGTAGAATCGATTCCGCACG--GTTGACTCTCTGCGAGGCTTC-CTGAGCCGAAAC
* * * *
550 AGTCAGAAACTGGTCAAAAACGAGCATTTCCGACCACTTTTTGACTCTTTCTGGAGCATTTTCAG
63 AGTCAAAAACAGGTCAAAAACGAGCATTTCTGACCAC-TTTTGACTCTTTCT-GAGC-GTTTCAG
* *
615 CAGATAGCTGTAAGCGAGGG-CTTGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAAT
125 CAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAAT
* * * ** * *
679 TCAAAGCGAGCTTACTGGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCGAAAAATTTAGTC
190 TCCAAGCGAGCTAACTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCGAAAAATTTAGTC
*** *
744 CATGTAACCCATGTCAGTTTTTCTCCAGTTTGGACTGAGAAAAAACGTTTGAAATTTCAGTTGCA
255 CATGT-A--CA-G-CAG-TTTTCTCCAGTTTGGACTGAGAAAAAAAAATCGAAATTTCAGTTGCA
*
809 TCTACGT
314 TCTACGC
* *
816 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAG-C----C-
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGT--TGACTCTCTGCGAGGCTTCCTGAGCCGAAACA
*
875 G---AAAACA-GTCAAAAACGAGCATTTCTGAACACTTTTGACTCTTTCTCCGTAGCGTTTCAGC
64 GTCAAAAACAGGTCAAAAACGAGCATTTCTGACCACTTTTGACTCTTTCT--G-AGCGTTTCAGC
936 AGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCG-GTCAATT
126 AGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATT
* * * *
1000 CCAAGCG-GCCTAACTTGCTTTCGGCTCGATCGGCGAACTATCGATTTTGA-CGCTAAAGTTTAG
191 CCAAGCGAG-CTAAC-TGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCG-AAAAATTTAG
* *
1063 TCCATGT-C-G-A-TTTTCTCGA-TTTGGGACTGA-AAAAAAAAATCGAGATTTCAGTCT-CATC
253 TCCATGTACAGCAGTTTTCTCCAGTTT-GGACTGAGAAAAAAAAATCGAAATTTCAGT-TGCAT-
1121 CTACGC
315 CTACGC
* * *
1127 AGTTGGAGGCGTAGAATCGATTCCGCACGGTTGGCGCTCTGCGAGGCTTCCTTAGCCGAAAAACA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTTGACTCTCTGCGAGGCTTCCTGAGCCG--AAACA
* *
1192 GTCAAAAACAGGTC-AAAACGAGCTTTTCTGACCAATTTTTGACTCTTTGGCTAGAGCGTTTTCA
64 GTCAAAAACAGGTCAAAAACGAGCATTTCTGACC-ACTTTTGACTCTTT--CT-GAGCG-TTTCA
* * * * * * * * *
1256 GCGGACAGCCCGAAGCGA-GGACTCGCGGAGCTTTCAGACTGGAGAATCGCACTTAGCGTGTC-A
124 GCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAA
1319 TT-CAAGCGA
189 TTCCAAGCGA
1328 TTATGCGAGA
Statistics
Matches: 435, Mismatches: 47, Indels: 69
0.79 0.09 0.13
Matches are distributed among these distances:
309 19 0.04
310 24 0.06
311 52 0.12
313 1 0.00
315 1 0.00
316 1 0.00
317 2 0.00
319 15 0.03
320 97 0.22
321 145 0.33
322 23 0.05
323 2 0.00
324 1 0.00
325 1 0.00
328 1 0.00
329 1 0.00
330 47 0.11
331 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (320 bp):
AGTTGGAGGCGTAGAATCGATTCCGCACGGTTGACTCTCTGCGAGGCTTCCTGAGCCGAAACAGT
CAAAAACAGGTCAAAAACGAGCATTTCTGACCACTTTTGACTCTTTCTGAGCGTTTCAGCAGATA
GCTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAAG
CGAGCTAACTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCGAAAAATTTAGTCCATGTA
CAGCAGTTTTCTCCAGTTTGGACTGAGAAAAAAAAATCGAAATTTCAGTTGCATCTACGC
Found at i:2703 original size:332 final size:332
Alignment explanation
Indices: 1976--2661 Score: 1318
Period size: 332 Copynumber: 2.1 Consensus size: 332
1966 ATGTAGGTAC
1976 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
1 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
*
2041 GTCAAAAACTCCAGTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
66 GTCAAAAACTCCACTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
2106 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
131 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
2171 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
196 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
* * *
2236 TCTTCCCCTGTCGATTTTTCTCGATTTTGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
261 GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
2301 TACATAG
326 TACATAG
2308 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
1 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
*
2373 GTCAAAAACTCCACTGTTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
66 GTCAAAAACTCCACTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
2438 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
131 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
2503 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
196 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
*
2568 GGTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
261 GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
2633 TACATAG
326 TACATAG
2640 TTGGAGGCGTAGAATCGATTCC
1 TTGGAGGCGTAGAATCGATTCC
2662 GCACGGTCTT
Statistics
Matches: 348, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
332 348 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (332 bp):
TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
GTCAAAAACTCCACTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
TACATAG
Found at i:3339 original size:318 final size:324
Alignment explanation
Indices: 2638--3560 Score: 981
Period size: 318 Copynumber: 2.8 Consensus size: 324
2628 GATCTTACAT
*
2638 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCGGCGAGGC-TCTCTGAGCCGAGAA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTC-CTGAGCCGAGAA
* * * *
2702 ACAGTCAGAAACTGGTCAAAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCATTT
65 A-A--C----A--GGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTC-AGAGCGTTT
* *
2767 TCAGCAGATAGCTGTAAGCGAGGGACTTGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAG
120 TCAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAG
* * * ** * *
2832 TCAATTCAAAGCGAGCTTACTTGGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAAA
185 TCAATTCCAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAA
* ** *
2897 TTTAGTCCATGTAACCCATGTCAGTTTTTCTCCAGTTTGGACTGAGAAAAAACGTTTGAAATTTC
250 TTTAGTCCATGT-A--CA-G-CAGTTTTTCTCCAGTTTGGACTGAAAAAAAAAATTCGAAATTTC
*
2962 AGTTGCATCCTACGT
310 AGTTGCATCCTACGC
** *
2977 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAGCCGAG-AA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAGAAA
* *
3041 ACA-GTCAAAAACGAGCATTTCTGAACACTTTTTGACTCTTTCTCCGTAGCGTTTTCAGCAGATA
66 ACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAG-AGCGTTTTCAGCAGATA
*
3105 GCTCTAAGCGAGGGACTCGCGGAGC-TTTCGGACTCGAAAATCGCACTCAGCGGGTCAATTCCAA
130 GCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAA
* * * * *
3169 GCG-GCCTAACTTGCTTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCCA
195 GCGAG-CTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCA
* *
3233 TGT-C-G-A-TTTTTCTCGA-TTTGGGACTGAAAAAAAAAATTCGAGATTTCAGTCT-CATCCTA
259 TGTACAGCAGTTTTTCTCCAGTTT-GGACTGAAAAAAAAAATTCGAAATTTCAGT-TGCATCCTA
3292 CGC
322 CGC
* * *
3295 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGGCGCTCTGCGAGGCTTCCTTAGCCGAAAAA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCG-----
* * *
3360 CAGTCAAAAACAGGTCAAAAACGAGCTTTTCTGACCAATTCTTGACTCTTTGGCT-AGAGCGTTT
61 -AG---AAAACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTT--CTCAGAGCGTTT
* * * * * * * * *
3424 TCAGCGGACAGCCCGAAGCGAGGGACTCGCGGAGCTTTTCAGACTGGAGAATCGCACTTAGCGTG
120 TCAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAG
** * * * * *
3489 TCAATTCCAAGCGAGCTTCCTCGGTTTCAGCCTGATCGGCGAACTTTCGATTTCGACCCCG-AAA
185 TCAATTCCAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGA-CCCGAAAA
3553 ATTTAGTC
249 ATTTAGTC
3561 GATTAAAGAA
Statistics
Matches: 500, Mismatches: 63, Indels: 51
0.81 0.10 0.08
Matches are distributed among these distances:
317 3 0.01
318 97 0.19
319 2 0.00
321 1 0.00
323 1 0.00
324 2 0.00
326 1 0.00
327 92 0.18
328 82 0.16
329 72 0.14
330 80 0.16
331 6 0.01
335 1 0.00
337 1 0.00
338 2 0.00
339 55 0.11
340 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (324 bp):
AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAGAAA
ACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAGAGCGTTTTCAGCAGATAG
CTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAAG
CGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCATG
TACAGCAGTTTTTCTCCAGTTTGGACTGAAAAAAAAAATTCGAAATTTCAGTTGCATCCTACGC
Found at i:5138 original size:327 final size:329
Alignment explanation
Indices: 4536--5468 Score: 1049
Period size: 327 Copynumber: 2.8 Consensus size: 329
4526 GGATCTTACA
*
4536 TAGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCGGCGAGGC-TCTCTGAGCCGAGA
1 TAGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTC-CTGAGCCGAGA
* * * *
4600 AACAGTCAGAAACTGGTCAAAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCATT
65 AA-A--C----A--GGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTC-AGAGCGTT
* *
4665 TTCAGCAGATAGCTGTAAGCGAGGGACTTGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGA
120 TTCAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGA
* * * ** * *
4730 GTCAATTCAAAGCGAGCTTACTTGGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAA
185 GTCAATTCCAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAA
* * ** *
4795 ATTTAGTCCATGTAACCCATGTC-AGTTTTTCTCCAGTTT-GGACTGAGAAAAAACGTTTGAAAT
250 ATTTAGTCCATGTAACCCACGTCGA-TTTTTCTCCA-TTTGGGACTGAAAAAAAAAATTCGAAAT
4858 TTCAGT-TGCATCCTACG
313 TTCAGTCT-CATCCTACG
** *
4875 TAGTTGGAGGCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAGCCGAG-A
1 TAGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAGAA
* *
4939 AACA-GTCAAAAACGAGCATTTCTGAACACTTTTTGACTCTTTCTCCGTAGCGTTTTCAGCAGAT
66 AACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAG-AGCGTTTTCAGCAGAT
*
5003 AGCTCTAAGCGAGGGACTCGCGGAGC-TTTCGGACTCGAAAATCGCACTCAGCGGGTCAATTCCA
130 AGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCA
* * * * *
5067 AGCG-GCCTAACTTGCTTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCC
195 AGCGAG-CTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCC
* * *
5131 ATGTAACCCCCGTCGATTTTTCTCGATTTGGGACTGAAAAAAAAAATTCGAGATTTCAGTCTCAT
259 ATGTAACCCACGTCGATTTTTCTCCATTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCTCAT
5196 CCTACG
324 CCTACG
* * * *
5202 CAGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGGCGCTCTGCGAGGCTTCCTTAGCCGAAAA
1 TAGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCG----
* *
5267 ACAGTCAAAAACAGGTCAAAAACGAGCTTTTCTGACCAATTTTTGACTCTTTGGCT-AGAGCGTT
62 --AG---AAAACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTT--CTCAGAGCGTT
* * * * * * * * *
5331 TTCAGCGGACAGCCCGAAGCGAGGGACTCGCGGAGCTTTTCAGACTGGAGAATCGCACTTAGCGT
120 TTCAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGA
** * * * * *
5396 GTCAATTCCAAGCGAGCTTCCTCGGTTTCAGCCTGATCGGCGAACTTTCGATTTCGACCCCG-AA
185 GTCAATTCCAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGA-CCCGAAA
5460 AATTTAGTC
249 AATTTAGTC
5469 GATTAAAGAA
Statistics
Matches: 508, Mismatches: 64, Indels: 44
0.82 0.10 0.07
Matches are distributed among these distances:
326 4 0.01
327 197 0.39
328 79 0.16
331 1 0.00
333 2 0.00
335 1 0.00
337 6 0.01
338 75 0.15
339 136 0.27
340 7 0.01
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (329 bp):
TAGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAGAA
AACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAGAGCGTTTTCAGCAGATA
GCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAA
GCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCAT
GTAACCCACGTCGATTTTTCTCCATTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCTCATCC
TACG
Found at i:6842 original size:332 final size:332
Alignment explanation
Indices: 6115--6800 Score: 1336
Period size: 332 Copynumber: 2.1 Consensus size: 332
6105 ATGTAGGTAC
6115 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
1 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
6180 GTCAAAAACTCCACTGTTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
66 GTCAAAAACTCCACTGTTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
6245 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
131 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
6310 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
196 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
* * *
6375 TCTTCCCCTGTCGATTTTTCTCGATTTTGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
261 GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
6440 TACATAG
326 TACATAG
6447 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
1 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
6512 GTCAAAAACTCCACTGTTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
66 GTCAAAAACTCCACTGTTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
6577 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
131 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
6642 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
196 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
*
6707 GGTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
261 GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
6772 TACATAG
326 TACATAG
6779 TTGGAGGCGTAGAATCGATTCC
1 TTGGAGGCGTAGAATCGATTCC
6801 GCACGGTCTT
Statistics
Matches: 350, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
332 350 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (332 bp):
TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
GTCAAAAACTCCACTGTTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
TACATAG
Found at i:7497 original size:317 final size:316
Alignment explanation
Indices: 6777--7689 Score: 903
Period size: 328 Copynumber: 2.8 Consensus size: 316
6767 GATCTTACAT
*
6777 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCGGCGAGGC-TCTCTGAGCCGAGAA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTC-CTGAGCCGAGAA
* * *
6841 ACAGTCAGAAACTGGTCAAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCATTTT
65 ACAGTC----A------AAAACGAGCATTTCCGAACACTTTTTGACTCTTTCTCCGGAGCATTTT
* *
6906 CAGCAGATAGCTGTAAGCGAGGGACTTGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGT
120 CAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGT
* * ** * *
6971 CAATTCAAAGCGAGCTTACTTGGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAAAT
185 CAATTCAAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAAT
*
7036 TTAGTCCATGTAACCCATGTCAGTTTTTCTCCAGTTTGGACTGAGAAAAAAAATTTCAGTTGCAT
250 TTAGTCCATGT-A--CA-G-CAGTTTTTCTCCAGTTTGGACTGAAAAAAAAAATTTCAGTTGCAT
*
7101 CCTACGT
310 CCTACGC
** *
7108 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAGCCGAGAAA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAGAAA
* * *
7173 CAGTCAAAAACGAGCATTTCTGAACACTTTTTGACTCTTTCTCCGTAGCGTTTTCAGCAGATAGC
66 CAGTCAAAAACGAGCATTTCCGAACACTTTTTGACTCTTTCTCCGGAGCATTTTCAGCAGATAGC
* *
7238 TCTAAGCGAGGGACTCGCGGAGC-TTTCGGACTCGAAAATCGCACTCAGCGGGTCAATTCCAAGC
131 TCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCAAAGC
* * * * *
7302 G-GCCTAACTTGCTTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCCATG
196 GAG-CTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCATG
*
7366 T-C-G-A-TTTTTCTCGA-TTTGGGACTGAAAAAAAAATTCGAGATTTCAGTCT-CATCCTACGC
260 TACAGCAGTTTTTCTCCAGTTT-GGACTG-AAAAAAAA----A-ATTTCAGT-TGCATCCTACGC
* * *
7425 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGGCGCTCTGCGAGGCTTCCTTAGCCGAAAAA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCG-----
* * * * ** ** *
7490 CAGTCAAAAACAGGTCAAAAACGAGCTTTTCTGACCA-ATTTTGACTCTTTGGCTAGAGCGTTTT
61 -AG----AAACA-GTCAAAAACGAGCATTTCCGAACACTTTTTGACTCTTTCTCCGGAGCATTTT
* * * * * * * * *
7554 CAGCGGACAGCCCGAAGCGAGGGACTCGCGGAGCTTTTCAGACTGGAGAATCGCACTTAGCGTGT
120 CAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGT
* ** * * * * *
7619 CAATTCCAAGCGAGCTTCCTCGGTTTCAGCCTGATCGGCGAACTTTCGATTTCGACCCCG-AAAA
185 CAATTCAAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGA-CCCGAAAAA
7683 TTTAGTC
249 TTTAGTC
7690 GATTAAAGAA
Statistics
Matches: 495, Mismatches: 63, Indels: 51
0.81 0.10 0.08
Matches are distributed among these distances:
310 3 0.01
311 15 0.03
312 8 0.02
314 1 0.00
316 2 0.00
317 71 0.14
318 1 0.00
319 1 0.00
320 91 0.18
321 74 0.15
323 2 0.00
327 57 0.12
328 101 0.20
329 3 0.01
331 63 0.13
332 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (316 bp):
AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAGAAA
CAGTCAAAAACGAGCATTTCCGAACACTTTTTGACTCTTTCTCCGGAGCATTTTCAGCAGATAGC
TCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCAAAGC
GAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCATGT
ACAGCAGTTTTTCTCCAGTTTGGACTGAAAAAAAAAATTTCAGTTGCATCCTACGC
Found at i:8940 original size:331 final size:332
Alignment explanation
Indices: 8338--9022 Score: 1309
Period size: 331 Copynumber: 2.1 Consensus size: 332
8328 ATGTAGGTAC
8338 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
1 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
*
8403 GTCAAAAACTCCAGTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
66 GTCAAAAACTCCACTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
8468 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
131 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
8533 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
196 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
* * *
8598 TCTTCCCCTGTCGATTTTTCTCGATTTTGGAGGAG-AAAAAAATTTCGAGCTGAGTGTCGGATCT
261 GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
8662 TACATAG
326 TACATAG
8669 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
1 TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
*
8734 GTCAAAAACTCCACTGTTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
66 GTCAAAAACTCCACTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
8799 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
131 CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
8864 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
196 GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
*
8929 GGTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
261 GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
8994 TACATAG
326 TACATAG
9001 TTGGAGGCGTAGAATCGATTCC
1 TTGGAGGCGTAGAATCGATTCC
9023 GCACGGTCTT
Statistics
Matches: 347, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
331 289 0.83
332 58 0.17
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (332 bp):
TTGGAGGCGTAGAATCGATTCCCATTGGTCCCGAGGCTCGGCGGAGCTTTCTTAGCCGAGAAACG
GTCAAAAACTCCACTATTTTTGACCGTTTCGCGAAAGTTCACCGACCGCGCGTTTTTCGCCGATC
CAGCGGACCAGCGGACTCGCAGAGCTTTTTAGACCAGAAAATCGGACTCAGCGGGTCATTTCCAA
GGGGACTTGCCCGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT
GCTACCCCTGTCGATTTTTCTCGATTATGGAGGAGAAAAAAAATTTCGAGCTGAGTGTCGGATCT
TACATAG
Found at i:9738 original size:328 final size:331
Alignment explanation
Indices: 8999--9919 Score: 1065
Period size: 328 Copynumber: 2.8 Consensus size: 331
8989 GATCTTACAT
*
8999 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCGGCGAGGCTTCCTGAGCCGAGAAA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGA-AAA
* * * * *
9064 CAGTCAGAAACTGGTC-AAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCATTTT
65 CAGTCA-AAACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTC-AGAGCGTTTT
* *
9128 CAGCAGATAGCTGTAAGCGAGGGACTTGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGT
128 CAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGT
* * * ** * *
9193 CAATTCAAAGCGAGCTTACTTGGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAAAT
193 CAATTCCAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAAT
** *
9258 TTAGTCCATGTAACCCATGTCAGTTTTTCTCCAGTTTGGACTGAGAAAAAACGTTTGAAATTTCA
258 TTAGTCCATGT-A--CA-G-CAGTTTTTCTCCAGTTTGGACTGAGAAAAAAAATTCGAAATTTCA
*
9323 GTTGCATCCTACGT
318 GTTGCATCCTACGC
** *
9337 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAGCCG-----
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAAAAC
* *
9397 AG---AAACA-GTCAAAAACGAGCATTTCTGAACACTTTTTGACTCTTTCTCCGTAGCGTTTTCA
66 AGTCAAAACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAG-AGCGTTTTCA
*
9458 GCAGATAGCTCTAAGCGAGGGACTCGCGGAGC-TTTCGGACTCGAAAATCGCACTCAGCGGGTCA
130 GCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCA
* * * * *
9522 ATTCCAAGCG-GCCTAACTTGCTTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTT
195 ATTCCAAGCGAG-CTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATT
* *
9586 TAGTCCATGT-C-G-A-TTTTTCTCGA-TTTGGGACTGA-AAAAAAAATTCGAGATTTCAGTCT-
259 TAGTCCATGTACAGCAGTTTTTCTCCAGTTT-GGACTGAGAAAAAAAATTCGAAATTTCAGT-TG
9644 CATCCTACGC
322 CATCCTACGC
* * *
9654 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGGCGCTCTGCGAGGCTTCCTTAGCCGAAAAA
1 AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCG-AAAA
* *
9719 CAGTCAAAAACAGGTCAAAAACGAGCTTTTCTGACCAATTTTTGACTCTTTGGCT-AGAGCGTTT
65 CAGTC-AAAACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTT--CTCAGAGCGTTT
* * * * * * * * *
9783 TCAGCGGACAGCCCGAAGCGAGGGACTCGCGGAGCTTTTCAGACTGGAGAATCGCACTTAGCGTG
127 TCAGCAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAG
** * * * * *
9848 TCAATTCCAAGCGAGCTTCCTCGGTTTCAGCCTGATCGGCGAACTTTCGATTTCGACCCCG-AAA
192 TCAATTCCAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGA-CCCGAAAA
9912 ATTTAGTC
256 ATTTAGTC
9920 GATTAAAGAA
Statistics
Matches: 500, Mismatches: 62, Indels: 51
0.82 0.10 0.08
Matches are distributed among these distances:
317 84 0.17
318 17 0.03
319 1 0.00
321 1 0.00
323 3 0.01
326 1 0.00
327 100 0.20
328 150 0.30
329 80 0.16
330 5 0.01
332 2 0.00
338 56 0.11
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (331 bp):
AGTTGGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGGCTTCCTGAGCCGAAAAC
AGTCAAAACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAGAGCGTTTTCAG
CAGATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAA
TTCCAAGCGAGCTAACTTGCTTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTA
GTCCATGTACAGCAGTTTTTCTCCAGTTTGGACTGAGAAAAAAAATTCGAAATTTCAGTTGCATC
CTACGC
Found at i:11686 original size:323 final size:315
Alignment explanation
Indices: 11280--12118 Score: 822
Period size: 321 Copynumber: 2.6 Consensus size: 315
11270 AAACAGTCAG
* * * * **
11280 AAACTGGTCAAAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCCATTTCAGCAGA
1 AAACAGGTC-AAAACGAGCATTTCTGACCAC-TTTTGACTCTTTCTC-AGAGCGTTTTCAGCAGA
* *
11345 TAGCTGTAAGCGAGGGACTGCGGAGCTTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCA
63 TAGCTCTAAGCGAGGGACTGCGGAGC--TTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCC
** *
11410 AAGCGAGCTTACTTGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCA
126 AAGCGAGCTTACTTGTTTCAGCCCGATCGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCA
* ** *
11475 TGTAACCCATGTCAGTTTTTCTCCAGTTT-GGACTGAGAAAAAACGTTTGAAATTTCAGT-TGCA
191 TGT----C--G--A-TTTTTCTCCA-TTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCT-CA
* * *
11538 TCGTACG-TGTTGGAGGCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAG
245 TCCTACGCAGTTGGAGGCGTAGAATCGATT-CGCACGGTCCCGACGCTCTGCGAGACTTCCTGAG
11602 CCG-AG-
309 CCGAAGA
* *
11607 AAACA-GTCAAAACGAGCATTTCTGAACACTTTTGACTCTTTCTCCGTAG-GTTTTCAGCAGATA
1 AAACAGGTCAAAACGAGCATTTCTGACCACTTTTGACTCTTTCTCAG-AGCGTTTTCAGCAGATA
*
11670 GCTCTAAGCGAGGGACT-CGCGAGCTTTCGGACTCGAAAATCGCACTCAGCGGGTC-ATTCCAAG
65 GCTCTAAGCGAGGGACTGCG-GAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAAG
* * * * * * * *
11733 CG-GCCTAACTTGCTTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCCAT
129 CGAG-CTTACTTG-TTTCAGCCCGATCGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCAT
* *
11797 GTCGATTTTTCTCGATTTGGGACTGAAAAAAAAAATTCGAGATTTCAGTCTCATCCTACGCAGTT
192 GTCGATTTTTCTCCATTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCTCATCCTACGCAGTT
* ** * * *
11862 GGAGGCGTAGAATCGATTTGCACGGTCTTGGCGCTCTGCGAGGCTTCCTTAGCCGAACAACAGTC
257 GGAGGCGTAGAATCGATTCGCACGGTCCCGACGCTCTGCGAGACTTCCTGAGCCG----A-AG--
11927 AA
315 -A
* * * *
11929 AAACAGGTCAAAACGAGCTTTTCTGACCAATTTTGACTCTTTGGCT-AGAGCGTTTTCAGCGGAC
1 AAACAGGTCAAAACGAGCATTTCTGACCACTTTTGACTCTTT--CTCAGAGCGTTTTCAGCAGAT
* * * * * * *
11993 AGCCCGAAGCGA-GGACTCGCGGAGCTTTCAGACTGGAGAATCGCACTTAGCGTGTCAATTCCAA
64 AGCTCTAAGCGAGGGACT-GCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAA
* * *
12057 GCGAGCTTCCTCGGTTTCAGCCTGATCGGCGAACTTTCGATTTCGACCCCG-AAAATTTAGTC
128 GCGAGCTTACT-TGTTTCAGCCCGATCGGCGAACTTTCGATTTCGA-CCCGAAAAATTTAGTC
12119 GATTAAAGAA
Statistics
Matches: 426, Mismatches: 59, Indels: 56
0.79 0.11 0.10
Matches are distributed among these distances:
311 3 0.01
312 72 0.17
313 23 0.05
315 1 0.00
317 1 0.00
318 2 0.00
319 1 0.00
320 16 0.04
321 74 0.17
322 7 0.02
323 73 0.17
324 68 0.16
325 74 0.17
326 7 0.02
327 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (315 bp):
AAACAGGTCAAAACGAGCATTTCTGACCACTTTTGACTCTTTCTCAGAGCGTTTTCAGCAGATAG
CTCTAAGCGAGGGACTGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAAGCG
AGCTTACTTGTTTCAGCCCGATCGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCATGTCG
ATTTTTCTCCATTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCTCATCCTACGCAGTTGGAG
GCGTAGAATCGATTCGCACGGTCCCGACGCTCTGCGAGACTTCCTGAGCCGAAGA
Found at i:11766 original size:321 final size:315
Alignment explanation
Indices: 11280--12118 Score: 824
Period size: 323 Copynumber: 2.6 Consensus size: 315
11270 AAACAGTCAG
* * * * **
11280 AAACTGGTCAAAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCCATTTCAGCAGA
1 AAACAGGTC-AAAACGAGCATTTCTGACCAC-TTTTGACTCTTTCTC-AGAGCGTTTTCAGCAGA
*
11345 TAGCTGTAAGCGAGGGACT-GCGGAGCTTTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTC
63 TAGCTCTAAGCGAGGGACTCGCGGAGC--TTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTC
* ** *
11409 AAAGCGAGCTTACTTGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCC
126 CAAGCGAGCTTACTTGTTTCAG-CCGATCGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCC
* ** *
11474 ATGTAACCCATGTCAGTTTTTCTCCAGTTT-GGACTGAGAAAAAACGTTTGAAATTTCAGT-TGC
190 ATGT----C--G--A-TTTTTCTCCA-TTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCT-C
* * *
11537 ATCGTACG-TGTTGGAGGCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGA
244 ATCCTACGCAGTTGGAGGCGTAGAATCGATT-CGCACGGTCCCGACGCTCTGCGAGACTTCCTGA
11601 GCCG-AG-
308 GCCGAAGA
* *
11607 AAACA-GTCAAAACGAGCATTTCTGAACACTTTTGACTCTTTCTCCGTAG-GTTTTCAGCAGATA
1 AAACAGGTCAAAACGAGCATTTCTGACCACTTTTGACTCTTTCTCAG-AGCGTTTTCAGCAGATA
*
11670 GCTCTAAGCGAGGGACTCGC-GAGCTTTCGGACTCGAAAATCGCACTCAGCGGGTC-ATTCCAAG
65 GCTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAAG
* * * * * * *
11733 CG-GCCTAACTTGCTTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCCAT
130 CGAG-CTTACTTG-TTTCAGC-CGATCGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCAT
* *
11797 GTCGATTTTTCTCGATTTGGGACTGAAAAAAAAAATTCGAGATTTCAGTCTCATCCTACGCAGTT
192 GTCGATTTTTCTCCATTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCTCATCCTACGCAGTT
* ** * * *
11862 GGAGGCGTAGAATCGATTTGCACGGTCTTGGCGCTCTGCGAGGCTTCCTTAGCCGAACAACAGTC
257 GGAGGCGTAGAATCGATTCGCACGGTCCCGACGCTCTGCGAGACTTCCTGAGCCG----A-AG--
11927 AA
315 -A
* * * *
11929 AAACAGGTCAAAACGAGCTTTTCTGACCAATTTTGACTCTTTGGCT-AGAGCGTTTTCAGCGGAC
1 AAACAGGTCAAAACGAGCATTTCTGACCACTTTTGACTCTTT--CTCAGAGCGTTTTCAGCAGAT
* * * * * * *
11993 AGCCCGAAGCGA-GGACTCGCGGAGCTTTCAGACTGGAGAATCGCACTTAGCGTGTCAATTCCAA
64 AGCTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAA
* *
12057 GCGAGCTTCCTCGGTTTCAGCCTGATCGGCGAACTTTCGATTTCGACCCCG-AAAATTTAGTC
129 GCGAGCTTACT-TGTTTCAGCC-GATCGGCGAACTTTCGATTTCGA-CCCGAAAAATTTAGTC
12119 GATTAAAGAA
Statistics
Matches: 428, Mismatches: 56, Indels: 58
0.79 0.10 0.11
Matches are distributed among these distances:
311 3 0.01
312 72 0.17
313 23 0.05
315 1 0.00
317 1 0.00
318 2 0.00
319 1 0.00
320 17 0.04
321 73 0.17
322 5 0.01
323 76 0.18
324 71 0.17
325 72 0.17
326 7 0.02
327 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (315 bp):
AAACAGGTCAAAACGAGCATTTCTGACCACTTTTGACTCTTTCTCAGAGCGTTTTCAGCAGATAG
CTCTAAGCGAGGGACTCGCGGAGCTTTCGGACTCGAAAATCGCACTCAGCGAGTCAATTCCAAGC
GAGCTTACTTGTTTCAGCCGATCGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCATGTCG
ATTTTTCTCCATTTGGGACTGAAAAAAAAAATTCGAAATTTCAGTCTCATCCTACGCAGTTGGAG
GCGTAGAATCGATTCGCACGGTCCCGACGCTCTGCGAGACTTCCTGAGCCGAAGA
Found at i:13510 original size:339 final size:336
Alignment explanation
Indices: 12857--13679 Score: 953
Period size: 339 Copynumber: 2.4 Consensus size: 336
12847 GATTTTGTCC
* * * * * * *
12857 AGCCGAGAACCAGTCAAAAGCAGGTAAAAAACGAGCATTTCAGACCACTTTATGACCCTTTCTCT
1 AGCCGAGAAACAGTCAAAAACTGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCT
* * *
12922 GGAGCGTTTTCAGCAGATATAGCT-GTGAGCGAGGGACTCGCGGAGCTTTTCCGACTGGAGAATC
66 GGAGCGTTTTCAGC-G-GATAGCTCG-AAGCGAGGGACTCGCGGAGC-TTTCCGACTGGAAAATC
*
12986 GCACTCAGCGGGTC-ATTCCCAAGCGGCATAACTTGCTTCCGGCTCGATCGGCGAATTTTCGATT
127 GCACTCAGCGGGTCAATT-CCAAGCGGCATAACTTGCTTCCGGCCCGATCGGCGAATTTTCGATT
* * * *
13050 TTGACGCTTAAAATTTAGTTAATGTAGCCTGTTGATTTTACTCGATTTTGGACTGAGAAAAAAGA
191 TTGACGCTTAAAATTTAGTCAATGTACCCTGTCGATTTTACTCGATTTGGGACTGAGAAAAAAGA
* * * *
13115 TTCGAGATTTCAGTCGCATTCTACGTTGCTGGAAGCGTAGAATCGATTAAGCACGGTCCCGACTC
256 TTCGAGATTTCAGTCGCATCCTACGTAGCTGGAAGCGAAAAATCGATTAAGCACGGTCCCGACTC
*
13180 TCGGCGAGGCTTCCTG
321 TCGGCGAGGCTCCCTG
* *
13196 AGCCGAGAAACAGTAAAAAACTGGTCAAAAACGAGCTTTTCTGACCACTTTTTGACTCTTTCTCT
1 AGCCGAGAAACAGTCAAAAACTGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCT
* * * *
13261 GGAGCGTATTCAGCGGCTAGCTCGAAGCGAGAGACTTGCGGAGCTATTCCGACTGGAAAATCGCA
66 GGAGCGTTTTCAGCGGATAGCTCGAAGCGAGGGACTCGCGGAGCT-TTCCGACTGGAAAATCGCA
* * ** * *
13326 CTCGGCGGGTCAATTCCAAGCGAGC-TTACTTTTTTTCTGCCCGATCAGG-GAATTTTCGATTTT
130 CTCAGCGGGTCAATTCCAAGCG-GCATAACTTGCTTCCGGCCCGATC-GGCGAATTTTCGATTTT
* * *
13389 GATG-TTAAAAATTTAGTCCATGTAACCCCTGTCGATTTTTCTCGATTTGGGACTGAGAAAAAA-
193 GACGCTT-AAAATTTAGTCAATGT-A-CCCTGTCGATTTTACTCGATTTGGGACTGAGAAAAAAG
* * * **
13452 ATTTCTAGATTTCAGTCGCATCCTACGTAG-TTGAAGGCGAAAAATTGATTCCGCACGGTCCCGA
255 A-TTCGAGATTTCAGTCGCATCCTACGTAGCTGGAA-GCGAAAAATCGATTAAGCACGGTCCCGA
13516 CTCTCGGCGAGGCTCCCTG
318 CTCTCGGCGAGGCTCCCTG
** * * * * * * *
13535 AGCTAAGAATCAGTCAAAAATTCGTCCAAAACTAGCGTTTCTGACCACTTTTTGTCTCTTTCT-T
1 AGCCGAGAAACAGTCAAAAACTGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCT
* * ** * *
13599 CGGAGCGTTTTCAACGGATAACTCGTTGCGAGGGACTCGAGGTGCTTTCTCGACTGGAAAATC-C
66 -GGAGCGTTTTCAGCGGATAGCTCGAAGCGAGGGACTCGCGGAGCTTTC-CGACTGGAAAATCGC
13663 ACTCAGCGGGTCAATTC
129 ACTCAGCGGGTCAATTC
13680 GTCAAATTGT
Statistics
Matches: 411, Mismatches: 61, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
336 3 0.01
337 103 0.25
338 36 0.09
339 269 0.65
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (336 bp):
AGCCGAGAAACAGTCAAAAACTGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCT
GGAGCGTTTTCAGCGGATAGCTCGAAGCGAGGGACTCGCGGAGCTTTCCGACTGGAAAATCGCAC
TCAGCGGGTCAATTCCAAGCGGCATAACTTGCTTCCGGCCCGATCGGCGAATTTTCGATTTTGAC
GCTTAAAATTTAGTCAATGTACCCTGTCGATTTTACTCGATTTGGGACTGAGAAAAAAGATTCGA
GATTTCAGTCGCATCCTACGTAGCTGGAAGCGAAAAATCGATTAAGCACGGTCCCGACTCTCGGC
GAGGCTCCCTG
Found at i:15233 original size:35 final size:35
Alignment explanation
Indices: 15043--17320 Score: 4176
Period size: 35 Copynumber: 64.7 Consensus size: 35
15033 TCCGGGCGGC
15043 GGGG-CAGCCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAG-CCCCCTGAACCCTAAGGAGCCGA-CGCG
*
15079 GGGGTCAACCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
*
15115 GGGGTCAGCCCCCTAAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
15151 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
15187 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15221 CGGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 -GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15256 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15291 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
*
15326 GGGGTCAGTCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15361 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
15397 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15432 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15467 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15502 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15537 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
15573 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15608 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15642 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15677 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15712 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15747 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15782 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15817 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15852 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15887 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15922 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15957 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
15992 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16027 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16062 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16097 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16132 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16167 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16201 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16236 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16271 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16306 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
16341 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16376 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16411 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16446 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16481 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16516 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16551 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16586 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16621 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16656 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
16692 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
16728 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
16764 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
16800 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16835 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16870 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16905 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACG-G
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
16939 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
16974 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
17009 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
17044 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
17080 GGGGTGAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
17116 GGGGTCATCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* * *
17152 GGGGTCATCCCCCTGAACCCCAAGGATCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* *
17188 GGGGTCAGCCCCCTGAACCCCAAGGAGCCGAACACG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* *
17224 GGGGTCATCCCCCTGAACCCCAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* *
17260 GGGGTCATCCCCCTGAACCCCAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
17296 GGGGTCAGCCCCCTGAGCCCTAAGG
1 GGGGTCAGCCCCCTGAACCCTAAGG
17321 TGCTGAGGAG
Statistics
Matches: 2205, Mismatches: 19, Indels: 36
0.98 0.01 0.02
Matches are distributed among these distances:
33 21 0.01
34 120 0.05
35 1463 0.66
36 597 0.27
37 4 0.00
ACGTcount: A:0.21, C:0.37, G:0.34, T:0.09
Consensus pattern (35 bp):
GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
Found at i:19787 original size:339 final size:338
Alignment explanation
Indices: 18982--19897 Score: 931
Period size: 340 Copynumber: 2.7 Consensus size: 338
18972 ATTCCGCAGG
* * * * * *
18982 TTTTTAGCGTCAAAATCGAAAGTTCGCCGATCGAGCCGAAAGCAA-GTTATGCCGCTTGGAAATG
1 TTTTAAGCGTCAAAAGCGAAATTTCACCGATCGAGCCGAAAGCAACG-GAAGCCGCTTGGAAATG
* * * ** *
19046 ACCCACTGAGTACGATTTTCCAGTCGAAAAAGCTCCGCGAGTCCCTCATTTCGAGCTATCCGCTG
65 ACCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTAGAGCTATCCGCTG
* * * * *
19111 AACACGCTCCAGAGAAAGAGTCAAAAATTGGTCTGAAATGCTCGTGTTTGACCAGTTTTTGACTG
130 AA-ACGCTCCAGAGAAAGAGTCAAAAATTGGTCAGAAA-ACTCGTTTTTGACCAGTTTATAACTG
* * *
19176 TTTCTCGACTCAGGAAGTCTCGCCGAGAAATGGAACCGTGTGGAATCGATTCTACGCCTCCAAAA
193 TATCCCGACTCAGGAAGTCTCGCCGAGAAATGGAACCGTGCGGAATCGATTCTACGCCTCCAAAA
* * * * ** ** *
19241 TTCGTTAGATGCGACTGCAATCTTGATTTTTTTTTTATCAGTCCAAAATCGAGTAAAATCGACAG
258 TACGTAAGATGCGACTGAAATCCTGA-TAATTTTTTATCAGTCCAAAAAAGAGAAAAATCGACAG
* * *
19306 GCGTTACATTAACCGAA
322 GCATTACATCAACCAAA
* ** *
19323 TTTTAAGCGTCAAAATCGAAATTTCACCGATCGAGCCGAAAGCAACTTAGGCCGCTTGGAAATGA
1 TTTTAAGCGTCAAAAGCGAAATTTCACCGATCGAGCCGAAAGCAACGGAAGCCGCTTGGAAATGA
* * * *
19388 CCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCACAAGTCCCTCGCTTTGAACTATCCGCTGA
66 CCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTAGAGCTATCCGCTGA
*
19453 AACGCTCCAGAGAAAGAGTCAAAAATTGGGCAGACAAACTCGTTTTTGACCAGTTTATAACCT-T
131 AACGCTCCAGAGAAAGAGTCAAAAATTGGTCAGA-AAACTCGTTTTTGACCAGTTTATAA-CTGT
* * * *
19517 ATCCCGGCTCAGGATGTCTCGCC-ATG-AGTCGGGACCGTGCGGAATCGATTCTACGCCTCC-AA
194 ATCCCGACTCAGGAAGTCTCGCCGA-GAAAT-GGAACCGTGCGGAATCGATTCTACGCCTCCAAA
*
19579 ATACG-AAGGATGCGACTGAAATCCTGA-AATTTTTTCTCAGTCCAAAAAAGAGAAAAATCGACA
257 ATACGTAA-GATGCGACTGAAATCCTGATAATTTTTTATCAGTCCAAAAAAGAGAAAAATCGAC-
* *
19642 TATGG-ATTACATCGACTAAA
320 -A-GGCATTACATCAACCAAA
** * * * * * * * * *
19662 TTTTTCGGGTCAAAGGCG-AATGTTCGCGGATTGGGCCGAAA-CCAGGGAAGCTCGCTTGGAATT
1 TTTTAAGCGTCAAAAGCGAAAT-TTCACCGATCGAGCCGAAAGCAACGGAAGC-CGCTTGGAAAT
* *
19725 GACCCGCTCAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTACCTCGCTTAGAGCTATCCGCT
64 GACCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTAGAGCTATCCGC-
* ** * * *
19790 TAAAACGCTTTAGAGAACGAGTCAAAAAGTGGTCAGAAAAGCTCGTTTTTGACCAGATTT-TGAC
128 TGAAACGCTCCAGAGAAAGAGTCAAAAATTGGTCAGAAAA-CTCGTTTTTGACCAG-TTTATAAC
* * * *
19854 TGTTTCTCGGCTTC-GGAAGTCTCGCCGAG-AATCGGAACTGTGCG
191 TGTATCCCGAC-TCAGGAAGTCTCGCCGAGAAAT-GGAACCGTGCG
19898 TTTGCGGTAT
Statistics
Matches: 482, Mismatches: 76, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
337 29 0.06
338 9 0.02
339 138 0.29
340 180 0.37
341 126 0.26
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (338 bp):
TTTTAAGCGTCAAAAGCGAAATTTCACCGATCGAGCCGAAAGCAACGGAAGCCGCTTGGAAATGA
CCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTAGAGCTATCCGCTGA
AACGCTCCAGAGAAAGAGTCAAAAATTGGTCAGAAAACTCGTTTTTGACCAGTTTATAACTGTAT
CCCGACTCAGGAAGTCTCGCCGAGAAATGGAACCGTGCGGAATCGATTCTACGCCTCCAAAATAC
GTAAGATGCGACTGAAATCCTGATAATTTTTTATCAGTCCAAAAAAGAGAAAAATCGACAGGCAT
TACATCAACCAAA
Found at i:26087 original size:323 final size:319
Alignment explanation
Indices: 25247--26092 Score: 860
Period size: 323 Copynumber: 2.6 Consensus size: 319
25237 ACTTGCCCGG
* * * * *
25247 TTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCG--AAATTTCACTCCAT-T--CCCCTGTC
1 TTTCGGCCCGATCGGCGAACTATCGATTTCGA-CCCGAAAAATTT-AGTCCATGTAACCCCTGTC
* * * * *
25307 GATTTTTCTCGATTTGGAGGA--GAAAAAAATTTCGAG--CTGAGTGTCGGATCTTACATAGTTG
64 GATTTTTCTCGATTT-G-GGACTGAAAAAAAATTCGAGATTTCAGT-TC--ATCCTACGTAGTTG
*
25368 GAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCGGCGAGGCTTCCTGAGCCGAGAAACAGTC
124 GAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGA-GCTTCCTGAGCCGA-AAA-A--C
* * *
25433 AGAAACTGGTCAAAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCATTTTCAGCA
184 ----A---GTCAAAAACGAGCATTTCCGAACACTTTTTGACTCTTTCTCCGGAGCATTTTCAGCA
* * **
25498 GATAGCTGTAAGCGAGGGACTTGCGGAGCTTTTCGGACTCGAAATCGCACTCAGCCTTTCATTCG
242 GATAGCTCTAAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAATCGCACTCAGCCGGTCATTCG
* * *
25563 CGGCTTTTATTGG
307 CGGCTCTAATTGC
** * * *
25576 TTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCATGTAACCCATGTC-A
1 TTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCATGTAACCCCTGTCGA
* * * *
25640 -TTTTCTCCAGTTT-GGACTGAGAAAAAACGTTTGAAATTTCAGTTGCATCCTACGTAGTTGGA-
66 TTTTTCTCGA-TTTGGGACTGA-AAAAAA-ATTCGAGATTTCAGTT-CATCCTACGTAGTTGGAG
** *
25702 GCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAGCCGAGAAACAGTCAAA
127 GCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAG-CTTCCTGAGCCGAAAAACAGTCAAA
* * *
25767 AACGAGCATTTCTGAACACTTTTTGACTCTTTCTCCGTAGCGTTTTCAGCAGATAGCTCTAAGCG
191 AACGAGCATTTCCGAACACTTTTTGACTCTTTCTCCGGAGCATTTTCAGCAGATAGCTCTAAGCG
** *
25832 AGGGACTCGCGGAGC-TTTC-GACTCGAAAATCGCGTTCAGCGGGTCAATTCCAAGCGGC-CTAA
256 AGGGACTCGCGGAGCTTTTCGGACTCG-AAATCGCACTCAGCCGGTC-ATT-C--GCGGCTCTAA
25894 CTTGC
316 -TTGC
* * * * *
25899 TTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCCATGTAACCCCTGTCGA
1 TTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCATGTAACCCCTGTCGA
*
25964 TTTTTCTCGATTTGGGACTGAAAAAAAATTCGAGATTTCAGTCTCATCCTACGCAGTTGGAGGCG
66 TTTTTCTCGATTTGGGACTGAAAAAAAATTCGAGATTTCAGT-TCATCCTACGTAGTTGGAGGCG
* * * *
26029 TAGAATCGATTTCGCACGGTCTTGGCGCTCTGCGAGCTTCCTTAGCCGAAAAACAGTCAAAAAC
130 TAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGCTTCCTGAGCCGAAAAACAGTCAAAAAC
26093 AGGTCAAAAA
Statistics
Matches: 435, Mismatches: 57, Indels: 56
0.79 0.10 0.10
Matches are distributed among these distances:
318 6 0.01
319 18 0.04
320 81 0.19
321 1 0.00
322 2 0.00
323 116 0.27
324 45 0.10
325 15 0.03
327 1 0.00
328 7 0.02
329 34 0.08
330 20 0.05
331 58 0.13
332 25 0.06
333 1 0.00
334 5 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (319 bp):
TTTCGGCCCGATCGGCGAACTATCGATTTCGACCCGAAAAATTTAGTCCATGTAACCCCTGTCGA
TTTTTCTCGATTTGGGACTGAAAAAAAATTCGAGATTTCAGTTCATCCTACGTAGTTGGAGGCGT
AGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGCTTCCTGAGCCGAAAAACAGTCAAAAACGA
GCATTTCCGAACACTTTTTGACTCTTTCTCCGGAGCATTTTCAGCAGATAGCTCTAAGCGAGGGA
CTCGCGGAGCTTTTCGGACTCGAAATCGCACTCAGCCGGTCATTCGCGGCTCTAATTGC
Found at i:26248 original size:334 final size:326
Alignment explanation
Indices: 25180--26280 Score: 1002
Period size: 334 Copynumber: 3.3 Consensus size: 326
25170 GCGGACCAGC
* * * * * * * * *
25180 GGACTCGCAGAGCTTTTTAGAC-CAGAAAATCGGACTCAGCGGGTCATTTCCAAGGGGACTTGCC
1 GGACTCGCGGAGC-TTTTCGACTC-G-AAATCGCACTTAGCGTGTCAATTCCAAGCGG-CTTACT
* * *
25244 CGGTTTCAGCCCGATCGGAGAACTTTCGATTTTGACCCCGAAATTTCACTCCAT-T--CCCCTGT
62 CGGTTTCAGCCCGATCGGCGAACTTTCGATTTTGACCCCAAAATTT-AGTCCATGTAACCCCTGT
* * * * *
25306 CGATTTTTCTCGATTTGGAGGA--GAAAAAAATTTCGAG--CTGAGTGTCGGATCTTACATAGTT
126 CGATTTTTCTCGATTT-G-GGACTGAAAAAAAATTCGAGATTTCAGT-TC--ATCCTACGTAGTT
*
25367 GGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCGGCGAGGCTTCCTGAGCCGAGAAACAGT
186 GGAGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGA-GCTTCCTGAGCCGA-AAACAGT
* * * *
25432 CAGAAACTGGTCAAAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCATTTTCAGC
249 CA-AAACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTC--TTTCTGAAGC-GTTTCAGC
*
25497 AGATAG-CTGTAAGCGAG
310 AGATAGCCCG-AAGCGAG
* * * * *
25514 GGACTTGCGGAGCTTTTCGGACTCGAAATCGCACTCAGCCTTTC-ATT-C--GCGGCTTTTA-TT
1 GGACTCGCGGAGCTTTTC-GACTCGAAATCGCACTTAGCGTGTCAATTCCAAGCGGC--TTACTC
** * * * *
25574 GGTTTTTGCCCGATGGGCGAACTTTCGATTTCGACCCGAAAAATTTAGTCCATGTAACCCATGTC
63 GGTTTCAGCCCGATCGGCGAACTTTCGATTTTGACCC-CAAAATTTAGTCCATGTAACCCCTGTC
* * * *
25639 -A-TTTTCTCCAGTTT-GGACTGAGAAAAAACGTTTGAAATTTCAGTTGCATCCTACGTAGTTGG
127 GATTTTTCTCGA-TTTGGGACTGA-AAAAAA-ATTCGAGATTTCAGTT-CATCCTACGTAGTTGG
**
25701 A-GCGTAGAATCGATTCCGCACGGTCCCGACTCTCTGCGAGACTTCCTGAGCCG-----AG---A
188 AGGCGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAG-CTTCCTGAGCCGAAAACAGTCAA
* *
25757 AACA-GTCAAAAACGAGCATTTCTGAACACTTTTTGACTCTTTCTCCGTAGCGTTTTCAGCAGAT
252 AACAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTTCT--GAAGCG-TTTCAGCAGAT
* *
25821 AGCTCTAAGCGAG
314 AGCCCGAAGCGAG
* * * *
25834 GGACTCGCGGAGC-TTTCGACTCGAAAATCGC-GTTCAGCGGGTCAATTCCAAGCGGCCTAACTT
1 GGACTCGCGGAGCTTTTCGACTCG-AAATCGCACTT-AGCGTGTCAATTCCAAGCGG-CTTACTC
* * * * * *
25897 GCTTTCGGCTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCCATGTAACCCCTGTC
63 GGTTTCAGCCCGATCGGCGAACTTTCGATTTTGACCCCAAAA-TTTAGTCCATGTAACCCCTGTC
*
25962 GATTTTTCTCGATTTGGGACTGAAAAAAAATTCGAGATTTCAGTCTCATCCTACGCAGTTGGAGG
127 GATTTTTCTCGATTTGGGACTGAAAAAAAATTCGAGATTTCAGT-TCATCCTACGTAGTTGGAGG
* * * *
26027 CGTAGAATCGATTTCGCACGGTCTTGGCGCTCTGCGAGCTTCCTTAGCCGAAAAACAGTCAAAAA
191 CGTAGAATCGATTCCGCACGGTCTTGACTCTCTGCGAGCTTCCTGAGCCG-AAAACAGTC-AAAA
* * * * *
26092 CAGGTCAAAAACGAGCTTTTCTGACCAATTCTTGACTCTTTGGCTAGAAGCGTTTCAGCGGACAG
254 CAGGTCAAAAACGAGCATTTCTGACCACTTTTTGACTCTTT--CT-GAAGCGTTTCAGCAGATAG
26157 CCCGAAGCGAG
316 CCCGAAGCGAG
* *
26168 GGACTCGCGGAGCTTTTCAGACT-GGAATCGCACTTAGCGTGTCAATTCCAAGCGAGCTTCCTCG
1 GGACTCGCGGAGCTTTTC-GACTCGAAATCGCACTTAGCGTGTCAATTCCAAGCG-GCTTACTCG
* *
26232 GTTTCAGCCTGATCGGCGAACTTTCGATTTCGACCCCGAAAATTTAGTC
64 GTTTCAGCCCGATCGGCGAACTTTCGATTTTGACCCC-AAAATTTAGTC
26281 GATTAAAGAA
Statistics
Matches: 622, Mismatches: 92, Indels: 106
0.76 0.11 0.13
Matches are distributed among these distances:
318 12 0.02
319 16 0.03
320 72 0.12
321 5 0.01
322 6 0.01
323 95 0.15
324 46 0.07
325 17 0.03
328 4 0.01
329 43 0.07
330 20 0.03
331 58 0.09
332 27 0.04
333 25 0.04
334 152 0.24
335 18 0.03
336 6 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (326 bp):
GGACTCGCGGAGCTTTTCGACTCGAAATCGCACTTAGCGTGTCAATTCCAAGCGGCTTACTCGGT
TTCAGCCCGATCGGCGAACTTTCGATTTTGACCCCAAAATTTAGTCCATGTAACCCCTGTCGATT
TTTCTCGATTTGGGACTGAAAAAAAATTCGAGATTTCAGTTCATCCTACGTAGTTGGAGGCGTAG
AATCGATTCCGCACGGTCTTGACTCTCTGCGAGCTTCCTGAGCCGAAAACAGTCAAAACAGGTCA
AAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTGAAGCGTTTCAGCAGATAGCCCGAAGCGA
G
Found at i:27699 original size:323 final size:314
Alignment explanation
Indices: 27326--28155 Score: 836
Period size: 323 Copynumber: 2.6 Consensus size: 314
27316 AAAACCGGTC
* * * *
27326 AAAACGAGCATTTCCGACCACTTTTTGACTCTTTTTCTGGAGCATTTTCAGCAGATAGCTCTAAG
1 AAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTC-AGAGCGTTTTCAGCAGATAGCTCTAAG
*
27391 CGAGGGACTTGC-GAGCTTTTTCGGACTCGAAAATCGCACTCAGCGAGTCTATTCAAGCGAGCTT
65 CGAGGGACTCGCGGAGC-TTTTCGGACTCGAAAATCGCACTCAGCGAGTC-ATTCAAGCGAGCTT
*
27455 ACTTGGTTTTGGCCTGATGGGCGAACTTTCGATTTCGACCCGAAAATTTAGTCCATGTAACCCAT
128 ACTTGGTTTCGGCCTGAT-GGCGAACTTTCGATTTCGACCCGAAAATTTAGTCCATGT----C--
* ** * *
27520 GTCAATTTTTCTCCAGTTT-GGACTG-AGAAAAACGTTGAAATTTCAGT-TGCATCCTAC-TAGT
186 G--AATTTTTCTCCA-TTTGGGACTGAAAAAAAAAATCGAAATTTCAGTCT-CATCCTACGCAG-
* *
27581 TGGAGGCGTAGAATCGATTCCGCACGGTCTCGACTCTCTGCGAGACTTCCTGAGCCGAGAAACAG
246 TGGAGGCGTAAAATCGATTCCGCACGGTCTCGACGCTCTGCGAGACTTCCTGAGCCGA-AAACAG
27646 T-CA-
310 TACAG
* *
27649 AAAACGAGCATTTCTGAACACTTTTTGACTCTTTCTCCGTAGCGTTTTCAGCAGATAGCTCTAAG
1 AAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAG-AGCGTTTTCAGCAGATAGCTCTAAG
** *
27714 CGAGGGACTCGCGGAGC-TTTCGGACTCGAAAATCGCGTTCAGCGGGTCAATTCCAAGCG-GCCT
65 CGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTC-ATT-CAAGCGAG-CT
* * * * * * *
27777 AACTTGCTTTCGG-CTCGATCGGCGAACTATCGATTTTGACGCTAAAAGTTTAGTCCATGTCGAT
127 TACTTGGTTTCGGCCT-GAT-GGCGAACTTTCGATTTCGACCCGAAAA-TTTAGTCCATGTCGAA
* **
27841 TTTTTCTCGATTTGGGACTGAAAAAAAAAATCGTGATTTCAGTCTCATCCTACGCAGTGGAGGCG
189 TTTTTCTCCATTTGGGACTGAAAAAAAAAATCGAAATTTCAGTCTCATCCTACGCAGTGGAGGCG
* * * * *
27906 TAAAATCGATTCCGCACGGTCTTGGCGCTCTGCGAGGCTTCCTTAGCCGAAAACATTCAAAAACA
254 TAAAATCGATTCCGCACGGTCTCGACGCTCTGCGAGACTTCCTGAGCCGAAAACAGT-----ACA
27971 GG
314 -G
* * * * * *
27973 TCAAAACGAGCTTTTCTGACCAATTTTTGACTCTTTGGCT-AGAGCGTTTTCAGCGGACAGCCCG
1 --AAAACGAGCATTTCTGACCACTTTTTGACTCTTT--CTCAGAGCGTTTTCAGCAGATAGCTCT
* * * * * *
28037 AAGCGAGGGACTCGCGGAGCTTTTCAGACTGGAGAATCGCACTTAGCGTGTCATTCCAGCGAGCT
62 AAGCGAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCATTCAAGCGAGCT
* * * *
28102 TCCTCGGTTTCAGCCTGATCGCGAACTTTCGATTTCGACCCCGAAAATTTAGTC
127 TACTTGGTTTCGGCCTGATGGCGAACTTTCGATTTCGA-CCCGAAAATTTAGTC
28156 GATTAAAGAA
Statistics
Matches: 421, Mismatches: 60, Indels: 51
0.79 0.11 0.10
Matches are distributed among these distances:
315 3 0.01
316 22 0.05
317 76 0.18
318 4 0.01
320 1 0.00
322 37 0.09
323 113 0.27
324 39 0.09
325 24 0.06
326 75 0.18
327 25 0.06
328 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (314 bp):
AAAACGAGCATTTCTGACCACTTTTTGACTCTTTCTCAGAGCGTTTTCAGCAGATAGCTCTAAGC
GAGGGACTCGCGGAGCTTTTCGGACTCGAAAATCGCACTCAGCGAGTCATTCAAGCGAGCTTACT
TGGTTTCGGCCTGATGGCGAACTTTCGATTTCGACCCGAAAATTTAGTCCATGTCGAATTTTTCT
CCATTTGGGACTGAAAAAAAAAATCGAAATTTCAGTCTCATCCTACGCAGTGGAGGCGTAAAATC
GATTCCGCACGGTCTCGACGCTCTGCGAGACTTCCTGAGCCGAAAACAGTACAG
Done.