Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006697.1 Hibiscus syriacus cultivar Beakdansim tig00016659_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: 59239
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:5996 original size:43 final size:42
Alignment explanation
Indices: 5913--6053 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 42
5903 AAACAAAATG
5913 CTAGAGGTGCCTATCTGGCTCT-AAAAAAAGAGAAAAAATTA
1 CTAGAGGTGCCTATCTGGCTCTAAAAAAAAGAGAAAAAATTA
* *
5954 CTAGAGGTGCCTATCAGGCTCTACAAAAAAAGGGAAAAAATTA
1 CTAGAGGTGCCTATCTGGCTCTA-AAAAAAAGAGAAAAAATTA
*
5997 CTAGAGGT-CCTATCTGGCTCTAGTAAAAAAGAGAAAACAATTA
1 CTAGAGGTGCCTATCTGGCTCTA-AAAAAAAGAGAAAA-AATTA
6040 CTAGAGGTGCCTAT
1 CTAGAGGTGCCTAT
6054 ATGTCCCTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
41 21 0.23
42 25 0.28
43 39 0.43
44 5 0.06
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (42 bp):
CTAGAGGTGCCTATCTGGCTCTAAAAAAAAGAGAAAAAATTA
Found at i:8990 original size:975 final size:972
Alignment explanation
Indices: 6808--9127 Score: 4157
Period size: 975 Copynumber: 2.4 Consensus size: 972
6798 TTAATAAAAA
*
6808 AAAGTACATGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTACTA
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTACTA
6873 TCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTAA
66 TCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTAA
*
6938 GATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTAA
131 GATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTAA
*
7003 TCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAATTAAT
196 TCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAAT
* * *
7068 TAATATATAAAATATAACAATTATACTGATTAACAGTTATGATTAACAATAATAGAATAATAT-T
261 TAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATGT
7132 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAATTGAAAATCTTATGAGGA
326 -CTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAATTGAAAATCTTATGAGGA
7197 AATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTTT
390 AATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTTT
7262 AAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGTAAAGTACACGAAAATTAATTTAATC
455 AAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGTAAAGTACACG-------A---AA-C
*
7327 ATATTACAAAACTCAACTCATAACAATAGTTCAATTTAGTAACATAGTTTCAAAGATAAATCTTT
509 ATATTA-AAAACTCAACTCATAACAATAGTTCAATTTACTAACATAGTTTCAAAGATAAATCTTT
*
7392 AACAATGTGAAACAATTAATATTCTTTTATTTTTCCTTAAGATATATCTATAATCTAATCATTTT
573 AACAACGTGAAACAATTAATATTCTTTTATTTTTCCTTAAGATATATCTATAATCTAATCATTTT
7457 TATTCGATGAATAATTATTTTTCGAAATCCATAATCGTAATCATTTATTATCATTTTAGCATATT
638 TATTCGATGAATAATTATTTTTCGAAATCCATAATCGTAATCATTTATTATCATTTTAGCATATT
* *
7522 GGTTAATTGAAATAATTTGACTTTAACGATTTAATTAATTAATATATAAATATAACAGTTATACT
703 GGTTAACTGAAATAATTTAACTTTAACGATTTAATTAATTAATATATAAATATAACAGTTATACT
7587 GATTAACAGTTATGATTAACAATAATAGATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTT
768 GATTAACAGTTATGATTAACAATAATAGATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTT
7652 ACATGCACTACTTTCAAATTGAAAATCTTATGAGGAAATGTGTTCTTAAGGCGATTCAAACACAA
833 ACATGCACTACTTTCAAATTGAAAATCTTATGAGGAAATGTGTTCTTAAGGCGATTCAAACACAA
7717 ATTACTTAATGAATATTTTTAAAATTCTAAATTTTAAACCCTAAACTTAAACCACCAAATTAGAA
898 ATTACTTAATGAATATTTTTAAAATTCTAAATTTTAAACCCTAAACTTAAACCACCAAATTAGAA
7782 TTGCTCTTGT
963 TTGCTCTTGT
*
7792 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTAGT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAA-TTACT
*
7857 ATCATAGTTTCAAAGATAAATCTTTAACAAATGTGAAACAATTAATATTCTTTTATTTTTCCTTA
65 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
* *
7922 AGATATATCTATAATCTATTCATTTTTATTCGATGAATAA-TTATTTTCGAAATCCATAATCGTA
130 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
7986 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
195 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
8051 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATG
260 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATG
8116 TCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCACAATTGAAAATCTTATGAGG
325 TCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCA-AATTGAAAATCTTATGAGG
*
8181 AGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
389 AAATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
*
8246 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGTAAAGTACACG-AA-A-ATT-AAAG
454 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGTAAAGTACACGAAACATATTAAAAA
*
8307 CTCAACTCATAACAATAGTTCAATTTACTATCATAGTTTCAAAGATAAATCTTTAACAAACGTGA
519 CTCAACTCATAACAATAGTTCAATTTACTAACATAGTTTCAAAGATAAATCTTTAAC-AACGTGA
*
8372 AACAATTAATATTCTTTTATTTTTCCTTAAGATATATCTATAATCTATTCATTTTTATTCGATGA
583 AACAATTAATATTCTTTTATTTTTCCTTAAGATATATCTATAATCTAATCATTTTTATTCGATGA
* *
8437 ATAATTTTTTTTCGAAATCCATAATCGTAATCATTTATTATCATTTTTAGCATATTGGTTAGCTG
648 ATAATTATTTTTCGAAATCCATAATCGTAATCATTTATTATCA-TTTTAGCATATTGGTTAACTG
* *
8502 AAATAATTTAACTTTAATGATTTAGTTAATTAATATATCAAATATAACAGTTATACTGATTAACA
712 AAATAATTTAACTTTAACGATTTAATTAATTAATATAT-AAATATAACAGTTATACTGATTAACA
8567 GTTATGATTAACAATAATAGATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCAC
776 GTTATGATTAACAATAATAGATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCAC
* *
8632 TTACTTTCACAATTGAAAATCTTATGAGGAGATGTGTTTTTAAGGCGATTCAAACACAAATTACT
841 -TACTTTCA-AATTGAAAATCTTATGAGGAAATGTGTTCTTAAGGCGATTCAAACACAAATTACT
*
8697 TAATGAAATATTTTTAAAATTCTAAATTTTAAACCCTAAACTTAAACCATCAAATTAGAATTGCT
904 TAATG-AATATTTTTAAAATTCTAAATTTTAAACCCTAAACTTAAACCACCAAATTAGAATTGCT
8762 CTTGT
968 CTTGT
8767 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTACTA
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTACTA
*
8832 TCATAGTTTCAAAGATAAGTCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTAA
66 TCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTAA
8897 GATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTAA
131 GATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTAA
*
8962 TCATTTATTATCATTTTTAGCATATTGGTTAATTGAAATAATTTGACTTTAACGATTTAGTTAAT
196 TCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAAT
*
9027 TAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATGC
261 TAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATGT
9092 CTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
326 CTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
9128 ATTAATATGC
Statistics
Matches: 1294, Mismatches: 32, Indels: 29
0.95 0.02 0.02
Matches are distributed among these distances:
969 58 0.04
970 112 0.09
971 57 0.04
972 92 0.07
973 8 0.01
974 166 0.13
975 310 0.24
984 249 0.19
985 242 0.19
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (972 bp):
AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTACTA
TCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTAA
GATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTAA
TCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAAT
TAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATGT
CTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAATTGAAAATCTTATGAGGAA
ATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTTTA
AACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGTAAAGTACACGAAACATATTAAAAACT
CAACTCATAACAATAGTTCAATTTACTAACATAGTTTCAAAGATAAATCTTTAACAACGTGAAAC
AATTAATATTCTTTTATTTTTCCTTAAGATATATCTATAATCTAATCATTTTTATTCGATGAATA
ATTATTTTTCGAAATCCATAATCGTAATCATTTATTATCATTTTAGCATATTGGTTAACTGAAAT
AATTTAACTTTAACGATTTAATTAATTAATATATAAATATAACAGTTATACTGATTAACAGTTAT
GATTAACAATAATAGATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTACTT
TCAAATTGAAAATCTTATGAGGAAATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAA
TATTTTTAAAATTCTAAATTTTAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
Found at i:9051 original size:495 final size:495
Alignment explanation
Indices: 6808--9127 Score: 4175
Period size: 495 Copynumber: 4.7 Consensus size: 495
6798 TTAATAAAAA
*
6808 AAAGTACATGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAA-TTACT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
6872 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
*
6937 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
*
7002 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAATTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
* * *
7067 TTAATATATAAAATATAACAATTATACTGATTAACAGTTATGATTAACAATAATAGAATAATATT
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
7132 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAATTGAAAATCTTATGAGGA
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAATTGAAAATCTTATGAGGA
7197 AATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTTT
391 AATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTTT
7262 AAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
456 AAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
* *
7302 AAAGTACACGAAAATTAATTTAATCATATTACAAAACTCAACTCATAACAATAGTTCAATTTAGT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
* *
7367 AACATAGTTTCAAAGATAAATCTTTAAC-AATGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
*
7431 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
* *
7496 ATCATTTATTATCA-TTTTAGCATATTGGTTAATTGAAATAATTTGACTTTAACGATTTAATTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
7560 TTAATATAT-AAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
7624 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCAC-TACTTTCAAATTGAAAATCTTATGAGGA
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAATTGAAAATCTTATGAGGA
7688 AATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATG-AATATTTTTAAAATTCTAAATTTT
391 AATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTTT
7752 AAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
456 AAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
*
7792 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTAGT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
*
7857 ATCATAGTTTCAAAGATAAATCTTTAACAAATGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
* *
7922 AGATATATCTATAATCTATTCATTTTTATTCGATGAATAA-TTATTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
7986 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
*
8051 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
*
8116 TCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCACAATTGAAAATCTTATGAGG
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCA-AATTGAAAATCTTATGAGG
*
8181 AGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
390 AAATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
8246 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
455 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
8287 AAAGTACACG-----------AA--A-ATT--AAAGCTCAACTCATAACAATAGTTCAATTTACT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
8336 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
*
8401 AGATATATCTATAATCTATTCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
* * *
8466 ATCATTTATTATCATTTTTAGCATATTGGTTAGCTGAAATAATTTAACTTTAATGATTTAGTTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
*
8531 TTAATATATCAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
8596 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCACAATTGAAAATCTTATGAGG
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCA-AATTGAAAATCTTATGAGG
* *
8661 AGATGTGTTTTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
390 AAATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
*
8726 TAAACCCTAAACTTAAACCATCAAATTAGAATTGCTCTTGT
455 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
8767 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAA-TTACT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
*
8831 ATCATAGTTTCAAAGATAAGTCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
8896 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
*
8961 ATCATTTATTATCATTTTTAGCATATTGGTTAATTGAAATAATTTGACTTTAACGATTTAGTTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
*
9026 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
9091 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
9128 ATTAATATGC
Statistics
Matches: 1764, Mismatches: 38, Indels: 47
0.95 0.02 0.03
Matches are distributed among these distances:
479 136 0.08
480 326 0.18
481 3 0.00
482 1 0.00
484 2 0.00
490 191 0.11
491 202 0.11
492 177 0.10
493 67 0.04
494 233 0.13
495 399 0.23
496 27 0.02
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (495 bp):
AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATAATCGTA
ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAATTGAAAATCTTATGAGGA
AATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTTT
AAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
Found at i:9135 original size:46 final size:46
Alignment explanation
Indices: 9082--9173 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
9072 ACAATAATAG
9082 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
1 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
9128 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
1 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
9174 TACTTTCACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (46 bp):
ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
Found at i:18449 original size:138 final size:139
Alignment explanation
Indices: 18004--18492 Score: 454
Period size: 139 Copynumber: 3.5 Consensus size: 139
17994 ACTTTAGGCC
* * * *** *
18004 TAATTTCAAATTTAGTCCTTAAATTTAGGTA-AATTCTTAA-TTCAATCAT-GACTTTTACTGGA
1 TAATTTCACACTTAGTCCTTAAATTTAGG-AGAATTTTTAATTTGGTTC-TCG-CTTTTACTCGA
* * * * ** * *
18066 GGTTGCATTTTAATTATTCGAATCAAATAATTGTTTAAAATGATTTGGGACTAAT-AGTAGAGCC
63 GGTTCCATTTTAATCATTCGAATCAAATAATTGATTAAAATTAAATAGG-CTAATAATTAGAGCC
* *
18130 TCTATTTTAGGCT
127 TCCATTTTAGGTT
* *
18143 TAATTTCACATTTAGTCCTTAAATTTAGG-GTAATTTTTAATTTGG-TCATCGCTTTTGCTCGAG
1 TAATTTCACACTTAGTCCTTAAATTTAGGAG-AATTTTTAATTTGGTTC-TCGCTTTTACTCGAG
* * * **
18206 GTTCCATTTTAATCATTCGAATCAAATAATTGGTTAAAATTGATTAGGCTAATAATTAGAAACTC
64 GTTCCATTTTAATCATTCGAATCAAATAATTGATTAAAATTAAATAGGCTAATAATTAGAGCCTC
18271 CATTTTAGGTT
129 CATTTTAGGTT
* * ** *
18282 TAATTTCACACTTATTTCTTAAATTTAGGAGAATTTTGT-ATTTGGTTCTCATTTTTATTCGAGG
1 TAATTTCACACTTAGTCCTTAAATTTAGGAGAATTTT-TAATTTGGTTCTCGCTTTTACTCGAGG
* * * * * * *
18346 TTCCATTTTAATTATTTGAGT-AAGTAATTGATTACAATTAAATAGGTTAATATTTAGAGCCTCC
65 TTCCATTTTAATCATTCGAATCAAATAATTGATTAAAATTAAATAGGCTAATAATTAGAGCCTCC
*
18410 GTTTTAGGTT
130 ATTTTAGGTT
* * * * * * * *
18420 TAATTCCAAACTTAGTCCTTTAATCTAGGAGAATTTTTGATTTGGTGCTCGCTTATCCTCGAGGT
1 TAATTTCACACTTAGTCCTTAAATTTAGGAGAATTTTTAATTTGGTTCTCGCTTTTACTCGAGGT
18485 TCCATTTT
66 TCCATTTT
18493 GACTATTCAA
Statistics
Matches: 291, Mismatches: 50, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
137 1 0.00
138 107 0.37
139 176 0.60
140 7 0.02
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (139 bp):
TAATTTCACACTTAGTCCTTAAATTTAGGAGAATTTTTAATTTGGTTCTCGCTTTTACTCGAGGT
TCCATTTTAATCATTCGAATCAAATAATTGATTAAAATTAAATAGGCTAATAATTAGAGCCTCCA
TTTTAGGTT
Found at i:18512 original size:138 final size:135
Alignment explanation
Indices: 18055--18561 Score: 403
Period size: 139 Copynumber: 3.7 Consensus size: 135
18045 TCAATCATGA
* * * * ** *
18055 CTTTTACTGGAGGTTGCATTTTAATTATTCGAATCAAATAATTGTTTAAAATGATTTGGGACTAA
1 CTTTTACTCGAGGTTCCATTTTAA-TATTC-AATC-AATAATTGATTAAAATTAAATAGG-CTAA
* * * * *
18120 T-AGTAGAGCCTCTATTTTAGGCTTAATTTCACATTTAGTCCTTAAATTTAGG-GTAATTTTTAA
62 TAATTAGAGCCTCCATTTTAGGTTTAATTTCACACTTAGTCCTTAAATTTAGGAG-AATTTTTGA
18183 TTTGGTCATCG
126 TTTGGTC-TCG
* * * *
18194 CTTTTGCTCGAGGTTCCATTTTAATCATTCGAATCAAATAATTGGTTAAAATTGATTAGGCTAAT
1 CTTTTACTCGAGGTTCCATTTTAAT-ATTC-AATC-AATAATTGATTAAAATTAAATAGGCTAAT
** * *
18259 AATTAGAAACTCCATTTTAGGTTTAATTTCACACTTATTTCTTAAATTTAGGAGAA-TTTTGTAT
63 AATTAGAGCCTCCATTTTAGGTTTAATTTCACACTTAGTCCTTAAATTTAGGAGAATTTTTG-AT
*
18323 TTGGTTCTCA
127 TTGG-TCTCG
* * * * * *
18333 TTTTTATTCGAGGTTCCATTTTAATTATTTGAGT-AAGTAATTGATTACAATTAAATAGGTTAAT
1 CTTTTACTCGAGGTTCCATTTTAA-TA-TTCAATCAA-TAATTGATTAAAATTAAATAGGCTAAT
* * * * * *
18397 ATTTAGAGCCTCCGTTTTAGGTTTAATTCCAAACTTAGTCCTTTAATCTAGGAGAATTTTTGATT
63 AATTAGAGCCTCCATTTTAGGTTTAATTTCACACTTAGTCCTTAAATTTAGGAGAATTTTTGATT
18462 TGGTGCTCG
128 TGGT-CTCG
* * * * * * * * * *
18471 CTTATCCTCGAGGTTCCATTTTGACTATTCAATTCTATAATTCACTAAAAATGATTAGGATTAAT
1 CTTTTACTCGAGGTTCCATTTT-AATATTCAA-TCAATAATTGATTAAAATTAAATAGG-CTAAT
* *
18536 -ATTAGAGCCTACACTTTTTGGTTTAA
63 AATTAGAGCCTCCA-TTTTAGGTTTAA
18562 CCCCTTAGGT
Statistics
Matches: 296, Mismatches: 57, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
137 6 0.02
138 134 0.45
139 150 0.51
140 6 0.02
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (135 bp):
CTTTTACTCGAGGTTCCATTTTAATATTCAATCAATAATTGATTAAAATTAAATAGGCTAATAAT
TAGAGCCTCCATTTTAGGTTTAATTTCACACTTAGTCCTTAAATTTAGGAGAATTTTTGATTTGG
TCTCG
Found at i:19833 original size:2 final size:2
Alignment explanation
Indices: 19826--19858 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19816 TCTTTAAAAC
19826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19859 CCCCCATCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20042 original size:12 final size:12
Alignment explanation
Indices: 20017--20057 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
20007 ACGGAGATAT
*
20017 CAGAAATCAAAA
1 CAGAAATCAGAA
*
20029 CAGAATTCAGAA
1 CAGAAATCAGAA
20041 CAGAAATCAGAA
1 CAGAAATCAGAA
20053 CAGAA
1 CAGAA
20058 TTCAAGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.10
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:20097 original size:24 final size:24
Alignment explanation
Indices: 20016--20099 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
20006 AACGGAGATA
* *
20016 TCAGAAATCAAAACAGAA-TTCAG
1 TCAGAAATCAGAACAGAATTTAAG
* *
20039 AACAGAAATCAGAACAGAATTCAAG
1 -TCAGAAATCAGAACAGAATTTAAG
*
20064 TCATG-TATCAGAACAGAATTTAAG
1 TCA-GAAATCAGAACAGAATTTAAG
20088 TCAGAAATCAGA
1 TCAGAAATCAGA
20100 TAAAATATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
23 1 0.02
24 44 0.90
25 4 0.08
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTTAAG
Found at i:21890 original size:36 final size:36
Alignment explanation
Indices: 21843--21915 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
21833 GATAAATTAT
*
21843 AATCTACATATCCATGGTTGATTCTTTTATCACTTA
1 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
21879 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
1 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
21915 A
1 A
21916 TTCCAGAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (36 bp):
AATCTACATATCCATGGCTGATTCTTTTATCACTTA
Found at i:25498 original size:712 final size:711
Alignment explanation
Indices: 24434--26951 Score: 3997
Period size: 712 Copynumber: 3.5 Consensus size: 711
24424 TCTCTTCACC
* * *
24434 AACTTGGTACCAACCGATTATCTCTCCCAACTGTAATACCTTTACAAGACAACCATGTACGGCGG
1 AACTTGGTACCAACCGATTCTCTCTCCCAACTATAATACCTTTACAAGACAACCATGTACGACGG
24499 CTTCGACACTCAATCTCATCCGACCAAACCTCCACCTTGTCAAACCATTTTTCCAACGAGCATAT
66 CTTCGACACTCAATCTCATCCGACCAAACCTCCACCTTGTCAAACCATTTTTCCAACGAGCATAT
* * *
24564 ATTGTTCTTTAAAACTTTATCCCTATTGGATCCATCTTCAAAAATGATTAACATTGCTAATTCAC
131 ATTGTTCTTTAAAACTTTATCCCTATTGGATTCATCTTAAAAAATGATTAACATTGCTAACTCAC
* * * * * *
24629 TTAACTTCATTATTTTCGGACCTTGAAAACTTGAAAGATCTTTTATCTTCATGAAAATATTACAC
196 TTAACTTCATTATTTTCGGACCTTGAATACTTGCAAGGTCTTTTGTCTTCAAGAAAATCTTACAC
* * *
24694 TATCTGAAAAGATATAATTGTCATTGACTACGAAGATCAAGTTAATTATGATATTGCCCATGATG
261 TATCTGAAAAGATATAATTGTCATTGATTACGAGGATCAAGTTAATTATGATATTGCCCATGGTG
* *
24759 ATACAATTGTAAGTAAAGTTAACACTTATGATAACCTTGCTAATGTGAAGACTAAATTGTCTTGA
326 ATACAATTGTAAGTAAAGTTGACACTTATGATAACCTTACTAATGTGAAGACTAAATTGTCTTGA
* *
24824 ACATTCAAGCTTGATCAAGGATTGGATCCGATTGAGAATCATTGTTGATCATCGGAATAAATTTT
391 ACATTCAAGCTTGATCAAGGCTTGGACCCGATTGAGAATCATTGTTGATCATCGGAATAAATTTT
* * * * * *
24889 TGCTTCGGTTATTTGTTGATTATAGTATACATGTCCCAGCCCCTGTAACTTGTTTTTCTGTCTTG
456 TGCTTCGGTTATTTGTCGATTATAGTCTACAGGGCCCAACCCCTGTAACTTGTTTTTCTATCTTG
* *
24954 TGAACTGATAAACCAAAATATATTTTTGGAAATCAATCATTTACGGAGACTAACTACGACTATCG
521 TGAACTGATAAACCAAAATCTATTTTTGGAAATCAATCATTTACGGAGACTAACTACGACTATCA
* * *
25019 TCATTAGCACTAACCTATTTTATAGATTTGGAAAAACTCGACTCAGACTATGTCGCCTCAATGAG
586 TCATTAGCACTAACATGTTTTATAGATCTGGAAAAACTCGACTCAGACTATGTCGCCTCAATGAG
* * *
25084 AATCTAGCCCGATCTCAATTTCCCTCAGTAGACTGCCGCTAAGTGTTTCCACAGGATGTCA
651 AATCTAGCCCGATCTCAATTTCCCTCAGCAGACTGCCGCTAAGTGTTTCCACAAGATGTCG
* *
25145 AACTTGGTACCAACCAATTCTCTCTCTCAACTAATAATACCTTTACAAGACAACCATGTACGACG
1 AACTTGGTACCAACCGATTCTCTCTCCCAACT-ATAATACCTTTACAAGACAACCATGTACGACG
* * *
25210 TCTTTGACACTCAATCTCATCCGAACAAACCTCCACCTTGTCAAACCATTTTTCCAACGAGCATA
65 GCTTCGACACTCAATCTCATCCGACCAAACCTCCACCTTGTCAAACCATTTTTCCAACGAGCATA
* * * *
25275 TATTGTTGTTTAAAACTTTATCCCTATTGGATTCATCATT-AAATATGAGTAACATTGCTAACTA
130 TATTGTTCTTTAAAACTTTATCCCTATTGGATTCATC-TTAAAAAATGATTAACATTGCTAACTC
*
25339 ACTTAACTTCATTATTTTCAGACCTTGAATACTTGCAAGGTCTTTTGTCTTCAAGAAAATCTTAC
194 ACTTAACTTCATTATTTTCGGACCTTGAATACTTGCAAGGTCTTTTGTCTTCAAGAAAATCTTAC
* * *
25404 ACTATCTGAAAAGATATAATTGTCATTGATAAGGAGGATCAAGTTAATTATGATATTGCCCATGT
259 ACTATCTGAAAAGATATAATTGTCATTGATTACGAGGATCAAGTTAATTATGATATTGCCCATGG
*
25469 TGATACAATTGTAAGTAATGTTGACACTTATGATAACCTTACTAATGTGAAGACTAAATTGTCTT
324 TGATACAATTGTAAGTAAAGTTGACACTTATGATAACCTTACTAATGTGAAGACTAAATTGTCTT
* *
25534 GTACATTCAAGCTTGATCAAGGCTTGGACCCGATTGAGAATCATTGTTGATCATCGAAATAAATT
389 GAACATTCAAGCTTGATCAAGGCTTGGACCCGATTGAGAATCATTGTTGATCATCGGAATAAATT
* *
25599 TTTGCTTCGATTATTTGTCGATTATAGTCTACAGGGCCCAACCCTTGTAACTTGTTTTTCTATCT
454 TTTGCTTCGGTTATTTGTCGATTATAGTCTACAGGGCCCAACCCCTGTAACTTGTTTTTCTATCT
25664 TGTGAACTGATAAACCAAAATCTATTTTTGGAAATCAATCATTTACGGAGACTAACTACGACTAT
519 TGTGAACTGATAAACCAAAATCTATTTTTGGAAATCAATCATTTACGGAGACTAACTACGACTAT
*
25729 CATCATTAGCAATAACATGTTTTATAGATCTGGAAAAACTCGACTCAGACTATGTCGCCTCAATG
584 CATCATTAGCACTAACATGTTTTATAGATCTGGAAAAACTCGACTCAGACTATGTCGCCTCAATG
* *
25794 AGAATCTAGCCCGATCTCAATTTCCCTCAGCAGTCTGTCGCTAAGTGTTTCCACAAGATGTCG
649 AGAATCTAGCCCGATCTCAATTTCCCTCAGCAGACTGCCGCTAAGTGTTTCCACAAGATGTCG
* *
25857 AACTTGGTACAAACCGATTCTCTCTCCCAACTATAATACCTTTACAAGACAACCATATACGACGG
1 AACTTGGTACCAACCGATTCTCTCTCCCAACTATAATACCTTTACAAGACAACCATGTACGACGG
*
25922 CTTCGACACTCAATCTCATCCGACCAAACCTCCACCTTGTCAAACCATTTTTCCAACAAGCATAT
66 CTTCGACACTCAATCTCATCCGACCAAACCTCCACCTTGTCAAACCATTTTTCCAACGAGCATAT
* * * *
25987 ATTGTTGTTTAAAACTTTATCCCTCTTGGATGCATCATAAAAAATGATTAACATTGCTAACT--C
131 ATTGTTCTTTAAAACTTTATCCCTATTGGATTCATCTTAAAAAATGATTAACATTGCTAACTCAC
* *
26050 --AACTTCATTATTTTCGGACCTTGAACACTTGCAAGGTCTTTTGTCTTCCAGAAAATCTTACAC
196 TTAACTTCATTATTTTCGGACCTTGAATACTTGCAAGGTCTTTTGTCTTCAAGAAAATCTTACAC
* *
26113 TATCTGAAACA-ATATAATTGTCATTGATTACTAGGATCAAGTTAATTATTATATTGCCCATGGT
261 TATCTGAAA-AGATATAATTGTCATTGATTACGAGGATCAAGTTAATTATGATATTGCCCATGGT
* * * *
26177 GATACAAGTGTAAGTAAAGTTGACACTTATGATAACGTTACTAATGCGAAGACTAAATTGT-TTT
325 GATACAATTGTAAGTAAAGTTGACACTTATGATAACCTTACTAATGTGAAGACTAAATTGTCTTG
* *
26241 ATACATTCACGCTTGATCAAGGCTTGGACCCGATTGAGAATCATTGTTGATCATCAGAATAAATT
390 A-ACATTCAAGCTTGATCAAGGCTTGGACCCGATTGAGAATCATTGTTGATCATCGGAATAAATT
* * *
26306 TTTGCTTCGGTTATTTGCCGATTATAGTCTACAGGGCCCAATCCCTGTAACTTGGTTTTCTATCT
454 TTTGCTTCGGTTATTTGTCGATTATAGTCTACAGGGCCCAACCCCTGTAACTTGTTTTTCTATCT
* * ** *
26371 TGTGAACTGATAAACCAAAATCTATTTTTGGAAATCAATCACTTACGGGGACTTGCTACAACTAT
519 TGTGAACTGATAAACCAAAATCTATTTTTGGAAATCAATCATTTACGGAGACTAACTACGACTAT
* * *
26436 CTTCATTAGCACTAACATGTTTTATTGATCTGGAAAAACTTGACTCAGACTATGTCGCCTCAATG
584 CATCATTAGCACTAACATGTTTTATAGATCTGGAAAAACTCGACTCAGACTATGTCGCCTCAATG
** * * *
26501 AGAATCTAGCATGATCTCAATTTCCCTCAGCGGACAGCCGCTAAGTGTTTTCACAAGATGTCG
649 AGAATCTAGCCCGATCTCAATTTCCCTCAGCAGACTGCCGCTAAGTGTTTCCACAAGATGTCG
* * **
26564 AACTTGGTACCAACTGATTCTCTCTCCCAACTATAATACCTTTACAAGACAACCATGTATGGTGG
1 AACTTGGTACCAACCGATTCTCTCTCCCAACTATAATACCTTTACAAGACAACCATGTACGACGG
* * * *
26629 CTTCGACACACAATCTCATCCGACCAAACCTCTACCTCGTCAAACCATTTTTCCAGCGAGCATAT
66 CTTCGACACTCAATCTCATCCGACCAAACCTCCACCTTGTCAAACCATTTTTCCAACGAGCATAT
* *
26694 ATTGTTCTTTAAAACTTTATCCCTATTGGACTCATCTTAAAAAATGAATAACATTGCTAACTCAC
131 ATTGTTCTTTAAAACTTTATCCCTATTGGATTCATCTTAAAAAATGATTAACATTGCTAACTCAC
* * * *
26759 TTAACTTCATGATTTTCGAACCGTGAATACTTGCAAGGTCTTTTGTCTTCATGAAAATCTTACAC
196 TTAACTTCATTATTTTCGGACCTTGAATACTTGCAAGGTCTTTTGTCTTCAAGAAAATCTTACAC
* * *
26824 CATCTGAAAAAATATAATTGTCATTTATTACGAGGATCAAGTTAATTATGATATTGCCCATGGTG
261 TATCTGAAAAGATATAATTGTCATTGATTACGAGGATCAAGTTAATTATGATATTGCCCATGGTG
* *
26889 ATACAATTGTAAGTAAAGTTGACACTTCTGATAATCTTACTAATGTGAAGACTAAATTGTCTT
326 ATACAATTGTAAGTAAAGTTGACACTTATGATAACCTTACTAATGTGAAGACTAAATTGTCTT
26952 ATATAATCAA
Statistics
Matches: 1661, Mismatches: 135, Indels: 21
0.91 0.07 0.01
Matches are distributed among these distances:
706 2 0.00
707 646 0.39
708 1 0.00
709 2 0.00
710 2 0.00
711 348 0.21
712 658 0.40
713 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (711 bp):
AACTTGGTACCAACCGATTCTCTCTCCCAACTATAATACCTTTACAAGACAACCATGTACGACGG
CTTCGACACTCAATCTCATCCGACCAAACCTCCACCTTGTCAAACCATTTTTCCAACGAGCATAT
ATTGTTCTTTAAAACTTTATCCCTATTGGATTCATCTTAAAAAATGATTAACATTGCTAACTCAC
TTAACTTCATTATTTTCGGACCTTGAATACTTGCAAGGTCTTTTGTCTTCAAGAAAATCTTACAC
TATCTGAAAAGATATAATTGTCATTGATTACGAGGATCAAGTTAATTATGATATTGCCCATGGTG
ATACAATTGTAAGTAAAGTTGACACTTATGATAACCTTACTAATGTGAAGACTAAATTGTCTTGA
ACATTCAAGCTTGATCAAGGCTTGGACCCGATTGAGAATCATTGTTGATCATCGGAATAAATTTT
TGCTTCGGTTATTTGTCGATTATAGTCTACAGGGCCCAACCCCTGTAACTTGTTTTTCTATCTTG
TGAACTGATAAACCAAAATCTATTTTTGGAAATCAATCATTTACGGAGACTAACTACGACTATCA
TCATTAGCACTAACATGTTTTATAGATCTGGAAAAACTCGACTCAGACTATGTCGCCTCAATGAG
AATCTAGCCCGATCTCAATTTCCCTCAGCAGACTGCCGCTAAGTGTTTCCACAAGATGTCG
Found at i:29481 original size:20 final size:20
Alignment explanation
Indices: 29456--29547 Score: 121
Period size: 20 Copynumber: 4.5 Consensus size: 20
29446 TTTTCCTAAT
29456 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
29476 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
29497 TCGTAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
29517 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
29537 TCGCAATGCGA
1 TCGCAATGCGA
29548 TTTACATAGC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:30185 original size:20 final size:20
Alignment explanation
Indices: 30112--30201 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
30102 GCGATTCTGT
30112 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
** **
30131 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
**
30151 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
30171 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
30191 TGTTGCGATTT
1 CGTTGCGATTT
30202 AAAGTTTCAG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
19 12 0.19
20 50 0.81
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:30209 original size:20 final size:20
Alignment explanation
Indices: 30166--30209 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
30156 CGATAGTCAT
** *
30166 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
30186 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
30206 TTTC
1 TTTC
30210 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:32101 original size:20 final size:20
Alignment explanation
Indices: 32076--32221 Score: 196
Period size: 20 Copynumber: 7.6 Consensus size: 20
32066 AGAATAGTTT
32076 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
32096 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
32116 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
32136 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
32152 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
32170 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
32190 ACTATCGCAATACGAATTTG
1 ACTATCGCAATGCGAAAATG
32210 ACTATCGCAATG
1 ACTATCGCAATG
32222 AAAGAATCGC
Statistics
Matches: 113, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
14 7 0.06
16 4 0.04
17 4 0.04
18 4 0.04
20 94 0.83
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:32212 original size:74 final size:74
Alignment explanation
Indices: 32079--32240 Score: 261
Period size: 74 Copynumber: 2.2 Consensus size: 74
32069 ATAGTTTACT
*
32079 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGC
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACTATCGC
*
32144 AACGAGAGA
66 AACGAAAGA
* * **
32153 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATACGAATTTGACTATCGC
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACTATCGC
*
32218 AATGAAAGA
66 AACGAAAGA
32227 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
32241 TGAAAATCGC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (74 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACTATCGC
AACGAAAGA
Found at i:32291 original size:20 final size:20
Alignment explanation
Indices: 32266--32312 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32256 AATTCTCTCG
32266 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
32286 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
32306 TTGCGAT
1 TTGCGAT
32313 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:32343 original size:33 final size:34
Alignment explanation
Indices: 32286--32382 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
32276 CAAATTCGCA
* *
32286 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCGTTGCGATTTTCTCG
** * *
32320 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCGTTGCGATTTTCTCG
32353 TTGCGATAGTCATTTTCGCGTTGCGATTTT
1 TTGCGATAGTCATTTTCGCGTTGCGATTTT
32383 AAGTTTCAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 27 0.52
34 25 0.48
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCGTTGCGATTTTCTCG
Found at i:32954 original size:21 final size:21
Alignment explanation
Indices: 32863--32967 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
32853 GACTCACCTG
*
32863 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
32885 T-ATCGTTCAAAAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
32905 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
32926 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
32947 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
32968 CCAACATTCT
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
20 3 0.05
21 57 0.93
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:32960 original size:42 final size:42
Alignment explanation
Indices: 32860--32970 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
32850 CCCGACTCAC
* * * *
32860 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAAAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAAAGGCCA
* ** *
32902 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAAAGGCCA
*
32944 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
32971 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAAAGGCCA
Found at i:34334 original size:14 final size:14
Alignment explanation
Indices: 34315--34350 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
34305 ATTGTTTAAT
34315 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
34329 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
34343 TGATTTGT
1 TGATTTGT
34351 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:34611 original size:19 final size:19
Alignment explanation
Indices: 34506--34608 Score: 197
Period size: 19 Copynumber: 5.4 Consensus size: 19
34496 GATTCACTCG
34506 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
34525 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
34544 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
34563 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
34582 TTGCGATTCTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
34601 TTGCGATT
1 TTGCGATT
34609 CTCTCATTGC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
19 83 1.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:34640 original size:20 final size:20
Alignment explanation
Indices: 34615--34701 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
34605 GATTCTCTCA
34615 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
34635 TTGCGATAGTCAATTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
34655 TTGCGATAGTCATTTCCGTG
1 TTGCGATAGTCATTTCCGCG
*
34675 TTGCGATAGTCATATT-CGCA
1 TTGCGATAGTCAT-TTCCGCG
34695 TTGCGAT
1 TTGCGAT
34702 TTCCACGTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:38060 original size:20 final size:20
Alignment explanation
Indices: 38037--38143 Score: 135
Period size: 20 Copynumber: 5.3 Consensus size: 20
38027 CAGAATCTCG
*
38037 TTGCGATTTACAG-ATTTGCA
1 TTGCGATTTAC-GTATTCGCA
38057 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
38077 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
38097 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
38118 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
38138 TTGCGA
1 TTGCGA
38144 ATTAGGAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 58 0.78
21 15 0.20
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:38127 original size:41 final size:40
Alignment explanation
Indices: 38035--38143 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 40
38025 GTCAGAATCT
* **
38035 CGTTGCGATTTACAG-ATTTGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTAC-GTATTCGCATTGCGATTTACAAATTCG
* * *
38075 CATTGCGATTTACGTAATCGCATTGCGATTTTCCAAATTCG
1 CGTTGCGATTTACGTATTCGCATTGCGA-TTTACAAATTCG
38116 CGTTGCGATTTACGTATTCGCATTGCGA
1 CGTTGCGATTTACGTATTCGCATTGCGA
38144 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 23 0.39
41 35 0.59
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCGCATTGCGATTTACAAATTCG
Found at i:38164 original size:21 final size:21
Alignment explanation
Indices: 38140--38180 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38130 TATTCGCATT
38140 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
38161 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
38181 TACGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:39929 original size:139 final size:138
Alignment explanation
Indices: 39661--40211 Score: 510
Period size: 139 Copynumber: 4.0 Consensus size: 138
39651 GACACTTCAC
* * * **
39661 TTTAGGCCTAATTTCAAATTTAGTCCTTAAATTTAGGTA-AATTCTTAATTCAG-TCAT-GACTT
1 TTTAGGCTTAATTTCAAACTTAGTCCTTAAATTTAGG-AGAATTTTTAATTTGGTTC-TCG-CTT
* * * * *
39723 TTACTGGAGGTTGCATTTTAATTATTCGAATCAAATAATTGTTTAAAAAT-ATTTGGAACTAATA
63 TTACTCGAGGTTCCATTTTAATCATTCGAATC-AATAATTGATTAAAAATGATTAGG-ACTAATA
*
39787 TTAGAGCCTCTAT
126 TTAGAGCCTCCAT
* *
39800 TTTAGGCTTAATTTCACATTTAGTCCTTAAATTTAGG-GTAATTTTTAATTTGGTTCTCGCTTTT
1 TTTAGGCTTAATTTCAAACTTAGTCCTTAAATTTAGGAG-AATTTTTAATTTGGTTCTCGCTTTT
* *
39864 GCTCGAGGTTCCATTTTAATCATTCGAATCAAATAATTGATTAAAATTGATTAGG-CTAATAATT
65 ACTCGAGGTTCCATTTTAATCATTCGAATC-AATAATTGATTAAAAATGATTAGGACTAAT-ATT
39928 AGAAG-CTCCAT
128 AG-AGCCTCCAT
* * * * * *
39939 TTTAGGTTTAATTTCACACTTATTTCTTAAATTTAGGAGAATTTTTTTATTTGGTTCTCACTTTT
1 TTTAGGCTTAATTTCAAACTTAGTCCTTAAATTTAGGAGAA-TTTTTAATTTGGTTCTCGCTTTT
* * * * * * * * * * *
40004 ATTCGAGGTTCCATTTTAATTATTTGAGTCAGTAATTGATTACAATTAAATAGG-TTAATTTTTA
65 ACTCGAGGTTCCATTTTAATCATTCGAATCAATAATTGATTAAAAATGATTAGGACTAA-TATTA
*
40068 GAGCCTCCGT
129 GAGCCTCCAT
* * * * * * * *
40078 TTTAGGTTTAATTCCAAACTTAGTCCTTTAATCTAGGAGAATTTTTGATTTGGTGCTCGCTTATC
1 TTTAGGCTTAATTTCAAACTTAGTCCTTAAATTTAGGAGAATTTTTAATTTGGTTCTCGCTTTTA
* * * *
40143 CTCGAGGTTCCATTTTGA-CTATTC-AATTCAATAATTCACTAAAAATGATTAGGATTAATATTA
66 CTCGAGGTTCCATTTTAATC-ATTCGAA-TCAATAATTGATTAAAAATGATTAGGACTAATATTA
40206 GAGCCT
129 GAGCCT
40212 ACACTTTTTG
Statistics
Matches: 343, Mismatches: 55, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
137 1 0.00
138 74 0.22
139 210 0.61
140 58 0.17
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (138 bp):
TTTAGGCTTAATTTCAAACTTAGTCCTTAAATTTAGGAGAATTTTTAATTTGGTTCTCGCTTTTA
CTCGAGGTTCCATTTTAATCATTCGAATCAATAATTGATTAAAAATGATTAGGACTAATATTAGA
GCCTCCAT
Found at i:41846 original size:22 final size:22
Alignment explanation
Indices: 41801--41847 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
41791 AAGTTGTTTT
*
41801 TAAAATAAAATATAAGAATTAA
1 TAAAATAAAATATAAGAATAAA
*
41823 TAAAATAAAATAATTA-AATAAA
1 TAAAATAAAAT-ATAAGAATAAA
41845 TAA
1 TAA
41848 TTGAAAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAATAAAATATAAGAATAAA
Found at i:41847 original size:17 final size:18
Alignment explanation
Indices: 41803--41844 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
41793 GTTGTTTTTA
*
41803 AAATAAAATATAAGAATT
1 AAATAAAATAAAAGAATT
*
41821 -AATAAAATAAAATAATT
1 AAATAAAATAAAAGAATT
41838 AAATAAA
1 AAATAAA
41845 TAATTGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAAATAAAAGAATT
Found at i:45766 original size:40 final size:40
Alignment explanation
Indices: 45722--45873 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 40
45712 AAACTCCCAT
*
45722 AAAAAAAATGCTAGAGGTGCCTATCTGGCTCTAAAAAGAG
1 AAAAAAAATACTAGAGGTGCCTATCTGGCTCTAAAAAGAG
* * * * *
45762 AAAAAAATTACTAGAGGTACCTATCAGGCTCTACAAAAAAA
1 AAAAAAAATACTAGAGGTGCCTATCTGGCTCTA-AAAAGAG
45803 AAGGGAAAAAATTACTAGAGGT-CCTATCTGGCTCTAGTAAAAAAGAG
1 AA---AAAAAA-TACTAGAGGTGCCTATCTGGCTC---T-AAAAAGAG
*
45850 AAAAAAATTACTAGAGGTGCCTAT
1 AAAAAAAATACTAGAGGTGCCTAT
45874 ATGTCCCTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
40 29 0.32
41 7 0.08
43 10 0.11
44 26 0.29
45 10 0.11
47 8 0.09
48 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.21
Consensus pattern (40 bp):
AAAAAAAATACTAGAGGTGCCTATCTGGCTCTAAAAAGAG
Found at i:45829 original size:44 final size:45
Alignment explanation
Indices: 45754--45873 Score: 163
Period size: 44 Copynumber: 2.7 Consensus size: 45
45744 ATCTGGCTCT
45754 AAAAAGAGAAAAAAATTACTAGAGGTACCTATCAGGCTCTACAAAA
1 AAAAAG-GAAAAAAATTACTAGAGGTACCTATCAGGCTCTACAAAA
* * **
45800 AAAAAGGGAAAAAATTACTAGAGGT-CCTATCTGGCTCTAGTAAA
1 AAAAAGGAAAAAAATTACTAGAGGTACCTATCAGGCTCTACAAAA
* *
45844 AAAGA-GAAAAAAATTACTAGAGGTGCCTAT
1 AAAAAGGAAAAAAATTACTAGAGGTACCTAT
45874 ATGTCCCTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 18 0.27
44 25 0.37
45 18 0.27
46 6 0.09
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (45 bp):
AAAAAGGAAAAAAATTACTAGAGGTACCTATCAGGCTCTACAAAA
Found at i:47564 original size:496 final size:496
Alignment explanation
Indices: 46632--48981 Score: 4364
Period size: 496 Copynumber: 4.7 Consensus size: 496
46622 TTAATAAAAA
46632 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
46697 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
46762 AGATATATCTATAATCTAATCA-TTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
46826 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
46891 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
46956 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTT-AACAATTGAAAATCTTATGAG
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAA-AATTGAAAATCTTATGAG
*
47020 GAGATGTGTTCTTAAGGCGATTCAAACAAAAATTACTTAATGAAATATTTTTAAAATTCTAAATT
390 GAGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATT
*
47085 TTAAACCCTAAACTTAAACCACTAAATTAGAATTGCTCTTGT
455 TTAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
47127 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
*
47192 ATCATAGTTTCAAAGATAAATCTTTAACAAACATGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
*
47257 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCATA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
*
47322 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAATTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
* *
47387 TTAATATATAAAATATAGCAGTTATACTGATTAACAGTTATGATTAACAACAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
47452 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAAATTGAAAATCTTATGAGG
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAAATTGAAAATCTTATGAGG
*
47517 AAATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
391 AGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
47582 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
456 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
*
47623 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTAGT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
*
47688 ATCATAGTTTCAAAGATAAATCTTTAACAAATGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
* *
47753 AGATATATCTATAATCTATTCATTTTTATTCAATGAATAATTATTTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
*
47818 ATAATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
47883 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
* *
47948 TCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCACAATTGAAAATCTTATGAGG
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAAATTGAAAATCTTATGAGG
48013 AGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
391 AGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
* *
48078 TAAACCCTAAACTTAAACCAGCAAATTAGAATTGCTCTTGC
456 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
*
48119 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCGATTTACT
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
48184 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
66 ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
* * * *
48249 AGATATATCTATAATCTATTCATATTTATTCGTTGAATAATTTTTTTTCGAAATCCATAATCGTA
131 AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
48314 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
196 ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
*
48379 TTAATATATAAAATATAACAGTTATACTTATTAACAGTTATGATTAACAATAATAGATTAATATG
261 TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
*
48444 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCACAATTGAAAATCTTATGAGG
326 CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAAATTGAAAATCTTATGAGG
*
48509 AGATGTGTT-TTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTATAAATTT
391 AGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
48573 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
456 TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
48614 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAACAATAGTTCAA
1 AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAA--C-T--C-ATAACAATAGTTCAA
*
48679 TTTACTATCATAGTTTCAAAGATAAGTCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTT
60 TTTACTATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTT
*
48744 TCCTTAAGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTTTTTTTCGAAATCCATA
125 TCCTTAAGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATA
48809 ATCGTAATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTT
190 ATCGTAATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTT
*
48874 AGTTAATTAATATATAAAATATAACAGTTATACTGATTAACAGTTATAATTAACAATAATAGATT
255 AGTTAATTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATT
48939 AATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
320 AATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
48982 ATTAATATGC
Statistics
Matches: 1804, Mismatches: 43, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
495 285 0.16
496 1203 0.67
497 3 0.00
498 1 0.00
500 1 0.00
501 311 0.17
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (496 bp):
AAAGTACACGAAAATTAATTTAATCATATTACAAAGCTCAACTCATAACAATAGTTCAATTTACT
ATCATAGTTTCAAAGATAAATCTTTAACAAACGTGAAACAATTAATATTCTTTTATTTTTCCTTA
AGATATATCTATAATCTAATCATTTTTATTCGATGAATAATTATTTTTCGAAATCCATAATCGTA
ATCATTTATTATCATTTTTAGCATATTGGTTAACTGAAATAATTTGACTTTAACGATTTAGTTAA
TTAATATATAAAATATAACAGTTATACTGATTAACAGTTATGATTAACAATAATAGATTAATATG
CCTACCTCTAGTTCTTGTGGTACAATTTACATGCACTTACTTTCAAAATTGAAAATCTTATGAGG
AGATGTGTTCTTAAGGCGATTCAAACACAAATTACTTAATGAAATATTTTTAAAATTCTAAATTT
TAAACCCTAAACTTAAACCACCAAATTAGAATTGCTCTTGT
Found at i:48989 original size:46 final size:46
Alignment explanation
Indices: 48936--49027 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
48926 ACAATAATAG
48936 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
1 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
48982 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
1 ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
49028 TACTTTCACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (46 bp):
ATTAATATGCCTACCTCTAGTTCTTGTGGTACAATTTACATGCACT
Found at i:49436 original size:41 final size:41
Alignment explanation
Indices: 49391--49486 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
49381 CGATTTTCCC
*
49391 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGTA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
49432 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
49473 AAATCGCAATGCGA
1 AATTCGCAATGCGA
49487 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:49440 original size:21 final size:20
Alignment explanation
Indices: 49394--49486 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
49384 TTTTCCCAAT
49394 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* **
49414 TCGCAACGCGAATTGGTAAA
1 TCGCAATGCGAATAAGTAAA
49434 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
49455 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
49476 TCGCAATGCGA
1 TCGCAATGCGA
49487 TACTGACTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:49499 original size:41 final size:41
Alignment explanation
Indices: 49413--49547 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 41
49403 GAATAAGTAA
* * * *
49413 ATCGCAACGCGAATTGGTAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGAAAAATCGCAATGCG-ATACTG-ACT
*
49454 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGAAAAATCGCAATGCGATACTGACT
* * * * * *
49495 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGAAAAATCGCAATGCGATACTGACT
*
49536 TTCGCAACGCGA
1 ATCGCAACGCGA
49548 TACTGACTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
40 4 0.05
41 72 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGAAAAATCGCAATGCGATACTGACT
Found at i:49500 original size:20 final size:20
Alignment explanation
Indices: 49475--49569 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
49465 AATTGGGAAA
*
49475 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
49495 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
49516 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
49536 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
49556 TTCGCAACGCGATA
1 ATCGCAACGCGATA
49570 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:49779 original size:21 final size:21
Alignment explanation
Indices: 49753--49795 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
49743 CACTCTCTCA
49753 CCCATCTCCGACGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
*
49774 CCCATCTCCGGCGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
49795 C
1 C
49796 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.44, G:0.16, T:0.19
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCCGT
Found at i:50081 original size:20 final size:20
Alignment explanation
Indices: 50056--50093 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50046 CGATTCTCTC
50056 GTTGCGATAATCATTTTCGT
1 GTTGCGATAATCATTTTCGT
**
50076 GTTGCGATTTTCATTTTC
1 GTTGCGATAATCATTTTC
50094 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (20 bp):
GTTGCGATAATCATTTTCGT
Found at i:51420 original size:18 final size:18
Alignment explanation
Indices: 51399--51443 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
51389 TCCACTTCGG
*
51399 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
51417 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
51435 GAGCCATCA
1 GAGCCATCA
51444 TCTAATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:51958 original size:19 final size:20
Alignment explanation
Indices: 51904--51969 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
51894 TAGTTTACTT
* *
51904 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
51924 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* *
51944 TCGCAATGC-GAAATGA-AA
1 TCGCAACGCGGAAATGACTA
51962 TCGCAACG
1 TCGCAACG
51970 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.21
19 6 0.15
20 25 0.64
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:51978 original size:14 final size:14
Alignment explanation
Indices: 51959--52013 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
51949 ATGCGAAATG
51959 AAATCGCAACGACA
1 AAATCGCAACGACA
51973 AAATCGCAACG-CGAA
1 AAATCGCAACGAC--A
51988 ATGAATCGCAACGACA
1 A--AATCGCAACGACA
52004 AAATCGCAAC
1 AAATCGCAAC
52014 ACGAAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.03
14 20 0.56
15 2 0.06
16 2 0.06
17 10 0.28
18 1 0.03
ACGTcount: A:0.47, C:0.27, G:0.16, T:0.09
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:51987 original size:32 final size:32
Alignment explanation
Indices: 51943--52031 Score: 144
Period size: 31 Copynumber: 2.8 Consensus size: 32
51933 GGAAATGGCT
*
51943 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
51975 ATCGCAACGCGAAATG-AATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
*
52006 ATCGCAACACGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATG-AAATCGCAA
52032 TGCGATTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
31 30 0.57
32 15 0.28
33 8 0.15
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:52067 original size:14 final size:14
Alignment explanation
Indices: 52048--52105 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
52038 TTGTGTTTCG
52048 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
52062 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
52078 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
52094 CGTTGCGATTTT
1 CGTTGCGATTTT
52106 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:52082 original size:32 final size:33
Alignment explanation
Indices: 52043--52121 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
52033 GCGATTTGTG
52043 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
52075 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
52108 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
52122 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:52120 original size:19 final size:19
Alignment explanation
Indices: 52062--52179 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
52052 GCGATTTTGT
52062 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
52080 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
52094 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
52113 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
52133 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
52152 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
52172 TGTTGCGA
1 CGTTGCGA
52180 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:54032 original size:14 final size:14
Alignment explanation
Indices: 54013--54048 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
54003 ATTGTTTAAT
54013 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
54027 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
54041 TGATTTGT
1 TGATTTGT
54049 TGATTTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:54126 original size:14 final size:15
Alignment explanation
Indices: 54107--54182 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
54097 CGAAATGGCT
54107 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
54121 ATCGCAATGCGA-AATGA
1 ATCGCAA-GCGAGAA--A
54138 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
54157 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
54171 ATCGCAATGCGA
1 ATCGCAA-GCGA
54183 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
14 18 0.35
15 3 0.06
16 6 0.12
17 14 0.27
19 9 0.17
21 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:54142 original size:17 final size:17
Alignment explanation
Indices: 54120--54155 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
54110 GCAACGAGAA
54120 AATCGCAATGCGAAATG
1 AATCGCAATGCGAAATG
54137 AATCGCAATGCGAAATG
1 AATCGCAATGCGAAATG
54154 AA
1 AA
54156 AATCGCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (17 bp):
AATCGCAATGCGAAATG
Found at i:54163 original size:50 final size:50
Alignment explanation
Indices: 54088--54182 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
54078 AAAACAGACT
***
54088 ATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGA
*
54138 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
54183 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (50 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGA
Found at i:54250 original size:20 final size:19
Alignment explanation
Indices: 54208--54257 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
54198 GCGATATTCT
* *
54208 CGTTGCGATAACCATTTCG
1 CGTTGCGATAGCCATTTCA
54227 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCA-TTTCA
54247 CGTTGCGATAG
1 CGTTGCGATAG
54258 TCAAATGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (19 bp):
CGTTGCGATAGCCATTTCA
Found at i:54638 original size:14 final size:14
Alignment explanation
Indices: 54619--54654 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
54609 ATTGTTTAAT
54619 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
54633 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
54647 TGATTTGT
1 TGATTTGT
54655 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:56121 original size:12 final size:12
Alignment explanation
Indices: 56104--56128 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56094 ATATAATCCT
56104 GAAGAAGAAAAA
1 GAAGAAGAAAAA
56116 GAAGAAGAAAAA
1 GAAGAAGAAAAA
56128 G
1 G
56129 TCCCCGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:57647 original size:41 final size:40
Alignment explanation
Indices: 57560--57650 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
57550 CCTCTTCAAC
* * *
57560 GATGACAGTGGCCTCTTGAACGGTGGAGGGGACTCTCGAGG
1 GATGATAG-GGCCTCTTCAACGATGGAGGGGACTCTCGAGG
* * *
57601 AATGATAGGGCCTCTTCAACGATAGGAGTGGACTCTTGAGG
1 GATGATAGGGCCTCTTCAACGAT-GGAGGGGACTCTCGAGG
57642 GATGATAGG
1 GATGATAGG
57651 CGAGTCGAGC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 13 0.31
41 29 0.69
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.22
Consensus pattern (40 bp):
GATGATAGGGCCTCTTCAACGATGGAGGGGACTCTCGAGG
Done.