Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_645 ID=scaffold_645-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5288
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.26
Warning! 284 characters in sequence are not A, C, G, or T
Found at i:343 original size:132 final size:132
Alignment explanation
Indices: 1--713 Score: 966
Period size: 132 Copynumber: 5.3 Consensus size: 132
* * *
1 CATTAGTCCTATCACCCTAAGTAGTAAGTGAAGTAGGTTGAAGATTTGCAGACTCTGTCACCCGT
1 CATTAGTCCTATCACCCTAAGCAGT-AGTGGAGTAGGTTGAAGA-TTGCAGATTCTGTCACCC-T
* *
66 AAGCAAGTAGTGGAAGCAGATCGAAGAATGATGATTCTTATCTTTCTCCAGAT--AGTGGAGAAG
63 AAGC-AGTAGTGG-AGCAGATCGAAG-ATGGTGAATCTTAT-TTTC-CCA-ATACAGTGGAGAAG
*
129 CAGA-TTGAGC
122 CAGATTTAAGC
* * * *
139 CATTAGTCCAATCTCCATAAGCAGTAGAGGAGTAGGTCTGAAGATTGCAGATTCTGTCACCCTAA
1 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT-TGAAGATTGCAGATTCTGTCACCCTAA
* * * *
204 ACAGTAGT-GACGCAGATCAAATATGATGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTT
65 GCAGTAGTGGA-GCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTT
268 AAGC
129 AAGC
* * * *
272 CATTAGTCGTATCACCCTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACCTTAAG
1 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAG
* *
337 CGGTAGTGGAGTAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAA
66 CAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAA
402 GC
131 GC
* * *
404 CATTAGTCCAATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCACCCTAAG
1 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAG
* * ** *
469 CAGTAGTGGAGCAGATCGAATATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGGAGATTTAA
66 CAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAA
*
534 GT
131 GC
* * * * *
536 CATTAGTCCTATCACCCTAAGCAGTACTGGAGTAGGTTGAAGATTGTAGACTCTGACACTCTAAG
1 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAG
* * *
601 CAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTTGAGAAGTAGATTTAA
66 CAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAA
666 GC
131 GC
668 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTG
1 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTG
714 NNNNNNNNNN
Statistics
Matches: 515, Mismatches: 54, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
130 2 0.00
131 3 0.01
132 384 0.75
133 52 0.10
134 10 0.02
135 6 0.01
136 4 0.01
137 27 0.05
138 27 0.05
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAG
CAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAA
GC
Found at i:464 original size:44 final size:44
Alignment explanation
Indices: 281--713 Score: 162
Period size: 44 Copynumber: 9.8 Consensus size: 44
271 CCATTAGTCG
* * * * *
281 TATCACCCTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATCC
* * * * * *
325 TGTCACCTTAAGCGGTAGTGGAGTAGATCGAAGATGGT-GAATCT
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG-ATCC
** * * * * * *
369 TATTTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TCC
1 TA-TCACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATCC
* * *
413 AATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATCC
* * * * *
457 TATCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGT-GAACC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATCC
* * * * * * *
500 TTATCGTCCC-AATACAGTGGAGAAGGAGATTTAAG-TCAT-TAG-TCC
1 -TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAGAT--TGTAGATCC
* *
545 TATCACCCTAAGCAGTACTGGAGTAGGTTGAAGATTGTAGA-CTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATC-C
* * * * *
589 TGA-CACTCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GAATCT
1 T-ATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG-ATCC
* * * * * *
633 TATCTTCCC-AATACAGTTGAGAAGTAGATTTAAGCCA-T-TAG-TCC
1 TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATCC
*
677 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTG
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTG
714 NNNNNNNNNN
Statistics
Matches: 267, Mismatches: 89, Indels: 67
0.63 0.21 0.16
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 68 0.25
44 131 0.49
45 58 0.22
46 3 0.01
47 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATCC
Found at i:1188 original size:132 final size:132
Alignment explanation
Indices: 814--1190 Score: 531
Period size: 132 Copynumber: 2.9 Consensus size: 132
804 NNNNNNNNNN
* * * * * *
814 TTCTGTCACCCTAAGCAGTAGTGGAGCGGATCGAAGATGGTGATTCTTATCTTCTCAAGATAGTG
1 TTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTG
* * * * *
879 GAGAAGCAGATTTGAGCCATTAGTCCAATCTCCCTAAGCAGTAGAGGAGTAGGTTGAAGATTGCA
66 GAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAATAGGTTGAAGATTACA
944 GA
131 GA
* * * *
946 TTCTGTCACCCTAAGCAGTATTGGAGTAGATCGAAGATGGTAAATCTTATTTTCCCACTACAGTG
1 TTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTG
* *
1011 GAGAAGCAGATTTAAGCCATTAGTCCTATCTCCATAAGCCA-TAGTGGAATTGGTTGAAGATTAC
66 GAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAG-CAGTAGTGGAATAGGTTGAAGATTAC
1075 AGA
130 AGA
* * * *
1078 TTCTGTCACCCTAAACAGTAGTGAAGCAGATCGAATATGATGAATCTTATTTTCCCAATACAGTG
1 TTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTG
* *
1143 GAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGTAGTAGTGGA
66 GAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGA
1191 GTANNNNNNN
Statistics
Matches: 215, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.00
132 212 0.99
133 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (132 bp):
TTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTG
GAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAATAGGTTGAAGATTACA
GA
Found at i:1615 original size:132 final size:132
Alignment explanation
Indices: 1378--5285 Score: 4301
Period size: 132 Copynumber: 29.9 Consensus size: 132
1368 NNNNNNNNNN
* * * *
1378 ATGGTGAATCTTATTTTCCCAAAACAGTGGTGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * *
1443 AGTAGTAGTGGAGTAGGTTGATGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCGGAGCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
1508 AG
131 AG
** * * * * *
1510 ATGGTG-ATCCTTATCTTCTTAAGATAGTGGAGAAGCAGATTTGAGACATTAGTCCAATCTCCCT
1 ATGGTGAAT-CTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCT
* * *
1574 AAGCAGTAGAGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTATTGGAGTAGATCG
65 AAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCG
1639 AAG
130 AAG
* * * *
1642 ATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCTGATTTAAGCCATTAGTCCTATCACCTTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * ** *
1707 AGTAGTAGTAGAGTAGGTTGAAGATTTTAGATTCTGTCACCCTAAGCAGTAGTGGAGCGGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
1772 AG
131 AG
* * * * * * *
1774 ATGGTGATTCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTGAGCCATTAGTCCAATCTCCATA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* ** * *
1839 AGCAGTAGAGGAGTAGGTCAAAGATTGCAGATTCTGTCACCCTAAACAGTAGT-GACGCAGATCA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA-GCAGATCG
*
1903 AAA
130 AAG
* * *
1906 ATGATGAATCTTATTTTCCCAATACAGTGGAGAAGAAGATTTAAGCCATTAGT-CATATCACCCT
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATCACCCT
* * * * *
1970 AAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACCTTAAGCGGTAGTGGAGTAGATCG
65 AAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCG
2035 AAG
130 AAG
* *
2038 ATAGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* *
2103 AGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCACCCTAAGCAGTAGTGGAGCAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
*
2168 AT
131 AG
* * * * *
2170 ATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGGAGATTTAAGTCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * * *
2235 AGCAGTACTGGAGTAGGTTGAAGATTGTAGACTCTGACACTCTAAGCAGTAGTGGAGCAAATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
2300 AG
131 AG
* * * *
2302 ATGGTGAATCTTATCTTCCTAATACAGTTGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * *
2367 AGCAGTAGTGGAGTAGGCTGAAGATTGCAGATTCTGTCACCCTAAGCTGTAGTGGAGTAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
2432 AG
131 AG
* * * * *
2434 ATGGTGAATCTTATTTTCCCCATACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCTCCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * * *
2499 AGCCA-TAGTGG-GATTGGTTCAAGCTTGCAGATTCTGTCACCCTATA-TAGTTGTGAAGCAGAT
66 AG-CAGTAGTGGAG-TAGGTTGAAGATTGCAGATTCTGTCACCCTA-AGCAGTAGTGGAGCAGAT
*
2561 CGAAT
128 CGAAG
* *
2566 ATGATGAATCTTA-CTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCT
1 ATGGTGAATCTTATC-TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCT
* * * **
2630 ATGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTATCACCCTAAGCAGT-GTTGGAATAGATC
65 AAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG-TGGAGCAGATC
2694 GAAG
129 GAAG
2698 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
*
2763 AGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
*
2828 AT
131 AG
* *
2830 ATGGTGAATCTTATCTTCCCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * *
2895 AGCAGTAGTGGAGTAGGCTGAAGATTGCAGATTCTGTCACCCTAAGCTGTAGTGGAGTAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
2960 AG
131 AG
* * * * *
2962 ATGGTGAATCTTATTTTCCCCACACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * *
3027 AGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAACAGTAGTGAAGCAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
*
3092 AT
131 AG
* *
3094 ATGATGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT-CATATCACCCT
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATCACCCT
* * * *
3158 AAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACGCTAAGCAGTAGTGGAGTAGATCG
65 AAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCG
3223 AAG
130 AAG
*
3226 ATAGTGAATCTTATCTT-CC-ATACGAGTGGAGAAGCAGATTTAAGCCATTAGT-CATATCACCC
1 ATGGTGAATCTTATCTTCCCAATAC-AGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATCACCC
* * * * *
3288 TAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACCTTAAGCGGTAGTGGAGTAGATC
64 TAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATC
3353 GAAG
129 GAAG
* *
3357 ATAGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * *
3422 AGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCACCCTAAGCAGTAGTGGAGTAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
*
3487 AT
131 AG
* * * * *
3489 ATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGGAGATTTAAGTCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * *
3554 AGCAGTACT-G-G-A-G-T--AGA---C----TCTGACGCTCTAAGCAGTAGTGGAGCAGATTGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
3605 AG
131 AG
3607 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * * *
3672 AGCAGTAGTGGAGTCGGTTGAAGATTACAGATTCTGCCACCCTAAGCAGGAGTGAAGGAGATTAA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGA-T--
* *
3737 GCAATAC
128 -CGA-AG
* * * * * * * * * * * * * *
3744 AGTGGAGAAGCATAT-TT---AA-GCCGT-TAG--TC--CTATCA-CCCTAAG--CAGT-A--GT
1 A-TGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCT
* * * * * ** * ** * * * *
3793 --GGAGTAGGTTGA--AGATTGCAGATT-CTG-TTACCCTAAGCAGTATTGGAATAGATCGA--A
65 AAGCAGTA-GTGGAGTAGGTTGAAGATTGCAGATT-CTGTCA-CCCTA-AGCAGTAG-TGGAGCA
**
3850 GAT-GGTG
125 GATCGAAG
* * * ** * * * ** * *
3857 AAT-CT-TATTTTCCA-AAT-ACAGTGGAGAAGCAGATTTAAGC-CA-TT-AGTCC--TA-TCTC
1 -ATGGTGAATCTT--ATCTTCCCAAT--A-CAGTGGA--GAAGCAGATTTAAG-CCATTAGTC-C
** * * ** * * * * * *
3912 CCTAAGCC-ATAGTGGAATTGGTTGAAGATT-ACAGATT-------CTGTCACCCTAAACAGTAG
56 AATCACCCTA-AGCAGTAGTGG-AGTAGGTTGA-AGATTGCAGATTCTGTCACCCTAAGCAGTAG
* *
3968 TGAAGCAGATCGAAT
118 TGGAGCAGATCGAAG
* * * * * *
3983 ATGATGAATCTCATTTTCTCAATACAGTGGAGAAACAGATTTATGCCATTAGT-CATATCACCCT
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATCACCCT
* * * *
4047 AAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACCCTAACCAGTAGTGGAGTAGATCG
65 AAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCG
4112 AAG
130 AAG
* * *
4115 ATAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCGA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * *
4180 ACCAGTAGTGGAGTCGGTTGAAGATTCCAGATTCTGTCACCCTAAGTAGTAGCGGAGCAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
4245 AG
131 AG
* *
4247 ATGATGAATCTTATCTTCCCAATACAGTGGAGAAGAAGATTTAAGCCATTAGTCCAATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* *
4312 AGCAGTAGTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAGCAGTAGTGGAGCTGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
4377 AG
131 AG
* * * * * *
4379 ATGGTGAATCTTATCTTCCCAATATATTGTAGAAGCATATTTAAGCTATTAGT-CATATCACCGT
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATCACCCT
* * * * *
4443 AAGCAGTAGTGGTGTAGGTTAAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGATTG
65 AAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCG
*
4508 GAG
130 AAG
* * * * * *
4511 ATAGTGAATCTCATCTTCCCAATACAGTAGAGAAGCATATTTAAGCCATTAGCCCAATCTCCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * **
4576 AGCAGTAGTGGAGTCGGTTGAAGATTCCAGATTCTGTCACCCTAAGAAGTAGTGAAGCAGATTAA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
*
4641 AT
131 AG
* * * * * * ***
4643 ATGATGAATCTTATTTTCCCAATACAGTGGAGAATCAAATTTAAGCCATTAATCCTATCACAAAA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* *
4708 AGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGCCACCCTAAGCAGTAGTGGAGCAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
*
4773 CG
131 AG
* * * * ** *
4775 ATTGTGAATCCTATCTTCCCAATACAGTGGAGAAGCAAATATAAGCCATTAGTCCTCTCAACCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * ** *
4840 ATCTGTAGTGGAGTCGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGT-GTTGGAATAAATCG
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG-TGGAGCAGATCG
4904 AAG
130 AAG
* * *
4907 ATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCCATCTCCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * * * *
4972 AGCCA-TAGTGGAATTGGTTGAAGATTGCAGATTCTGTCACCCTAAACAGTAGTGAAGTAGATCG
66 AG-CAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCG
*
5036 AAT
130 AAG
* * * *
5039 ATGATGAATCTTATTTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * *
5104 AGTAGTAGTGGAGTAGGTTGAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
5169 AG
131 AG
* * *
5171 ATGGTGATTCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATCAGTCCAATCTCCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
* * *
5236 AGCAATAGTGGAATTGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
5286 GTT
Statistics
Matches: 3173, Mismatches: 496, Indels: 214
0.82 0.13 0.06
Matches are distributed among these distances:
111 2 0.00
113 3 0.00
114 1 0.00
115 1 0.00
117 2 0.00
118 101 0.03
119 17 0.01
120 11 0.00
121 6 0.00
122 5 0.00
123 6 0.00
124 15 0.00
125 37 0.01
126 21 0.01
127 14 0.00
128 5 0.00
129 3 0.00
130 9 0.00
131 138 0.04
132 2732 0.86
133 27 0.01
134 2 0.00
136 1 0.00
137 4 0.00
138 10 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (132 bp):
ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
AG
Found at i:2119 original size:396 final size:396
Alignment explanation
Indices: 1378--5285 Score: 5078
Period size: 396 Copynumber: 10.0 Consensus size: 396
1368 NNNNNNNNNN
* * *
1378 ATGGTGAATCTTATTTTCCCAAAACAGTGGTGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * * *
1443 AGTAGTAGTGGAGTAGGTTGATGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCGGAGCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
* ** * * * * *
1508 AGATGGTG-ATCCTTATCTTCTTAAGATAGTGGAGAAGCAGATTTGAGACATTAGTCCA-ATCTC
131 AGATGATGAAT-CTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT-CATATCAC
* *
1571 CCTAAGCAGTAGAGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTATTGGAGTAGA
194 CCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGA
* * *
1636 TCGAAGATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCTGATTTAAGCCATTAGTCCTATC
259 TCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATC
* * * ** **
1701 ACCTTAAGTAGTAGTAGAGTAGGTTGAAGATTTTAGATTCTGTCACCCTAAGCAGTAGTGGAGCG
324 ACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTA
1766 GATCGAAG
389 GATCGAAG
* * * * * * * *
1774 ATGGTGATTCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTGAGCCATTAGTCCAATCTCCATA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* ** * *
1839 AGCAGTAGAGGAGTAGGTCAAAGATTGCAGATTCTGTCACCCTAAACAGTAGT-GACGCAGATCA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA-GCAGATCG
* * *
1903 AAAATGATGAATCTTATTTTCCCAATACAGTGGAGAAGAAGATTTAAGCCATTAGTCATATCACC
130 AAGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACC
* * * *
1968 CTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACCTTAAGCGGTAGTGGAGTAGAT
195 CTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGAT
* *
2033 CGAAGATAGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCA
260 CGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCA
* * *
2098 CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCACCCTAAGCAGTAGTGGAGCAG
325 CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAG
*
2163 ATCGAAT
390 ATCGAAG
* * * *
2170 ATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGGAGATTTAAGTCATTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * * * * *
2235 AGCAGTACTGGAGTAGGTTGAAGATTGTAGACTCTGACACTCTAAGCAGTAGTGGAGCAAATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
* * * * *
2300 AGATGGTGAATCTTATCTTCCTAATACAGTTGAGAAGTAGATTTAAGCCATTAGTCCTATCACCC
131 AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACCC
* *
2365 TAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATTCTGTCACCCTAAGCTGTAGTGGAGTAGATC
196 TAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGATC
* * * * *
2430 GAAGATGGTGAATCTTATTTTCCCCATACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCTC
261 GAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCAC
* * * * * * *
2495 CCTAAGCCA-TAGTGG-GATTGGTTCAAGCTTGCAGATTCTGTCACCCTATA-TAGTTGTGAAGC
326 CCTAAG-CAGTAGTGGAG-TAGGTTGAAGATTGCAGATTCTGTCACCCTA-AGCAGTAGTGGAGT
*
2557 AGATCGAAT
388 AGATCGAAG
*
2566 ATGATGAATCTTA-CTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCT
1 ATGGTGAATCTTATC-TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCT
* * * **
2630 ATGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTATCACCCTAAGCAGT-GTTGGAATAGATC
65 AAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG-TGGAGCAGATC
*
2694 GAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATCA
129 GAAGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT-CATATCA
* *
2758 CCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAG
193 CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAG
* * *
2823 ATCGAATATGGTGAATCTTATCTTCCCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTAT
258 ATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAAT
* *
2888 CACCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATTCTGTCACCCTAAGCTGTAGTGGAGT
323 CACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGT
2953 AGATCGAAG
388 AGATCGAAG
* * * *
2962 ATGGTGAATCTTATTTTCCCCACACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * * *
3027 AGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAACAGTAGTGAAGCAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
* *
3092 ATATGATGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACCC
131 AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACCC
* * *
3157 TAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACGCTAAGCAGTAGTGGAGTAGATC
196 TAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGATC
*
3222 GAAGATAGTGAATCTTATCTT-CC-ATACGAGTGGAGAAGCAGATTTAAGCCATTAGT-CATATC
261 GAAGATGGTGAATCTTATCTTCCCAATAC-AGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATC
* * * *
3284 ACCCTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACCTTAAGCGGTAGTGGAGTA
324 ACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTA
3349 GATCGAAG
389 GATCGAAG
* * *
3357 ATAGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * *
3422 AGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTATCACCCTAAGCAGTAGTGGAGTAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
* * * * * * *
3487 ATATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGGAGATTTAAGTCATTAGTCCTATCACCC
131 AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACCC
* * * * * *
3552 TAAGCAGTACT-G-G-A-G-T--AGA---C----TCTGACGCTCTAAGCAGTAGTGGAGCAGATT
196 TAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGATC
3603 GAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCAC
261 GAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCAC
* * * *
3668 CCTAAGCAGTAGTGGAGTCGGTTGAAGATTACAGATTCTGCCACCCTAAGCAGGAGT-GA--AG-
326 CCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGA
3729 --G-AG
391 TCGAAG
* * *
3732 AT--T--A----A-----GCAATACAGTGGAGAAGCATATTTAAGCCGTTAGTCCTATCACCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * **
3784 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTTACCCTAAGCAGTATTGGAATAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
* * * * *
3849 AGATGGTGAATCTTATTTTCCAAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCC
131 AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACCC
* * * * * *
3914 TAAGCCA-TAGTGGAATTGGTTGAAGATTACAGATTCTGTCACCCTAAACAGTAGTGAAGCAGAT
196 TAAG-CAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGAT
* * * * * * *
3978 CGAATATGATGAATCTCATTTTCTCAATACAGTGGAGAAACAGATTTATGCCATTAGT-CATATC
260 CGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCA-ATC
* * *
4042 ACCCTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTCTGTCACCCTAACCAGTAGTGGAGTA
324 ACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTA
4107 GATCGAAG
389 GATCGAAG
* *
4115 ATAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCGA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * * * *
4180 ACCAGTAGTGGAGTCGGTTGAAGATTCCAGATTCTGTCACCCTAAGTAGTAGCGGAGCAGATCGA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
*
4245 AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGAAGATTTAAGCCATTAGTCCA-ATCACC
131 AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT-CATATCACC
*
4309 CTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAGCAGTAGTGGAGCT-GA
195 CTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG-TAGA
* * * * *
4373 TCGAAGATGGTGAATCTTATCTTCCCAATATATTGTAGAAGCATATTTAAGCTATTAGT-CATAT
259 TCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCA-AT
* * * *
4437 CACCGTAAGCAGTAGTGGTGTAGGTTAAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGT
323 CACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGT
* *
4502 AGATTGGAG
388 AGATCGAAG
* * * * * * *
4511 ATAGTGAATCTCATCTTCCCAATACAGTAGAGAAGCATATTTAAGCCATTAGCCCAATCTCCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * * * **
4576 AGCAGTAGTGGAGTCGGTTGAAGATTCCAGATTCTGTCACCCTAAGAAGTAGTGAAGCAGATTAA
66 AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
* * * * * * **
4641 ATATGATGAATCTTATTTTCCCAATACAGTGGAGAATCAAATTTAAGCCATTAATCCTATCACAA
131 AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACCC
* * * *
4706 AAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGCCACCCTAAGCAGTAGTGGAGCAGATC
196 TAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGATC
* * * * * ** *
4771 GACGATTGTGAATCCTATCTTCCCAATACAGTGGAGAAGCAAATATAAGCCATTAGTCCTCTCAA
261 GAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCAC
* * * * * *
4836 CCTAATCTGTAGTGGAGTCGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGT-GTTGGAATAA
326 CCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG-TGGAGTAG
4900 ATCGAAG
390 ATCGAAG
* * *
4907 ATGGTGAATCTTATTTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCCATCTCCCTA
1 ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
* * * * *
4972 AGCCA-TAGTGGAATTGGTTGAAGATTGCAGATTCTGTCACCCTAAACAGTAGTGAAGTAGATCG
66 AG-CAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCG
* * * *
5036 AATATGATGAATCTTATTTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACC
130 AAGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACC
* *
5101 CTAAGTAGTAGTGGAGTAGGTTGAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGAT
195 CTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGAT
* * *
5166 CGAAGATGGTGATTCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATCAGTCCAATCT
260 CGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCA
* * *
5231 CCCTAAGCAATAGTGGAATTGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
325 CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
5286 GTT
Statistics
Matches: 3072, Mismatches: 375, Indels: 130
0.86 0.10 0.04
Matches are distributed among these distances:
362 167 0.05
363 3 0.00
366 1 0.00
367 2 0.00
369 3 0.00
371 1 0.00
372 1 0.00
373 1 0.00
375 6 0.00
376 131 0.04
377 2 0.00
379 4 0.00
381 48 0.02
382 85 0.03
383 10 0.00
385 2 0.00
387 1 0.00
388 3 0.00
390 1 0.00
391 2 0.00
392 1 0.00
393 1 0.00
394 5 0.00
395 303 0.10
396 2274 0.74
397 14 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (396 bp):
ATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTA
AGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGA
AGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCATATCACCC
TAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGATC
GAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCAC
CCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGTAGA
TCGAAG
Found at i:2144 original size:44 final size:44
Alignment explanation
Indices: 1961--3483 Score: 242
Period size: 44 Copynumber: 34.6 Consensus size: 44
1951 CCATTAGTCA
* * * *
1961 TATCACCCTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * * *
2005 TGTCACCTTAAGCGGTAGTGGAGTAGATCGAAGATAGT-GAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
** * * * * * * *
2048 TTATTTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TCC
1 -TA-TCACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* *
2093 AATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * **
2137 TATCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGT-GAACC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * * * * *
2180 TTATCGTCCC-AATACAGTGGAGAAGGAGATTTAAG-TCAT-TAG-TCC
1 -TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAGAT--TGTAGATTC
* * *
2225 TATCACCCTAAGCAGTACTGGAGTAGGTTGAAGATTGTAGACTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * * *
2269 TGA-CACTCTAAGCAGTAGTGGAGCAAATCGAAGATGGT-GAATC
1 T-ATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
** * * * * * *
2312 TTATCTTCCTAATACAGTTGAGAAGTAGATTTAAGCCA-T-TAG-TCC
1 -TATCACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
** *
2357 TATCACCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * *
2401 TGTCACCCTAAGCTGTAGTGGAGTAGATCGAAGATGGT-GAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
** * * * * * * *
2444 TTATTTTCCCCATA-CAGTGGAGAAGCAGATTTAAGCCATT-T-G-TCC
1 -TA-TCACCCTA-AGCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* * * * * *
2489 TATCTCCCTAAGCCA-TAGTGG-GATTGGTTCAAGCTTGCAGATTC
1 TATCACCCTAAG-CAGTAGTGGAG-TAGATTGAAGATTGTAGATTC
* * * * * * * *
2533 TGTCACCCTATA-TAGTTGTGAAGCAGATCGAATA-TG-ATGAATC
1 TATCACCCTA-AGCAGTAGTGGAGTAGATTGAAGATTGTA-GATTC
** * * * * * * *
2576 TTACTTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TCC
1 -TA-TCACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* * * *
2621 TATCACCCTATGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * *
2665 TATCACCCTAAGCAGT-GTTGGAATAGATCGAAGATGGT-GAATC
1 TATCACCCTAAGCAGTAG-TGGAGTAGATTGAAGATTGTAGATTC
* * * * * * * *
2708 TTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TCC
1 -TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* * * *
2753 AATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * * *
2797 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGT-GAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * *
2840 TTATCTTCCC-AA-TA-TAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TCC
1 -TATC-ACCCTAAGCAGTAGT-G-G-AGTAGATTGAAG--ATTGTAGATTC
** *
2885 TATCACCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * *
2929 TGTCACCCTAAGCTGTAGTGGAGTAGATCGAAGATGGT-GAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
** * * * * * * *
2972 TTATTTTCCCCACA-CAGTGGAGAAGCAGATTTAAGCCATT-T-G-TCC
1 -TA-TCACCCTA-AGCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* * *
3017 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * * * * *
3061 TGTCACTCTAAACAGTAGTGAAGCAGATCGAATA-TG-ATGAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTA-GATTC
** * * * * * *
3104 TTATTTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG--TC
1 -TA-TCACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* * * *
3148 ATATCACCCTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTC
1 -TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * *
3193 TGTCACGCTAAGCAGTAGTGGAGTAGATCGAAGATAGT-GAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * * * * *
3236 TTATCTTCCATACG-AGTGGAGAAGCAGATTTAAGCCA-T-TAG--TC
1 -TATC-ACCCTAAGCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* * * *
3279 ATATCACCCTAAGCAGTAGTGGTGTAGGTTAAAGATTGCAGATTC
1 -TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
* * * * * *
3324 TGTCACCTTAAGCGGTAGTGGAGTAGATCGAAGATAGT-GAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
** * * * * * * *
3367 TTATTTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TCC
1 -TA-TCACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGTAGATTC
* *
3412 AATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
3456 TATCACCCTAAGCAGTAGTGGAGTAGAT
1 TATCACCCTAAGCAGTAGTGGAGTAGAT
3484 CGAATATGGT
Statistics
Matches: 992, Mismatches: 364, Indels: 246
0.62 0.23 0.15
Matches are distributed among these distances:
41 13 0.01
42 23 0.02
43 263 0.27
44 458 0.46
45 200 0.20
46 20 0.02
47 15 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGATTC
Found at i:3657 original size:118 final size:118
Alignment explanation
Indices: 3463--3685 Score: 365
Period size: 118 Copynumber: 1.9 Consensus size: 118
3453 TTCTATCACC
* * *
3463 CTAAGCAGTAGTGGAGTAGATCGAATATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGGAGA
1 CTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGCAGA
* *
3528 TTTAAGTCATTAGTCCTATCACCCTAAGCAGTACTGGAGTAGACTCTGACGCT
66 TTTAAGCCATTAGTCCAATCACCCTAAGCAGTACTGGAGTAGACTCTGACGCT
* * *
3581 CTAAGCAGTAGTGGAGCAGATTGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGA
1 CTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGCAGA
*
3646 TTTAAGCCATTAGTCCAATCACCCTAAGCAGTAGTGGAGT
66 TTTAAGCCATTAGTCCAATCACCCTAAGCAGTACTGGAGT
3686 CGGTTGAAGA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 96 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (118 bp):
CTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAACCTTATCGTCCCAATACAGTGGAGAAGCAGA
TTTAAGCCATTAGTCCAATCACCCTAAGCAGTACTGGAGTAGACTCTGACGCT
Found at i:3771 original size:112 final size:112
Alignment explanation
Indices: 3626--3832 Score: 351
Period size: 112 Copynumber: 1.8 Consensus size: 112
3616 CTTATCTTCC
*
3626 CAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTAAGCAGTAGTGGAGTCGGTT
1 CAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTAAGCAGTAGTGGAGTAGGTT
3691 GAAGATTACAGATTCTGCCACCCTAAGCAGGAGTGAAGGAGATTAAG
66 GAAGATTACAGATTCTGCCACCCTAAGCAGGAGTGAAGGAGATTAAG
* * *
3738 CAATACAGTGGAGAAGCATATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTT
1 CAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTAAGCAGTAGTGGAGTAGGTT
* **
3803 GAAGATTGCAGATTCTGTTACCCTAAGCAG
66 GAAGATTACAGATTCTGCCACCCTAAGCAG
3833 TATTGGAATA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 88 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (112 bp):
CAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCAATCACCCTAAGCAGTAGTGGAGTAGGTT
GAAGATTACAGATTCTGCCACCCTAAGCAGGAGTGAAGGAGATTAAG
Done.