Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1080
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: 24910
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Found at i:89 original size:46 final size:46
Alignment explanation
Indices: 22--492 Score: 173
Period size: 54 Copynumber: 9.0 Consensus size: 46
12 GACTCAGTGG
* *
22 CATTTTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
68 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
** **
114 CAACTCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATTCTTTTAAGTCCA
1 C-A-T--T----TTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
* *
167 CAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
1 C-A-T-T-T-----TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
**
221 CAACTCCGTGGCCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 C-A-T---T---TTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
** *
274 CAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
1 C-A-T---T----TTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
*
328 CAACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 C-A-T---T----T-TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
** *
383 CAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
1 C-A-T---T----TTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
*
437 CACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 CA-T---T----T-TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
491 CA
1 CA
493 ACTCCGTGGC
Statistics
Matches: 382, Mismatches: 23, Indels: 32
0.87 0.05 0.07
Matches are distributed among these distances:
46 45 0.12
47 1 0.00
48 1 0.00
50 1 0.00
52 1 0.00
53 96 0.25
54 184 0.48
55 52 0.14
56 1 0.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (46 bp):
CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
Found at i:113 original size:27 final size:27
Alignment explanation
Indices: 74--1321 Score: 2093
Period size: 27 Copynumber: 46.0 Consensus size: 27
64 TTCACATTTT
74 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
102 CTTTTAAGTCCACAACT-CGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
128 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
155 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
182 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
209 CTTTTAAGTCCACAACTCCGTGGC-CC
1 CTTTTAAGTCCACAACTCCGTGGCACC
235 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
262 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
289 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
316 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
344 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
371 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
398 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
425 CTTTTAAGTCCAC-ACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
452 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
479 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
506 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
533 CTTTTAAGT-CACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
560 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
587 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
614 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
642 CTTTTAAGTTCACAACTCTCGTGGCACC
1 CTTTTAAGTCCACAACTC-CGTGGCACC
*
670 CTTTTAGGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
697 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
724 CTTTTAAGTCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
752 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
779 CTTTTAAGTCCA-AACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
805 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
833 CTTTTAAGTCCACAGCTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
860 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
888 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
915 CTTTTAAGTCCACAACT-CGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
941 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
969 CTTTGAAGTTCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
997 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1024 C-TTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1050 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1078 CTTTTAAGTTCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1105 CTTTTAGGTCCACAACTCCGTGGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1131 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1158 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1185 CTTTTAAAGTCCAC-ACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1212 C-TTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1239 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1266 CTTTTAAGTCCAACAAATCCGTGGCATC
1 CTTTTAAGTCC-ACAACTCCGTGGCACC
* *
1294 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1321 C
1 C
1322 ATTCCAAAGC
Statistics
Matches: 1155, Mismatches: 42, Indels: 47
0.93 0.03 0.04
Matches are distributed among these distances:
25 8 0.01
26 194 0.17
27 643 0.56
28 303 0.26
29 7 0.01
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1380 original size:32 final size:32
Alignment explanation
Indices: 1304--4461 Score: 4109
Period size: 32 Copynumber: 102.8 Consensus size: 32
1294 CTTTTAAATC
* * *
1304 CACAACTCTGTGGC-ACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1335 CAC-A-TCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1365 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
1395 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1425 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1453 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1481 CACAAGTCGGTGGCAATCTATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
1511 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1541 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1573 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1605 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1637 CACAAGTCGGTGGCAACCCATTTC-AAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1668 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1699 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1731 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1763 CACAAGTCGGTGGCAACCCATTTC-AAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
1792 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1822 CACAAGTCGGTGGCAA-CCATTTCAAAGCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1853 CAAAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1885 CACAAGTCGGTGGCACCCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1917 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1949 CACAAGTC-GTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1979 CATAAGTC-GTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2010 CACAAGTC-GTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2041 CAC-AGTCGGTGGCAACCCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
2070 CACAAGTCAGTGGC-A-TCTTTTC-AAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2099 CACAAGTTGGTGGC-A-TC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2126 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2154 CACAAGTCGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
2184 CACAAGTTAGTGGC-A-TCATTCCAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2213 CACAAGTCGGT-GCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2244 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2276 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2308 CACAAGTCGGTGGCAACCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2337 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2368 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2400 CACAAGTCGGTGGCACACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCA-ACCCATTTCAAAGCCCA
* *
2433 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2465 CACAAGTCGGTGGCAAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGC-AACCCATTTCAAAGCCCA
2498 CACAAGTCGGTGGCAACCCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAA-CCCATTTCAAAGCCCA
* * *
2529 CACAA-TCAGTGGC-A-TC-TTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2557 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2585 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2613 CACAAGTCGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
2643 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2673 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2705 CAC-AGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2736 CACAAGTCGGTGGCAA-CCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2767 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2799 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2831 CACAAGTCGGTGGCAA-CCA-TTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
2859 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2889 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2917 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
2945 CACAAGTCGGTGGCAATCTATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
2975 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3005 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3037 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3069 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3101 CACAAGTCGG-GGCAACCCATTCAACAAAGCCCA
1 CACAAGTCGGTGGCAACCCATT--TCAAAGCCCA
3134 CACAAGTCGGTGGC-ACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3164 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3196 CACAAGTCGGTGGCAACCCATTTCAAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
3228 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
3258 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3288 CACAAGTCGGTGGCAACCCATTTCAAAGCCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAG-CCCA
3321 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3353 CACAAGTCGGTGGCAAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGC-AACCCATTTCAAAGCCCA
3386 CACAAGTCGGTGGCAACCCATTTC-AAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3417 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3448 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3480 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3512 CACAAG-CGGTGGCAACCCATTTC-AAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
3540 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3570 CACAAGTTGGTGGC-ATCC-TTTC-AAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3597 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3625 CACAAGTCGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3655 CACAAGTTC-GTGGC-A-TCATTCCAAAGCCCA
1 CACAAG-TCGGTGGCAACCCATTTCAAAGCCCA
3685 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3717 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3749 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3781 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3813 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3844 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3876 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
3907 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3939 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3971 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
4001 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
4031 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
4059 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
4087 CACAAGTCGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
4117 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
4147 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
4179 CACAAGTCGGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTC-GGTGGCAACCCATTTCAAAGCCCA
*
4212 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
4244 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
4276 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
4307 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
4339 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
4371 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
4403 CACAAGTCGGGGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
4435 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
4462 TCACCATTTT
Statistics
Matches: 2841, Mismatches: 183, Indels: 205
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.00
27 51 0.02
28 340 0.12
29 157 0.06
30 477 0.17
31 437 0.15
32 1171 0.41
33 197 0.07
34 3 0.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1425 original size:28 final size:29
Alignment explanation
Indices: 74--4461 Score: 2363
Period size: 32 Copynumber: 148.3 Consensus size: 29
64 TTCACATTTT
* *
74 CTTTT-AAAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
102 CTTTT--AAGTCCACAACT-CGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * **
128 CTTTT--AAGTCCACAACTCCGTGGCATT
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
155 CTTTT--AAGTCCACAACTCTGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
182 CTTTT--AAGTCCACAACTCCGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
209 CTTTT--AAGTCCACAACTCCGTGGC-CC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
235 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
262 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
289 CTTTT--AAGTCCACAACTCCGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
316 CTTTT--AAGTCCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
344 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
371 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
398 CTTTT--AAGTCCACAACTCCGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
425 CTTTT--AAGTCCAC-ACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
452 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
479 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
506 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
533 CTTTT--AAG-TCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
560 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
587 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
614 CTTTT--AAGTCCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
** *
642 CTTTT--AAGTTCACAACTCTCGTGGCACC
1 CTTTTCAAAGCCCACAAGTC-CGTGGCACC
* * *
670 CTTTT--AGGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
697 CTTTT--AAGTCCACAACTCCGTGGCACT
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
724 CTTTT--AAGTCCACAACTCTGTGGCACCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
752 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
779 CTTTT--AAGTCCA-AACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
805 CTTTT--AAGTCCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
833 CTTTT--AAGTCCAC-AGCTCCGTGGCATC
1 CTTTTCAAAGCCCACAAG-TCCGTGGCACC
* *
860 CTTTT--AAGTCCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
888 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
915 CTTTT--AAGTCCACAACT-CGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
941 CTTTT--AAGTCCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* ** *
969 C-TTT-GAAGTTCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
997 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
1024 C-TTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
1050 CTTTT--AAGTCCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
** *
1078 CTTTT--AAGTTCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
1105 CTTTT--AGGTCCACAACTCCGTGGCA-C
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
1131 CTTTT--AAGTCCACAACTCCGTGGCACT
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
1158 CTTTT--AAGTCCACAACTCTGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
1185 CTTTT-AAAGTCCAC-ACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
1212 C-TTT--AAGTCCACAACTCCGTGGCATCC
1 CTTTTCAAAGCCCACAAGTCCGTGGCA-CC
* *
1239 CTTTT--AAGTCCACAACTCCGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
1266 CTTTT--AAGTCCAACAAATCCGTGGCATC
1 CTTTTCAAAG-CCCACAAGTCCGTGGCACC
* * *
1294 CTTTT-AAA-TCCACAACTCTGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
1321 CATTCCAAAGCCCACACA-TCGGTGGCAACC
1 CTTTTCAAAGCCCACA-AGTCCGTGGC-ACC
* *
1351 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
1383 CATTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
1411 CTTTTCAAAGTCCACACAAGTTGGTGGCATC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
1442 C-TTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* **
1470 C-TTTCAAAGCCCACAAGTCGGTGGCAAT
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
1498 CTATTTCAAAGCCCACAAGTTAGTGGCA-T
1 CT-TTTCAAAGCCCACAAGTCCGTGGCACC
* * *
1527 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
1559 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
1591 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
1623 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
1655 CATTTC-AAGCCCACACAAGTCGGTGGCACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
1685 CATTTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* * *
1717 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
1749 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* ** *
1781 CATTTC-AAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * * *
1808 CATTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* * *
1839 CATTTCAAAGCACACAAAAGTCGGTGGCAACC
1 CTTTTCAAAGC-C-CACAAGTCCGTGGC-ACC
* *
1871 CATTTCAAAGCCCACACAAGTCGGTGGCACCC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCA-CC
* * *
1903 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
*
1935 CATTTCAAAGCCCACACAAGT-CGTGGCACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
*
1965 CATTTCAAAGCCCACATAAGT-CGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* *
1996 CATTCCAAAGCCCACACAAGT-CGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
2027 CATTTCAAAGCCCACACAGTCGGTGGCAACC
1 CTTTTCAAAGCCCACA-AGTCCGTGGC-ACC
* *
2058 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
2086 CTTTTC-AAGTCCACACAAGTTGGTGGCA-T
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
2115 C-TTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
2143 C-TTTCAAAGCCCACAAGTCGGTGGCAATC
1 CTTTTCAAAGCCCACAAGTCCGTGGC-ACC
* ** *
2172 CATTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
2200 CATTCCAAAGCCACACAAGTCGGT-GCAACC
1 CTTTTCAAAGCC-CACAAGTCCGTGGC-ACC
* *
2230 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
2262 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
2294 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
*
2326 C-TTTCAAAGCCCACAAGTCGGTGGCACC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
2354 CATTTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* *
2386 CATTTCAAAGCCCACACAAGTCGGTGGCACACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGG--CACC
* *
2419 CATTTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* * *
2451 CATTCCAAAGCCCACACAAGTCGGTGGCAAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC--ACC
* *
2484 CATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-A-CC
* * *
2517 CATTTCAAAGCCCACAA-TCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
2544 C-TTTCAAAGTCCACACAAGTTGGTGGCATC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
2574 C-TTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
2602 C-TTTCAAAGCCCACAAGTCGGTGGCAATC
1 CTTTTCAAAGCCCACAAGTCCGTGGC-ACC
* ** *
2631 CATTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
2659 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
2691 CATTTCAAAGCCCACACAGTCGGTGGCAACC
1 CTTTTCAAAGCCCACA-AGTCCGTGGC-ACC
* * *
2722 CATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* * *
2753 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
2785 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
2817 CATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* * *
2848 C-ATTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
2875 CTTTTCAAAGTCCACACAAGTTGGTGGCATC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
2906 C-TTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* **
2934 C-TTTCAAAGCCCACAAGTCGGTGGCAAT
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
2962 CTATTTCAAAGCCCACAAGTTAGTGGCA-T
1 CT-TTTCAAAGCCCACAAGTCCGTGGCACC
* * *
2991 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3023 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3055 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
3087 CATTCCAAAGCCCACACAAGT-CGGGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
** *
3118 CATTCAACAAAGCCCACACAAGTCGGTGGCACC
1 C-TT-TTCAAAG-CC-CACAAGTCCGTGGCACC
* *
3151 C-ATTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* * *
3182 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3214 CATTTCAAAAGCCACACAAGTCGGTGGCAACC
1 CTTTTC-AAAGCC-CACAAGTCCGTGGC-ACC
* ** *
3246 CATTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
3274 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3306 CATTTCAAAGCCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG--CC-CACAAGTCCGTGGC-ACC
* *
3339 CATTTCAAAGCCCACACAAGTCGGTGGCAAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC--ACC
* * *
3372 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3404 CATTTC-AAGCCCACACAAGTCGGTGGCACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
3434 CATTTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* * *
3466 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3498 CATTTCAAAGCCCACACAAG-CGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
3529 CATTTC-AAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
3556 CTTTTCAAAGTCCACACAAGTTGGTGGCATC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
3587 C-TTTC-AAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
3614 C-TTTCAAAGCCCACAAGTCGGTGGCAATC
1 CTTTTCAAAGCCCACAAGTCCGTGGC-ACC
* * *
3643 CATTTCAAAGCCCACAAGTTCGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
3671 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3703 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3735 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
3767 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3799 CATTTCAAAGCCCACACAAGTCGGTGGCACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
3830 CATTTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* *
3862 CATTTCAAAGCCCACACAAGTCGGTGGCACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
3893 CATTTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCCGTGGC-ACC
* * *
3925 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
3957 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
3989 CATTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
** *
4017 CTTTTCAAAGTCCACACAAGTTGGTGGCATC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
4048 C-TTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* *
4076 C-TTTCAAAGCCCACAAGTCGGTGGCAATC
1 CTTTTCAAAGCCCACAAGTCCGTGGC-ACC
* ** *
4105 CATTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCCGTGGCACC
* * *
4133 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
4165 CATTTCAAAGCCCACACAAGTCGGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTC-CGTGGC-ACC
* *
4198 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * *
4230 CATTCCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
4262 CATTTCAAAGCCCACACAAGTCGGTGGCACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGCACC
* *
4293 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
4325 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
4357 CATTTCAAAGCCCACACAAGTCGGTGGCGACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* *
4389 CTTTTCAAAGCCCACACAAGTCGGGGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCCGTGGC-ACC
* * **
4421 CATTTAAAAGCCCATGCAAGTTAGTGGCAACC
1 CTTTTCAAAGCCCA--CAAGTCCGTGGC-ACC
4453 CTTTTCAAA
1 CTTTTCAAA
4462 TCACCATTTT
Statistics
Matches: 3958, Mismatches: 229, Indels: 342
0.87 0.05 0.08
Matches are distributed among these distances:
25 8 0.00
26 202 0.05
27 693 0.18
28 644 0.16
29 190 0.05
30 475 0.12
31 395 0.10
32 1117 0.28
33 208 0.05
34 26 0.01
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (29 bp):
CTTTTCAAAGCCCACAAGTCCGTGGCACC
Found at i:1769 original size:95 final size:95
Alignment explanation
Indices: 1304--4461 Score: 4079
Period size: 95 Copynumber: 34.3 Consensus size: 95
1294 CTTTTAAATC
* * * *
1304 CACAACTCTGTGGC-ACCCATTCCAAAGCCCACACA-TCGGTGGCAACCCATTTCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
1367 CAAGTCGGTGGCAACCCATTTCAAAG-CC-
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * * * *
1395 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCACACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-C
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
1454 ACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * ** * *
1481 CACAAGTCGGTGGCAATCTATTTCAAAGCCCAC-AAGTTAGTGGC-A-TCATTCCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
1543 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1573 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
1638 ACAAGTCGGTGGCAACCCATTTC-AAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1668 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
1732 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
1763 CACAAGTCGGTGGCAACCCATTTC-AAGCCCAC-AAGTTAGTGGC-A-TCATTCCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
*
1824 CAAGTCGGTGGCAA-CCATTTCAAAGCACA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1853 CAAAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
1918 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1949 CACAAGTC-GTGGC-ACCCATTTCAAAGCCCACATAAGTC-GTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
2011 ACAAGTC-GTGGCAACCCATTTCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * * *
2041 CAC-AGTCGGTGGCAACCCTTTTCAAAGCCCAC-AAGTCAGTGGC-A-TCTTTTC-AAGTCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
* *
2101 CAAGTTGGTGGC-A-TC-TTTCAAAG-CC-
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
2126 CACAAGTCAGTGGC-ATCC-TTTCAAAGCCCAC-AAGTCGGTGGCAATCCATTTCAAAG-CC-CA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
** * *
2186 CAAGTTAGTGGC-A-TCATTCCAAAG-CCA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
2213 CACAAGTCGGT-GCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
2277 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
2308 CACAAGTCGGTGGCAACCC-TTTCAAAGCCCAC-AAGTCGGTGGC-ACCCATTTCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
*
2370 TAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2400 CACAAGTCGGTGGCACACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCA-ACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCA
2465 CACAAGTCGGTGGCAAACCCATTTCAAAGCCCA
64 CACAAGTCGGTGGC-AACCCATTTCAAAGCCCA
* * *
2498 CACAAGTCGGTGGCAACCCCATTTCAAAGCCCAC-AA-TCAGTGGC-A-TC-TTTCAAAGTCCAC
1 CACAAGTCGGTGGCAA-CCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
2558 ACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
2585 CACAAGTCAGTGGC-ATCC-TTTCAAAGCCCAC-AAGTCGGTGGCAATCCATTTCAAAG-CC-CA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
** * *
2645 CAAGTTAGTGGC-A-TCATTCCAAAGCCCA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
2673 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAGTCGGTGGCAACCCATTTCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
*
2738 CAAGTCGGTGGCAA-CCATTCCAAAGCCCA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
2767 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
2832 ACAAGTCGGTGGCAA-CCA-TTCAAAG-CC-
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * * * *
2859 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCACACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-C
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
2918 ACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * ** * *
2945 CACAAGTCGGTGGCAATCTATTTCAAAGCCCAC-AAGTTAGTGGC-A-TCATTCCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
3007 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3037 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
3102 ACAAGTCGG-GGCAACCCATTCAACAAAGCCCA
65 ACAAGTCGGTGGCAACCCATT--TCAAAGCCCA
*
3134 CACAAGTCGGTGGC-ACCCA-TTCAAAGCCCACATAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
3197 ACAAGTCGGTGGCAACCCATTTCAAAAG-CCA
65 ACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
** * *
3228 CACAAGTCGGTGGCAACCCATTTCAAAGCCCAC-AAGTTAGTGGC-A-TCATTCCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
3290 CAAGTCGGTGGCAACCCATTTCAAAGCCCCA
66 CAAGTCGGTGGCAACCCATTTCAAAG-CCCA
*
3321 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGC-AACCCATTTCAAAGCCCA
3386 CACAAGTCGGTGGCAACCCATTTC-AAGCCCA
64 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3417 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
3481 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
3512 CACAAG-CGGTGGCAACCCATTTC-AAGCCCAC-AAGTCAGTGGC-A-TCTTTTCAAAGTCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
* *
3572 CAAGTTGGTGGC-ATCC-TTTC-AAG-CC-
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
3597 CACAAGTCAGTGGC-ATCC-TTTCAAAGCCCAC-AAGTCGGTGGCAATCCATTTCAAAG-CC-CA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
* *
3657 CAAGTTC-GTGGC-A-TCATTCCAAAGCCCA
66 CAAG-TCGGTGGCAACCCATTTCAAAGCCCA
3685 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
3750 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
3781 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
3845 ATAAGTCGGTGGCAACCCATTTCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
3876 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
3940 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
3971 CACAAGTCGGTGGCAACCCATTTCAAAGCCCAC-AAGTCAGTGGC-A-TCTTTTCAAAGTCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
* *
4033 CAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
4059 CACAAGTCAGTGGC-ATCC-TTTCAAAGCCCAC-AAGTCGGTGGCAATCCATTTCAAAG-CC-CA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
** * *
4119 CAAGTTAGTGGC-A-TCATTCCAAAGCCCA
66 CAAGTCGGTGGCAACCCATTTCAAAGCCCA
4147 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTC-GGTGGCAACCCATTTCAAAGCCCA
*
4212 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
64 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
4244 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
4308 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
4339 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCGACCCTTTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA-AAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
4404 ACAAGTCGGGGGCAACCCATTTAAAAGCCCA
65 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
4435 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
4462 TCACCATTTT
Statistics
Matches: 2766, Mismatches: 172, Indels: 253
0.87 0.05 0.08
Matches are distributed among these distances:
84 43 0.02
85 79 0.03
86 207 0.07
87 75 0.03
88 160 0.06
89 47 0.02
90 206 0.07
91 103 0.04
92 319 0.12
93 157 0.06
94 330 0.12
95 530 0.19
96 311 0.11
97 111 0.04
98 88 0.03
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (95 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAAGTCGGTGGCAACCCATTTCAAAGCCCACA
CAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:4545 original size:45 final size:47
Alignment explanation
Indices: 4494--4612 Score: 127
Period size: 49 Copynumber: 2.5 Consensus size: 47
4484 GTCCGATATT
*
4494 GCTGGCCTTGAATCAGCATATTGG-CACCTTT-CTAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
* * * *
4539 GCTGGCCTTGAGTCAGCACATTGGTCCACTTTTCCCTTAGCCCGATGTC
1 GCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CCTAAGCCCAATGTC
* *
4588 GCTGACCTTGAAAT-GGCACATTGGC
1 GCTGGCCTTG-AATCAGCACATTGGC
4613 ATTCCTCTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 22 0.36
47 6 0.10
48 1 0.02
49 30 0.49
50 2 0.03
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (47 bp):
GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
Found at i:5731 original size:11 final size:11
Alignment explanation
Indices: 5693--5733 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
5683 AAATTTAGGT
5693 AAAAAAGAAAG
1 AAAAAAGAAAG
*
5704 AAAGAAGATGAAG
1 AAAAAAGA--AAG
5717 AAAAAAGAAAG
1 AAAAAAGAAAG
5728 AAAAAA
1 AAAAAA
5734 AAAATATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:10470 original size:21 final size:22
Alignment explanation
Indices: 10445--10485 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10435 AACATGCTGT
10445 AAATGCATGAAACAT-AGCTCA
1 AAATGCATGAAACATGAGCTCA
*
10466 AAATGCATGAATCATGAGCT
1 AAATGCATGAAACATGAGCT
10486 GTTAACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (22 bp):
AAATGCATGAAACATGAGCTCA
Found at i:11410 original size:51 final size:52
Alignment explanation
Indices: 11326--11453 Score: 179
Period size: 51 Copynumber: 2.5 Consensus size: 52
11316 CGAAATATAA
11326 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTAAT-GATACATCTGGGC
1 AAATTTGCCTGCATGTATTGATACATTTCATAGTGT-ATCGATACATCTGGGC
** *
11378 AAATTTGCCTTTATGTA-TGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
11429 AAATTTACTTGCATGTATGGATACA
1 AAATTTGCCTGCATGTATTGATACA
11454 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.03
51 43 0.65
52 21 0.32
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:11480 original size:13 final size:13
Alignment explanation
Indices: 11462--11486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11452 CAAAGATCAG
11462 TGTATCGATACAA
1 TGTATCGATACAA
11475 TGTATCGATACA
1 TGTATCGATACA
11487 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11593 original size:19 final size:18
Alignment explanation
Indices: 11569--11632 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
11559 GTAGATACAT
11569 TGTATCGATACAACAGTTA
1 TGTATCGATACAACA-TTA
11588 TGTATCGAT---ACA--A
1 TGTATCGATACAACATTA
11601 TGTATCGATACAACACTTA
1 TGTATCGATACAACA-TTA
11620 TGTATCGATACAA
1 TGTATCGATACAA
11633 ATCGTTGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
16 6 0.15
19 23 0.59
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
TGTATCGATACAACATTA
Found at i:11605 original size:13 final size:13
Alignment explanation
Indices: 11587--11613 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11577 TACAACAGTT
11587 ATGTATCGATACA
1 ATGTATCGATACA
11600 ATGTATCGATACA
1 ATGTATCGATACA
11613 A
1 A
11614 CACTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:11605 original size:32 final size:32
Alignment explanation
Indices: 11531--11632 Score: 154
Period size: 32 Copynumber: 3.2 Consensus size: 32
11521 AGCTTCATAG
* *
11531 CGATACATTGTATCGATACAAAACTTATGTA-
1 CGATACAATGTATCGATACAACACTTATGTAT
* *
11562 -GATACATTGTATCGATACAACAGTTATGTAT
1 CGATACAATGTATCGATACAACACTTATGTAT
11593 CGATACAATGTATCGATACAACACTTATGTAT
1 CGATACAATGTATCGATACAACACTTATGTAT
11625 CGATACAA
1 CGATACAA
11633 ATCGTTGAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
30 28 0.43
32 37 0.57
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (32 bp):
CGATACAATGTATCGATACAACACTTATGTAT
Found at i:20790 original size:175 final size:175
Alignment explanation
Indices: 20499--20849 Score: 675
Period size: 175 Copynumber: 2.0 Consensus size: 175
20489 GGATTCATGA
20499 GTTCCCCTAAGCGGAAGCTCTTGTGCAAGGGTGGGAACAACATAGGTTCTGATTCCTAATTCTAT
1 GTTCCCCTAAGCGGAAGCTCTTGTGCAAGGGTGGGAACAACATAGGTTCTGATTCCTAATTCTAT
20564 CCCATTAACCTAGCCATTCTCTTTTCATGAGCTTTTTGAGCTTGCCTTCTTTACTGATGAGTGTT
66 CCCATTAACCTAGCCATTCTCTTTTCATGAGCTTTTTGAGCTTGCCTTCTTTACTGATGAGTGTT
*
20629 TGATTTAAACCCTAACCCTCATTTGTCGACCTTGTTGCTGACTTG
131 TGATTTAAACCCTAACCCTCATTTGTCGACCTTGTTGCTAACTTG
*
20674 GTTCCCCTAAGCGGAAGCTCTTGTGCAAGGGTGGGAACACCATAGGTTCTGATTCCTAATTCTAT
1 GTTCCCCTAAGCGGAAGCTCTTGTGCAAGGGTGGGAACAACATAGGTTCTGATTCCTAATTCTAT
*
20739 CCTATTAACCTAGCCATTCTCTTTTCATGAGCTTTTTGAGCTTGCCTTCTTTACTGATGAGTGTT
66 CCCATTAACCTAGCCATTCTCTTTTCATGAGCTTTTTGAGCTTGCCTTCTTTACTGATGAGTGTT
20804 TGATTTAAACCCTAACCCTCATTTGTCGACCTTGTTGCTAACTTG
131 TGATTTAAACCCTAACCCTCATTTGTCGACCTTGTTGCTAACTTG
20849 G
1 G
20850 AGTGCTCGAT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 173 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (175 bp):
GTTCCCCTAAGCGGAAGCTCTTGTGCAAGGGTGGGAACAACATAGGTTCTGATTCCTAATTCTAT
CCCATTAACCTAGCCATTCTCTTTTCATGAGCTTTTTGAGCTTGCCTTCTTTACTGATGAGTGTT
TGATTTAAACCCTAACCCTCATTTGTCGACCTTGTTGCTAACTTG
Done.