Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007246.1 Corchorus capsularis cultivar CVL-1 contig07267, 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: 9788
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Found at i:847 original size:427 final size:428
Alignment explanation
Indices: 2--908 Score: 1327
Period size: 427 Copynumber: 2.1 Consensus size: 428
1 G
* * *
2 TGCGTCTAAGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTCGAAGTCCA
1 TGCGTCGAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCCACGAAGTCCA
* * *
67 AAGCGTCAATTTTGCACATTTTTGTGCTAAACATAGTTCTTAGTAGAACTCTTTCTGGATGCGTT
66 AAGCCTAAATTTTGCACATTTTTGTGCTAAACATAGTTCTTAGGAGAACTCTTTCTGGATGCGTT
*
132 TTTTCGCACAACGAGAGCTCAAAAGGCGTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTAT
131 TTTTCGCACAACGAGAGCTCAAAAGGCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTAT
* * * * *
197 GCACAAACAAAGCTCTCCTCAAAGTCCAACCCATCAACTTTGCGCGTTTGTTTGCAACACATGGT
196 GCACAAACAAAGCTCCCCTCAAAGTCCAAACCATCAACTTTGCGAGTTTGTATGCAACACATCGT
** * * *
262 TCTTAGAGGTGTGTTGGAGTGAGATGAGATTTTTGAACAGCCCTATGCATAAACAAAGCATTCCT
261 TCTTAGAGGTGTGTTCAAGTGAAATGAGATTTTTGAACAGCCCTATGCAGAAACAAAACATTCCT
* * * *
327 GGAAGCCCAAAATCTTAACTTTGAGCAGTTCTATGCAAAACATCATTTTTAGCGAAAGACTCATT
326 AGAAGCCCAAAAGCTCAACTCTGAGCAGTTCTATGCAAAACATCATTTTTAGCGAAAGACTCATT
*
392 CCAGATGCATTTTTTGTGCAACGAGTGCTCAAATGTCA
391 CCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCA
* * * * * *
430 TGCGTCGAATTGCGATGAGATTGTTCGACATCCCTGTGCACAAATAAAG-TTTTCACGATGTCCA
1 TGCGTCGAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCCACGAAGTCCA
* * * *
494 AAGCCTAAACTTTT-CGCGTTTTTGTGCTAAACATAGTTCTTAGGATAACTCTTTCTGGTTGTCG
66 AAGCCTAAA-TTTTGCACATTTTTGTGCTAAACATAGTTCTTAGGAGAACTCTTTCTGGATG-CG
* *
558 TTTTTTCGCACAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCT
129 TTTTTTCGCACAACGAGAGCTCAAAAGGCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCT
* * * *
623 ATGCACAAACAAAGCTCCCCTCGAGGTCCAAAGCATCAGCTTTGCGAGTTTGTATGCAACACATC
194 ATGCACAAACAAAGCTCCCCTCAAAGTCCAAACCATCAACTTTGCGAGTTTGTATGCAACACATC
* * *
688 GTTCTTAGCGGTGTG-TCAAGTGAAATGA-ACTTTTTGGACAGCCCTATGCAGAAACAAAACTTT
259 GTTCTTAGAGGTGTGTTCAAGTGAAATGAGA-TTTTTGAACAGCCCTATGCAGAAACAAAACATT
* * * *
751 CCTAGAAGCCCAAAAGCTCAACTCTGATCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTC
323 CCTAGAAGCCCAAAAGCTCAACTCTGAGCAGTTCTATGCAAAACATCATTTTTAGCGAAAGACTC
* *
816 ATTCCATATGCATTTTTTGCGCAACGAGTGCTCAAATGTCG
388 ATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCA
*
857 TGTGTCGAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTT
1 TGCGTCGAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTT
909 GTTAGGCAGC
Statistics
Matches: 423, Mismatches: 52, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
426 1 0.00
427 239 0.57
428 183 0.43
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (428 bp):
TGCGTCGAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCCACGAAGTCCA
AAGCCTAAATTTTGCACATTTTTGTGCTAAACATAGTTCTTAGGAGAACTCTTTCTGGATGCGTT
TTTTCGCACAACGAGAGCTCAAAAGGCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTAT
GCACAAACAAAGCTCCCCTCAAAGTCCAAACCATCAACTTTGCGAGTTTGTATGCAACACATCGT
TCTTAGAGGTGTGTTCAAGTGAAATGAGATTTTTGAACAGCCCTATGCAGAAACAAAACATTCCT
AGAAGCCCAAAAGCTCAACTCTGAGCAGTTCTATGCAAAACATCATTTTTAGCGAAAGACTCATT
CCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCA
Found at i:919 original size:30 final size:30
Alignment explanation
Indices: 877--937 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
867 TGCGATGAGA
*
877 TTGTTGGACAGCCCTGTGCACAAACAAAGC
1 TTGTTGGACAGCCCTATGCACAAACAAAGC
907 TTGTTAGG-CAGCCCTATGCACAAACAAAGC
1 TTGTT-GGACAGCCCTATGCACAAACAAAGC
937 T
1 T
938 GTACTAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
TTGTTGGACAGCCCTATGCACAAACAAAGC
Found at i:1146 original size:300 final size:299
Alignment explanation
Indices: 605--1508 Score: 1409
Period size: 300 Copynumber: 3.0 Consensus size: 299
595 GAATGAGATG
* * * *
605 AGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCCCCTCGAGGTCCAAAGCATCAGCTTTGCG-
1 AGCTTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGC
* * * * *
669 AGTTTGTATGCAACACATCGTTCTTAGCGGTGTGTC-AAGTGAAATGAACTTTTTGGACAGCCCT
66 A-TTTGTATGCAACACATCGTTCTTAG-AGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCT
* * * * * *
733 ATGCAGAAACAAAACTTTCCTAGAAGCCCAAAAGCTCAACTCTGATCGGTTGTATGCAAAACATC
129 GTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATC
* *
798 ATTTTTAGCGAAAGGCTCATTCCATATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGTGTC
194 ATTTTTAGCGAAAGGCTCATTCCAAATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTC
863 GAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAA
259 GAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAA
* * * * * *
904 AGCTTGTTAGGCAGCCCTATGCACAAACAAAGCTGTACTAGATGTCCAAAGCATCAAATTTCCGC
1 AGCTTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGC
969 ATTTGTATGCAACACATCGTTCTTAGATGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTG
66 ATTTGTATGCAACACATCGTTCTTAGA-GTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTG
*
1034 TGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCA
130 TGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATCA
* *
1099 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAG
195 TTTTTAGCGAAAGGCTCATTCCAAATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCG
* *
1164 AAGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAA
260 AAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAA
*
1204 AGTTTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGC
1 AGCTTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGC
* * *
1269 ATTTCTATGTAACACATCGTTCATAGCAGTTT-TGCGGAGTGAGATGAACTTTTTGGATAGCCCT
66 ATTTGTATGCAACACATCGTTCTTAG-AGTTTGT-CGGAGTGAGATGAACTTTTTGGATAGCCCT
*
1333 GTGCACAAACAAAGCTTTCCTAGAAGACCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATC
129 GTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATC
* *
1398 ATTTTTAGCGAAAGGCTCATTCCAAATGCATTTTTTGCGCAACGAGTGCTCAAATATCATGCGTC
194 ATTTTTAGCGAAAGGCTCATTCCAAATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTC
* *
1463 GAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACTA
259 GAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAA
1504 AGCTT
1 AGCTT
1509 TCACGATGTC
Statistics
Matches: 553, Mismatches: 47, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
299 86 0.16
300 466 0.84
301 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (299 bp):
AGCTTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGC
ATTTGTATGCAACACATCGTTCTTAGAGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGT
GCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATCAT
TTTTAGCGAAAGGCTCATTCCAAATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGA
AGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAA
Found at i:1816 original size:727 final size:728
Alignment explanation
Indices: 904--2228 Score: 2228
Period size: 727 Copynumber: 1.8 Consensus size: 728
894 GCACAAACAA
* * *
904 AGCTTGTTAGGCAGCCCTATGCACAAACAAAGCTGTACTAGATGTCCAAAGCATCAAATTTCCGC
1 AGCTTGTTAGACAGCCCTATGCACAAACAAAGCTCTACTAGAAGTCCAAAGCATCAAATTTCCGC
* * *
969 ATTTGTATGCAACACATCGTTCTTAGATGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTG
66 ATTTGTATGCAACACATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTA
*
1034 TGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCA
131 TGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCA
1099 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAG
196 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAG
* * * *
1164 AAGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGTTTGTTAGGCAGCGCTATGCACA
261 AAGTACAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGCTTGTTAGGCAGCCCAATGCACA
* * *
1229 AACAAAGCTCTCCTCGATGTCCAAAG-CATCAACTTTGCGCATTTCTATGTAACACATCGTTCAT
326 AACAAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTCTATGCAACACATCGTTCAT
1293 AGCA-GTTT-TGCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAG
391 AG-ATGTTTGT-CGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAG
1356 AAGACCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCC
454 AAGACCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCC
* * *
1421 AAATGCATTTTTTGCGCAACGAGTGCTCAAATATCATGCGTCGAATTGCGATGAGATTGTTGGAC
519 AAATGCATTTTTTGCGCAACGAGTGCTCAAATATCATGCGTAGAAGTGCAATGAGATTGTTGGAC
1486 AGCCCTGTGCACAAACTAAGCTTTCACGATGTCCAAAGCCTAAACTTTGCGCGTTTTTGTGCTAA
584 AGCCCTGTGCACAAACTAAGCTTTCACGATGTCCAAAGCCTAAACTTTGCGCGTTTTTGTGCTAA
1551 ACATAATTCTTAGGAAAACTCTTTCTGGATGCGTTTTTTCGCACAACGAGTGCTCAAAAGTCGTG
649 ACATAATTCTTAGGAAAACTCTTTCTGGATGCGTTTTTTCGCACAACGAGTGCTCAAAAGTCGTG
1616 CGTCGGAATGAGATG
714 CGTCGGAATGAGATG
* * * * *
1631 AGCTTGTTAGACAGCGCTATGCACAAGCAAAGCTCTCCTCGAAGTCCAAAGCAT-AAACTTTGCG
1 AGCTTGTTAGACAGCCCTATGCACAAACAAAGCTCTACTAGAAGTCCAAAGCATCAAA-TTTCCG
* *
1695 -AGTTTTTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCC
65 CA-TTTGTATGCAACACATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCC
* *
1759 TATGTAGAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACAT
129 TATGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACAT
1824 CATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGT
194 CATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGT
* * * *
1889 CGAAGTACGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCCCAATGGA
259 AGAAGTACAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGCTTGTTAGGCAGCCCAATGCA
* *
1954 CAAACAAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTGTATGCAATACATCGTTC
324 CAAACAAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTCTATGCAACACATCGTTC
* *
2019 TTAGATGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCGCTGTGCACAAACAAAGCTTTCCTAG
389 ATAGATGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAG
* *
2084 AAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCC
454 AAGACCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCC
* * *
2149 AGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAGTGCAATGAGATTGTTGGAC
519 AAATGCATTTTTTGCGCAACGAGTGCTCAAATATCATGCGTAGAAGTGCAATGAGATTGTTGGAC
2214 AGCCCTGTGCACAAA
584 AGCCCTGTGCACAAA
2229 AAAAGTTTGT
Statistics
Matches: 554, Mismatches: 39, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
726 4 0.01
727 320 0.58
728 229 0.41
729 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (728 bp):
AGCTTGTTAGACAGCCCTATGCACAAACAAAGCTCTACTAGAAGTCCAAAGCATCAAATTTCCGC
ATTTGTATGCAACACATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTA
TGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCA
TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAG
AAGTACAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGCTTGTTAGGCAGCCCAATGCACA
AACAAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTCTATGCAACACATCGTTCAT
AGATGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAA
GACCAAAACCTCAACTTTGAACGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAA
ATGCATTTTTTGCGCAACGAGTGCTCAAATATCATGCGTAGAAGTGCAATGAGATTGTTGGACAG
CCCTGTGCACAAACTAAGCTTTCACGATGTCCAAAGCCTAAACTTTGCGCGTTTTTGTGCTAAAC
ATAATTCTTAGGAAAACTCTTTCTGGATGCGTTTTTTCGCACAACGAGTGCTCAAAAGTCGTGCG
TCGGAATGAGATG
Found at i:1946 original size:30 final size:30
Alignment explanation
Indices: 1904--1963 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1894 TACGATGAGA
**
1904 TTGTTGGACAGCCCTGTGCACAAACAAAGC
1 TTGTTGGACAGCCCAATGCACAAACAAAGC
*
1934 TTGTTAGG-CAGCCCAATGGACAAACAAAGC
1 TTGTT-GGACAGCCCAATGCACAAACAAAGC
1964 ACTACTCGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.18
Consensus pattern (30 bp):
TTGTTGGACAGCCCAATGCACAAACAAAGC
Found at i:2481 original size:300 final size:300
Alignment explanation
Indices: 1634--2834 Score: 2055
Period size: 301 Copynumber: 4.0 Consensus size: 300
1624 TGAGATGAGC
* * * *
1634 TTGTTAGACAGCGCTATGCACAAGCAAAGCTCTCCTCGAAGTCCAAAGCATAAACTTTGCG-AGT
1 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCA-T
* * * * *
1698 TTTTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATG
65 TTCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTG
* * *
1763 TAGAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATT
130 CACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATT
*
1828 TTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAA
195 TTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAA
* * * *
1893 GTACGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGC
260 GTGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGT
* * * * *
1934 TTGTTAGGCAGCCCAATGGACAAACAAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCAT
1 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAG-CATCAACTTTGCGCAT
* * * *
1999 TTGTATGCAATACATCGTTCTTAG-ATGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCGCTGT
65 TTCTATGCAACACATCGTTCATAGCA-GTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGT
2063 GCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAT
129 GCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAT
2128 TTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGA
194 TTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGA
2193 AGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGT
259 AGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGT
2235 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCATT
1 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCATT
*
2300 TCTATGTAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGC
66 TCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGC
2365 ACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTT
131 ACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTT
*
2430 TTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTACGTAGAAG
196 TTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAG
2495 TGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGT
261 TGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGT
2535 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCATT
1 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCATT
*
2600 TCTATGTAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTTGGATAGCCCTGTG
66 TCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAAC-TTTTTGGATAGCCCTGTG
2665 CACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATT
130 CACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATT
* *
2730 TTTAGCTAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAA
195 TTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAA
* *
2795 GTGCAATGAGATTGTTGGACAGCCCTATGCACAAATAAAG
260 GTGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAG
2835 CTTTCACGAA
Statistics
Matches: 857, Mismatches: 39, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
300 395 0.46
301 461 0.54
302 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (300 bp):
TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCATT
TCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGC
ACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTT
TTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAG
TGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGT
Found at i:2776 original size:601 final size:601
Alignment explanation
Indices: 1634--3984 Score: 2150
Period size: 601 Copynumber: 4.0 Consensus size: 601
1624 TGAGATGAGC
*
1634 TTGTTAGACAGCGCTATGCACAAGCAAAGCTCTCCTCGAAGTCCAAAGCATAAACTTTGCGAGTT
1 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATAAACTTTGCGAGTT
* * * *
1699 TTTATGCAACACATCGTTCTTAGCGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGT
66 TCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGC
*
1764 AGAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTT
131 ACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTT
* *
1829 TTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAG
196 TTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTACGTAGAAG
* * *
1894 TACGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCCCAATGGACAAAC
261 TACAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGCTTGTTAGGCAGCCCAATGCACAAAC
* * *
1959 AAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTGTATGCAATACATCGTTCTTAGA
326 AAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTCTATGCAACACATCGTTCATAGA
*
2024 TGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCGCTGTGCACAAACAAAGCTTTCCTAGAAGCC
391 TGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCC
2089 CAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATG
456 CAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATG
2154 CATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAGTGCAATGAGATTGTTGGACAGCCC
521 CATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAGTGCAATGAGATTGTTGGACAGCCC
*
2219 TGTGCACAAAAAAAGT
586 TATGCACAAAAAAAGT
* * *
2235 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCA-T
1 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATAAACTTTGCG-AGT
* * *
2299 TTCTATGTAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTG
65 TTCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATG
*
2364 CACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATT
130 CACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATT
2429 TTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTACGTAGAA
195 TTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTACGTAGAA
* * * *
2494 GTGCAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGTTTGTTAGGCAGCGCTATGCACAAA
260 GTACAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGCTTGTTAGGCAGCCCAATGCACAAA
* * *
2559 CAAAGCTCTCCTCGATGTCCAAAG-CATCAACTTTGCGCATTTCTATGTAACACATCGTTCATAG
325 CAAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTCTATGCAACACATCGTTCATAG
2623 CA-GTTTGTCGGAGTGAGATGAACTTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAA
390 -ATGTTTGTCGGAGTGAGATGAAC-TTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAA
*
2687 GCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCTAAAGGCTCATTCCAG
453 GCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAG
*
2752 ATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAGTGCAATGAGATTGTTGGACAG
518 ATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAGTGCAATGAGATTGTTGGACAG
* *
2817 CCCTATGCACAAATAAAGC
583 CCCTATGCACAAAAAAAGT
* * * * *** * * * **
2836 TT-TCACGA-AG-TCTAAAGC-CTGAACTTTTCGCCTTTTTGTGCTAAAC-ATAGTTCTTAGCA-
1 TTGTTA-GACAGCGCT-ATGCAC-AAAC--AAAG-C----TCTCCT---CGA-AGTCCAAAGCAT
* * * * * * *
2895 AAACTCTTTCTGGATTCGTTTTTTTGC-ACAACGAGT-GCTCAAAAGTC-GTGTGTCGGAATGAG
52 AAACT-TTGC--GA---GTTTCTATGCAAC-AC-A-TCGTTC-ATAG-CAGTTTGTCGGAGTGAG
* * * * * * * * * * * * *
2957 ATTGAGCTTGTTAGACAACGCTATGCACAAACAAAGCTCTCCTCGAGGTCCAAAGCATAAACTTT
106 A-TGAACTTTTTGGACAGCCCTATGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTT
* * * * * * * * ** * * * *
3022 GCGAGTTTGTTTGCAACACATCGTTCTTAGTG-GTGTG-TCGAAT-GAGATGAACTTTTTG-GAC
170 GAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAG-GCTC-ATTCCAGATGCATTTTTTGCG-C
* ** ** * * * * * * * **
3083 AGCCCTGTGCAGAAATAAAG-CTTTCGTAGAAGCCCAAAACCTCA-ACT-CT-G--AGCGGT-TG
232 A-ACGAGTGCTCAAAT---GTCGTACGTAGAAG--TACAA--TGAGATTGTTGGACAGCCCTGTG
* * * * * * * *
3141 TATATAAAATATCATT-TT---TAG--C---G-------AAAG----GCTC-AT-TCCATATG-T
289 CACA-AAAAAAGC-TTGTTAGGCAGCCCAATGCACAAACAAAGCACTACTCGATGTCCA-AAGCC
** * * * * * * *
3183 AT--TTTTTGCGCA--ACGAGTGC-TCAAAT-G-TC---G-TG--TGTCGAATTGCGATGAGA-T
351 ATCAACTTTGCGCATTTCTA-TGCAACACATCGTTCATAGATGTTTGTCGGAGTGAGATGA-ACT
* ** * * * * * *
3234 TGTTGGACGGCCCTGTGCACAAACAAAGCTTT-C-ACGAAGTCCAAAGCCTAAACTTTTCA-TGT
414 TTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTA-GAAGCCCAAAACCTCAAC-TTTGAGCGG
* * * * * * ** * *
3296 TTTTGTGCTAAACAT-AGTTCTTAG-GAAA-ACTCTTTCTGGATGCGTTTTTTCGCACAACGAGT
477 TTGTATGCAAAACATCA-TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTT-GCGCAACGAGT
* * *
3358 GCTCAAAAGTCGT--GT----GT-C---G-GA---AT--A-AG----ATG---------AGC
540 GCTCAAATGTCGTGCGTAGAAGTGCAATGAGATTGTTGGACAGCCCTATGCACAAAAAAAGT
* *
3390 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGAATCAACTTTGCGAGTT
1 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATAAACTTTGCGAGTT
* *
3455 TATATGCAACACATCGTTCTTAGC-G---GTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGC
66 TCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGC
* * *
3516 AGAAACAAAACTTTCTTAGAAGCCCAAAACCTCAACTTTGTGCGGTTGTATGCAAAACATCATTT
131 ACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTT
* * *
3581 TTAGCGAAAGGCTCATTCTAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAG
196 TTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTACGTAGAAG
* * *
3646 TGCAATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCCCTATGCACAAAC
261 TACAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGCTTGTTAGGCAGCCCAATGCACAAAC
* * * *
3711 AAAGCTCTACTCGATGTCCAAAG-CATCAACTTTGCGCATTTGTATGCAATACATCGTTCTTAGA
326 AAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTCTATGCAACACATCGTTCATAGA
3775 TGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCC
391 TGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCC
3840 CAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATG
456 CAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATG
* * * *
3905 CATTTTTTGCGCAACGAGTGCTCAAATGTCATGCGTCGAATTGCGATGAGATTGTTGGACAGCCC
521 CATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAGTGCAATGAGATTGTTGGACAGCCC
* *
3970 TGTGCACAAATAAAG
586 TATGCACAAAAAAAG
3985 CTTTCACAAA
Statistics
Matches: 1357, Mismatches: 251, Indels: 289
0.72 0.13 0.15
Matches are distributed among these distances:
527 2 0.00
528 2 0.00
529 3 0.00
530 2 0.00
531 11 0.01
532 11 0.01
533 88 0.06
534 28 0.02
535 3 0.00
537 3 0.00
538 3 0.00
539 4 0.00
540 11 0.01
541 2 0.00
543 2 0.00
545 11 0.01
546 5 0.00
547 4 0.00
548 4 0.00
551 3 0.00
552 7 0.01
553 5 0.00
554 15 0.01
555 13 0.01
556 7 0.01
557 1 0.00
558 2 0.00
561 1 0.00
562 2 0.00
563 4 0.00
564 47 0.03
565 35 0.03
566 27 0.02
567 19 0.01
568 3 0.00
570 1 0.00
572 1 0.00
573 3 0.00
574 1 0.00
576 1 0.00
577 3 0.00
578 2 0.00
580 1 0.00
582 3 0.00
583 19 0.01
584 27 0.02
585 35 0.03
586 34 0.03
587 15 0.01
588 1 0.00
589 1 0.00
590 1 0.00
593 2 0.00
594 1 0.00
595 6 0.00
596 4 0.00
597 8 0.01
598 4 0.00
599 9 0.01
600 70 0.05
601 509 0.38
602 2 0.00
603 1 0.00
604 4 0.00
607 4 0.00
609 5 0.00
610 11 0.01
611 2 0.00
612 1 0.00
614 3 0.00
615 8 0.01
616 7 0.01
617 35 0.03
618 90 0.07
619 11 0.01
620 12 0.01
621 2 0.00
622 3 0.00
623 2 0.00
624 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (601 bp):
TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATAAACTTTGCGAGTT
TCTATGCAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGC
ACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTT
TTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTACGTAGAAG
TACAATGAGATTGTTGGACAGCCCTGTGCACAAAAAAAGCTTGTTAGGCAGCCCAATGCACAAAC
AAAGCACTACTCGATGTCCAAAGCCATCAACTTTGCGCATTTCTATGCAACACATCGTTCATAGA
TGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCC
CAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATG
CATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTAGAAGTGCAATGAGATTGTTGGACAGCCC
TATGCACAAAAAAAGT
Found at i:3332 original size:427 final size:425
Alignment explanation
Indices: 2535--3687 Score: 1817
Period size: 427 Copynumber: 2.7 Consensus size: 425
2525 CAAAAAAAGT
* *
2535 TTGTTAGGCAGCGCTATGCACAAACAAAGCTCTCCTCGATGTCCAAAGCATCAACTTTGCGCA-T
1 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCG-AGT
* * * * *
2599 TTCTATGTAACACATCGTTCATAGCAGTTTGTCGGAGTGAGATGAACTTTTTTGGATAGCCCTGT
65 TTATATGCAACACATCGTTCTTAGC-GGTTGTC-GAGTGAGATGAAC-TTTTTGGACAGCCCTGT
*
2664 GCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAT
127 GCAGAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAT
*
2729 TTTTAGCTAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGA
192 TTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGA
* * * *
2794 AGTGCAATGAGATTGTTGGACAGCCCTATGCACAAATAAAGCTTTCACGAAGTCTAAAGCCTGAA
257 AGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTAAA
* * *
2859 CTTTTCGCCTTTTTGTGCTAAACATAGTTCTTAGCAAAACTCTTTCTGGATTCGTTTTTTTGCAC
322 CTTTTCACCTTTTTGTGCTAAACATAGTTCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCAC
*
2924 AACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATTGAGC
387 AACGAGTGCTCAAAAGTCGTGTGTCGGAATAAGA-TGAGC
* * *
2964 TTGTTAGACAACGCTATGCACAAACAAAGCTCTCCTCGAGGTCCAAAGCATAAACTTTGCGAGTT
1 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTT
* * * *
3029 TGTTTGCAACACATCGTTCTTAGTGGTGTGTCGAATGAGATGAACTTTTTGGACAGCCCTGTGCA
66 TATATGCAACACATCGTTCTTAGCGGT-TGTCGAGTGAGATGAACTTTTTGGACAGCCCTGTGCA
* * * ** *
3094 GAAATAAAGCTTTCGTAGAAGCCCAAAACCTCAACTCTGAGCGGTTGTATATAAAATATCATTTT
130 GAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTT
* * * *
3159 TAGCGAAAGGCTCATTCCATATGTATTTTTTGCGCAACGAGTGCTCAAATGTCGTGTGTCGAATT
195 TAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAGT
* *
3224 GCGATGAGATTGTTGGACGGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTAAACTT
260 GCAATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTAAACTT
** *
3289 TTCATGTTTTTGTGCTAAACATAGTTCTTAGGAAAACTCTTTCTGGATGCGTTTTTTCGCACAAC
325 TTCACCTTTTTGTGCTAAACATAGTTCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCACAAC
3354 GAGTGCTCAAAAGTCGTGTGTCGGAATAAGATGAGC
390 GAGTGCTCAAAAGTCGTGTGTCGGAATAAGATGAGC
*
3390 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGAATCAACTTTGCGAGTT
1 TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTT
* *
3455 TATATGCAACACATCGTTCTTAGCGGTCG--GAGTGAGATGAACTTTTTGGACAGCCCTATGCAG
66 TATATGCAACACATCGTTCTTAGCGGTTGTCGAGTGAGATGAACTTTTTGGACAGCCCTGTGCAG
* * *
3518 AAACAAAACTTTCTTAGAAGCCCAAAACCTCAACTTTGTGCGGTTGTATGCAAAACATCATTTTT
131 AAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTT
*
3583 AGCGAAAGGCTCATTCTAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAGTG
196 AGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAGTG
3648 CAATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTT
261 CAATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTT
3688 GTTAGGCAGC
Statistics
Matches: 660, Mismatches: 62, Indels: 10
0.90 0.08 0.01
Matches are distributed among these distances:
423 187 0.28
425 1 0.00
426 90 0.14
427 285 0.43
428 15 0.02
429 82 0.12
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (425 bp):
TTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTT
TATATGCAACACATCGTTCTTAGCGGTTGTCGAGTGAGATGAACTTTTTGGACAGCCCTGTGCAG
AAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTT
AGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAGTG
CAATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTAAACTTT
TCACCTTTTTGTGCTAAACATAGTTCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCACAACG
AGTGCTCAAAAGTCGTGTGTCGGAATAAGATGAGC
Found at i:3698 original size:30 final size:30
Alignment explanation
Indices: 3656--3716 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
3646 TGCAATGAGA
*
3656 TTGTTGGACAGCCCTGTGCACAAACAAAGC
1 TTGTTGGACAGCCCTATGCACAAACAAAGC
3686 TTGTTAGG-CAGCCCTATGCACAAACAAAGC
1 TTGTT-GGACAGCCCTATGCACAAACAAAGC
3716 T
1 T
3717 CTACTCGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
TTGTTGGACAGCCCTATGCACAAACAAAGC
Found at i:3925 original size:300 final size:296
Alignment explanation
Indices: 3387--3987 Score: 979
Period size: 300 Copynumber: 2.0 Consensus size: 296
3377 GAATAAGATG
* *
3387 AGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGAATCAACTTTGCGA
1 AGCTTGTTAGACAGCCCTATGCACAAACAAAGCTCTACTCGAAGTCCAAAGAATCAACTTTGCGA
3452 GTTTATATGCAACACATCGTTCTTAGCGGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGCA
66 GTTTATATGCAACACATCGTTCTTAGCGGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGCA
* * *
3517 GAAACAAAACTTTCTTAGAAGCCCAAAACCTCAACTTTGTGCGGTTGTATGCAAAACATCATTTT
131 CAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTT
* *
3582 TAGCGAAAGGCTCATTCTAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAGT
196 TAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCATGCGTCGAAGT
3647 GCAATGAGATTGTTGGACAGCCCTGTGCACAAACAA
261 GCAATGAGATTGTTGGACAGCCCTGTGCACAAACAA
* * *
3683 AGCTTGTTAGGCAGCCCTATGCACAAACAAAGCTCTACTCGATGTCCAAAGCATCAACTTTGCGC
1 AGCTTGTTAGACAGCCCTATGCACAAACAAAGCTCTACTCGAAGTCCAAAGAATCAACTTTGCG-
* * * *
3748 A-TTTGTATGCAATACATCGTTCTTAGATGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCCCT
65 AGTTTATATGCAACACATCGTTCTTAG-CG---GTCGGAGTGAGATGAACTTTTTGGACAGCCCT
* *
3812 GTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATC
126 ATGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATC
3877 ATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCATGCGTC
191 ATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCATGCGTC
* * *
3942 GAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAATAA
256 GAAGTGCAATGAGATTGTTGGACAGCCCTGTGCACAAACAA
3983 AGCTT
1 AGCTT
3988 TCACAAAGTC
Statistics
Matches: 281, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
296 82 0.29
297 2 0.01
300 197 0.70
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (296 bp):
AGCTTGTTAGACAGCCCTATGCACAAACAAAGCTCTACTCGAAGTCCAAAGAATCAACTTTGCGA
GTTTATATGCAACACATCGTTCTTAGCGGTCGGAGTGAGATGAACTTTTTGGACAGCCCTATGCA
CAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCATTTT
TAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCATGCGTCGAAGT
GCAATGAGATTGTTGGACAGCCCTGTGCACAAACAA
Found at i:4117 original size:157 final size:156
Alignment explanation
Indices: 3779--4202 Score: 431
Period size: 158 Copynumber: 2.7 Consensus size: 156
3769 CTTAGATGTT
* * * *
3779 TGTCGGAGTGAGATGAACTTTTTGGATAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAA
1 TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCC-A-AAGTCCAAA
* * * * *
3844 ACCTCAACTTTGAGCGGTTGTATGCAAAACATCA-TTTTTAGCGAAAGGCTCATTCCAGATGCAT
64 GCCTCAACTTTGCGCGTTTGTATGC-AAACAT-AGTTCTTAGCGAAAGACTCATTCCAGATGCAT
*
3908 TTTTTGCGCAACGAGTGCTCAAATGTCATG
127 TTTTTGCGCAACGAGTGCTCAAAAGTCATG
* * * * * * *
3938 CGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAATAAAGCTTTCACAAAGTCTAAAG
1 TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCTTTC-CAAAGTCCAAAG
* * * * ** *
4003 CCTGAACTTTGCGCGTTTTTGTGCTAAACATAGTTCTTAGC-AAA-ACTCTTTCTGGATGCGTTT
65 CCTCAACTTTGCGCGTTTGTATGC-AAACATAGTTCTTAGCGAAAGACTCATTCCAGATGCATTT
*
4066 TTTCGCGCAACGAGTGCTCAAAAGTCGTG
129 TTT-GCGCAACGAGTGCTCAAAAGTCATG
* ** * * *
4095 TGTCGGAGTGAGATGAGCTTGTTAGACAGTGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAA
1 TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCT-TTC-CAAAGTCCAAA
* * *
4160 GCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCG
64 GCCTCAACTTTGCGCGTTTGTATGCAA-ACATAGTTCTTAGCG
4203 GTTTGTCGGA
Statistics
Matches: 213, Mismatches: 46, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
156 17 0.08
157 68 0.32
158 83 0.39
159 44 0.21
160 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (156 bp):
TGTCGGAGTGAGATGAGCTTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCCAAAGTCCAAAGC
CTCAACTTTGCGCGTTTGTATGCAAACATAGTTCTTAGCGAAAGACTCATTCCAGATGCATTTTT
TGCGCAACGAGTGCTCAAAAGTCATG
Found at i:4270 original size:111 final size:111
Alignment explanation
Indices: 4095--4306 Score: 273
Period size: 111 Copynumber: 1.9 Consensus size: 111
4085 AAAAGTCGTG
* * ** * *
4095 TGTCGGAGTGAGATGAGCTTGTTAGACAGTGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAA
1 TGTCGGAATGAGATGAACTTGTTAGACAGCCCTATGCACAAACAAAGCTCTCCTAGAAGCCCAAA
* * *
4160 GCATCAACTTTGCG-AGTTTGTATGCAACACATCGTTCTTAGCGGTT
66 ACATCAACTTTGAGCA-TTTGTATGCAAAACATCGTTCTTAGCGGTT
* * * *
4206 TGTCGGAATGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAA
1 TGTCGGAATGAGATGAACTTGTTAGACAGCCCTATGCACAAACAAAGCTCTCCTAGAAGCCCAAA
* *
4271 ACCTCAACTTTGAGCATTTGTGTGCAAAACATCGTT
66 ACATCAACTTTGAGCATTTGTATGCAAAACATCGTT
4307 TTGAGGAACA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
111 84 0.99
112 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (111 bp):
TGTCGGAATGAGATGAACTTGTTAGACAGCCCTATGCACAAACAAAGCTCTCCTAGAAGCCCAAA
ACATCAACTTTGAGCATTTGTATGCAAAACATCGTTCTTAGCGGTT
Found at i:4438 original size:270 final size:267
Alignment explanation
Indices: 3959--4683 Score: 997
Period size: 270 Copynumber: 2.7 Consensus size: 267
3949 GATGAGATTG
* * * * * * *
3959 TTGGACAGCCCTGTGCACAAATAAAGCTTTCAC-A-AAGTCTAAAGCCTGAACTTTGCGCGTTTT
1 TTGGACAGCCCTGTGCACAAACAAAGCTTTC-CTAGAAGCCCAAAACCTCAACTTTGAGCGTTTG
* * * * * *
4022 TGTGCTAAACATAGTTCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCTCAA
65 TGTGCAAAACATCGTT-TTAGGAAAGCTCATTCTAGATGCGTTTTTT-GCGCAACGAGTGCTCAA
* * * * ** *
4087 AAGTCGTGTGTCGGAGTGAGATGAGCTTGTTAGACAGTGCTATGCACAAACAAAGCTCTCCTCGA
128 ATGTCGTGCGTCGGAGTGAGATGAGCATGTTGGACAGCCCTGTGCACAAACAAAGCTCTCCTCGA
*
4152 AGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCGGAATGA
193 AGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCCGAATGA
4217 GATGAACTTT
258 GATGAACTTT
*
4227 TTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCATTTGT
1 TTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGTTTGT
* **
4292 GTGCAAAACATCGTTTTGAGGAACATGCTCATTCTAGATGCGTTTTTTGCACATTGAGTGCTCAA
66 GTGCAAAACATCGTTTT-AGGAA-A-GCTCATTCTAGATGCGTTTTTTGCGCAACGAGTGCTCAA
* * *
4357 TTGTCATGCGTCGGAGTGAGTTGAGCATGTTGGACAGCCCTGTGCACAAACAAAGCTCTCCTCGA
128 ATGTCGTGCGTCGGAGTGAGATGAGCATGTTGGACAGCCCTGTGCACAAACAAAGCTCTCCTCGA
* * *
4422 AGTCCAAAGCATCAACTTTGTGAGTTTGTATGCAACACATCGTTCTTAGCGTTTTGTCCGAGTGA
193 AGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCCGAATGA
4487 GATGAACTTT
258 GATGAACTTT
*
4497 TTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
1 TTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGTTTGT
* * *
4562 ATGCAAAACATCAGTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
66 GTGCAAAACATC-GTTTTAG-GAAA-GCTCATTCTAGATGCGTTTTTTGCGCAACGAGTGCTCAA
* * *
4627 ATGTCGTGCGTCGAAGTGCGATGAG-ATTGTTGAACAGCCCTGTGCACAAACAAAGCT
128 ATGTCGTGCGTCGGAGTGAGATGAGCA-TGTTGGACAGCCCTGTGCACAAACAAAGCT
4684 TGTTAGGCAG
Statistics
Matches: 403, Mismatches: 46, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
267 1 0.00
268 33 0.08
269 41 0.10
270 301 0.75
271 27 0.07
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (267 bp):
TTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGTTTGT
GTGCAAAACATCGTTTTAGGAAAGCTCATTCTAGATGCGTTTTTTGCGCAACGAGTGCTCAAATG
TCGTGCGTCGGAGTGAGATGAGCATGTTGGACAGCCCTGTGCACAAACAAAGCTCTCCTCGAAGT
CCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTTGTCCGAATGAGAT
GAACTTT
Found at i:4610 original size:111 final size:111
Alignment explanation
Indices: 4386--4588 Score: 264
Period size: 111 Copynumber: 1.8 Consensus size: 111
4376 GTTGAGCATG
* * * * *
4386 TTGGACAGCCCTGTGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGTGAGTTTGT
1 TTGGACAGCCCTGTGCACAAACAAAGCTCTCCTAGAAGCCCAAAACATCAACTTTGAGAGGTTGT
* **** *
4451 ATGCAACACATCGTTCTTAGCGTTTTGTCCGAGTGAGATGAACTTT
66 ATGCAAAACATCGTTCTTAGCGAAAGGTCCGAGTCAGATGAACTTT
* * *
4497 TTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
1 TTGGACAGCCCTGTGCACAAACAAAGCTCTCCTAGAAGCCCAAAACATCAACTTTGAGAGGTTGT
4562 ATGCAAAACATCAGTT-TTAGCGAAAGG
66 ATGCAAAACATC-GTTCTTAGCGAAAGG
4589 CTCATTCCAG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
111 75 0.96
112 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (111 bp):
TTGGACAGCCCTGTGCACAAACAAAGCTCTCCTAGAAGCCCAAAACATCAACTTTGAGAGGTTGT
ATGCAAAACATCGTTCTTAGCGAAAGGTCCGAGTCAGATGAACTTT
Found at i:4966 original size:300 final size:300
Alignment explanation
Indices: 4399--5429 Score: 962
Period size: 300 Copynumber: 3.4 Consensus size: 300
4389 GACAGCCCTG
* *
4399 TGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGTGAGTTTGTATGCAACACATCG
1 TGCACAAACAAAGCTCTACTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCG
*
4464 TTCTTAGCGTTTTGTCCGAGTGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCC
66 TTCTTAGCGGTTTGTCCGAGTGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCC
4529 TAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAGTTTTAGCGAAAGGCTCAT
131 TAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAGTTTTAGCGAAAGGCTCAT
* * * ** * *
4594 TCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAAGTGCGATGAGATTGTTG
196 TCCAGATCCATTTTTTGCACAACAAGTGCTCAAATGTAATGAGTCGAAGTGAGATGAGATTGTTG
4659 AACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTA
261 AACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTA
**
4699 TGCACAAACAAAGCTCTACTCGTTGTCCAAAGCATCAACTTTGCGCA-TTTGTATGCAACACATC
1 TGCACAAACAAAGCTCTACTCGAAGTCCAAAGCATCAACTTTGCG-AGTTTGTATGCAACACATC
* * **
4763 GTTCTTAGCGGTTTGTCGGAGTGAGATGAACTTTTTGGATAGTTCTGTGCACAAACAAAGCTTTC
65 GTTCTTAGCGGTTTGTCCGAGTGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTC
* *
4828 CTAGAAGCCCAAAACCTCAACTTTGAGCGTTTGTGTGCAAAACATC-GTTTTGAG-GAACAGGCT
130 CTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAGTTTT-AGCGAA-AGGCT
* * * *
4891 CATTCCAGATCCGTTTTTTGCACAATAAGTGCTCAAATGTAATGAGTCGGAGTGAGTTGAGCA-T
193 CATTCCAGATCCATTTTTTGCACAACAAGTGCTCAAATGTAATGAGTCGAAGTGAGATGAG-ATT
* ** *
4955 GTTGGACAGCCCTGTGCACAAACAAAG-TT-TT---CCCCG-AA
257 GTTGAACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTA
* * * * * * * ** * * *
4993 CTCCA-AAACCTTAA-CT-TATCACCATTTTGTGCAAAACATCGTTCTTAGCAAAACCCTTTTTT
1 -TGCACAAA-C-AAAGCTCTA-CTCGA---AGTCCAAAGCATC-AACTTTGC--GA-----GTTT
* * * * * * ****
5055 CGAATGCAATTTTTTTGTGCA-ATGAGTGCTTAAAG-GTCGTTTATCAGAGTGAGATGAGCAAGA
51 -GTATGCAA----------CACAT-CGTTCTT--AGCG--GTTTGTCCGAGTGAGATGAACTTTT
* * * * * * * **
5118 TGGACAGCCCTATGCACAAAGAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTCCGC-GTATGT
100 TGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGT-TGT
* * * *
5182 ATGCAAAACATCA-TTCTTAGCGAAAGACTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCA
164 ATGCAAAACATCAGTT-TTAGCGAAAGGCTCATTCCAGATCCATTTTTTGCACAACAAGTGCTCA
** * * *
5246 AATGTCGTGGGTCGAAGTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTGTTAGG
228 AATGTAATGAGTCGAAGTGAGATGAGATTGTTGAACAGCCCTGTGCACAAACAAAGCTTGTTAGG
5311 CAGCGCTA
293 CAGCGCTA
* * *
5319 TGCACAAACAAAGCTCTCCTCGAAGTCTAAAGCATCAACTTTGCAAGTTTGTATGCAACACATCG
1 TGCACAAACAAAGCTCTACTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCG
* * *
5384 TTCTTAGCGGTTTGTCTGAGTCAGATGAACTTTTTGGATAGCCCTG
66 TTCTTAGCGGTTTGTCCGAGTGAGATGAACTTTTTGGACAGCCCTG
5430 ATACAAATTT
Statistics
Matches: 577, Mismatches: 102, Indels: 104
0.74 0.13 0.13
Matches are distributed among these distances:
294 6 0.01
295 11 0.02
296 2 0.00
298 13 0.02
299 15 0.03
300 274 0.47
301 4 0.01
302 1 0.00
303 7 0.01
304 2 0.00
306 3 0.01
307 7 0.01
313 7 0.01
314 3 0.01
316 2 0.00
317 7 0.01
318 1 0.00
319 6 0.01
320 164 0.28
321 12 0.02
322 11 0.02
324 2 0.00
325 12 0.02
326 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (300 bp):
TGCACAAACAAAGCTCTACTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCG
TTCTTAGCGGTTTGTCCGAGTGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCC
TAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCAGTTTTAGCGAAAGGCTCAT
TCCAGATCCATTTTTTGCACAACAAGTGCTCAAATGTAATGAGTCGAAGTGAGATGAGATTGTTG
AACAGCCCTGTGCACAAACAAAGCTTGTTAGGCAGCGCTA
Found at i:5293 original size:159 final size:158
Alignment explanation
Indices: 4807--5304 Score: 470
Period size: 159 Copynumber: 3.1 Consensus size: 158
4797 TTGGATAGTT
* * **
4807 CTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGTTTGTGTGCAAAACA
1 CTGTGCACAAACAAAGCTTTCCTCGAAGTCCAAAACCTCAACTTTCCGCG-TTGTGTGCAAAACA
* * * * * **
4872 TCGTT-TTGAG-GAACAGGCTCATTCCAGATCCGTTTTTTGCACAATAAGTGCTCAAATGTAATG
65 TCGTTCTT-AGCGAA-AGACTCATTCCAGATGCATTTTTTGCGCAATGAGTGCTCAAATGTCGTG
* *
4935 AGTCGGAGTGAGTTGAGCATGTTGGACAGCC
128 AGTCGAAGTGAGATGAGCATGTTGGACAGCC
* * * * * *
4966 CTGTGCACAAACAAAGTTTTCCCCGAACTCCAAAACCTTAACTTATCAC-CATTTTGTGCAAAAC
1 CTGTGCACAAACAAAGCTTTCCTCGAAGTCCAAAACCTCAACTT-TC-CGCGTTGTGTGCAAAAC
* ** ** * * * *
5030 ATCGTTCTTAGCAAAACCCTTTTTTC-GAATGCAATTTTTTTGTGCAATGAGTGCTTAAAGGTCG
64 ATCGTTCTTAGCGAAAGACTCATTCCAG-ATGC-A-TTTTTTGCGCAATGAGTGCTCAAATGTCG
* * *
5094 TTTA-TC-AGAGTGAGATGAGCAAGATGGACAGCC
126 -TGAGTCGA-AGTGAGATGAGCATGTTGGACAGCC
* * * * * *
5127 CTATGCACAAAGAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTCCGCGTATGTATGCAAAACA
1 CTGTGCACAAACAAAGCTTTCCTCGAAGTCCAAAACCTCAACTTTCCGCGT-TGTGTGCAAAACA
* * *
5192 TCATTCTTAGCGAAAGACTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGGG
65 TCGTTCTTAGCGAAAGACTCATTCCAGATGCATTTTTTGCGCAATGAGTGCTCAAATGTCGTGAG
*
5257 TCGAAGTGCGATGAG-ATTGTTGGACAGCC
130 TCGAAGTGAGATGAGCA-TGTTGGACAGCC
5286 CTGTGCACAAACAAAGCTT
1 CTGTGCACAAACAAAGCTT
5305 GTTAGGCAGC
Statistics
Matches: 263, Mismatches: 61, Indels: 30
0.74 0.17 0.08
Matches are distributed among these distances:
158 3 0.01
159 131 0.50
160 12 0.05
161 114 0.43
162 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (158 bp):
CTGTGCACAAACAAAGCTTTCCTCGAAGTCCAAAACCTCAACTTTCCGCGTTGTGTGCAAAACAT
CGTTCTTAGCGAAAGACTCATTCCAGATGCATTTTTTGCGCAATGAGTGCTCAAATGTCGTGAGT
CGAAGTGAGATGAGCATGTTGGACAGCC
Done.