Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01006075.1 Corchorus capsularis cultivar CVL-1 contig06093, 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: 5713
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Found at i:388 original size:111 final size:111
Alignment explanation
Indices: 241--449 Score: 247
Period size: 111 Copynumber: 1.9 Consensus size: 111
231 AAAAGTCGTG
* ** * * **
241 TGTTGGAATGAGATGAGCTTGATAGACAGCGGTATGCACAAACAAAGCTCTCCTCGAAGTGCAAA
1 TGTTGGAATGAGATGAACTTGATAGACAGCCCTATGCACAAACAAAACTCTCCTAGAAGCCCAAA
* * * * *
306 GCATCAACTTTGCGCGTTTGTTTGCAACACATCGTTCTTAGAGGTT
66 ACATCAACTTTGAGCGGTTGTATGCAAAACATCGTTCTTAGAGGTT
* ** * * *
352 TGTTGGAGTGAGATGAACTTTTTGGACAGCCCTATGCAGAAACAAAACTTTCCTAGAAGCCCAAA
1 TGTTGGAATGAGATGAACTTGATAGACAGCCCTATGCACAAACAAAACTCTCCTAGAAGCCCAAA
*
417 ACCTCAACTTTGAGCGGTTGTATGCAAAACATC
66 ACATCAACTTTGAGCGGTTGTATGCAAAACATC
450 ATTTTTAGCG
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
111 79 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (111 bp):
TGTTGGAATGAGATGAACTTGATAGACAGCCCTATGCACAAACAAAACTCTCCTAGAAGCCCAAA
ACATCAACTTTGAGCGGTTGTATGCAAAACATCGTTCTTAGAGGTT
Found at i:1201 original size:429 final size:425
Alignment explanation
Indices: 11--4427 Score: 2395
Period size: 427 Copynumber: 10.4 Consensus size: 425
1 AAGCAGTTCA
11 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
1 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
* * * *
76 ATGTCGTGCGTCGAATTACGCTGAGATTGTTGGACAGCCCTGTGCAGAAACAATGCTTTCACGAA
66 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAA
* * * * *
141 TTCCAAAGCGTCAATTTTGCACT-TTTTTGTGCTAAACATAGTTCTTAGCAAAACTCTTTCTGAA
131 GTCCAAAGCCTCAACTTTGCA-TGTTTTTGTGCT-AACATAGTTCTTAGGAAAACTCTTTCTGGA
* *
205 TGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTTGGAATGAGATGAGCTTGATAGACAG
194 TGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAG
* * * *
270 CGGTATGCACAAACAAAGCTCTCCTCGAAGTGCAAAGCATCAACTTTGCGCGTTTGTTTGCAACA
259 CGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTT-TTTGCAACA
* *
335 CATCGTTCTTAGAGGTTTGTTGGAGTGAGATGAACTTTTTGGACAGCCCTATGCAGAAACAAAAC
323 CATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGACAGCCCTATGCAGAAACAAAAC
400 TTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
388 TTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
*
438 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTTCTCAA
1 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
*
503 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAA
66 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAA
* * *
568 GCCCAAAGCCTCAACTTTGCACGTTTTTGTGCTATTCATAGTTCTTAGGAAAACTCTTTCTGGAT
131 GTCCAAAGCCTCAACTTTGCATGTTTTTGTGCTA-ACATAGTTCTTAGGAAAACTCTTTCTGGAT
* *
633 GCGGTTTTTCGCGAAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGC
195 GCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGC
* *
698 GCTATGCACAAACAAAT-CTCTCCTCGAAGTCCAAAGCATCAATTTTGCGAGTTTGTATGCAACA
260 GCTATGCACAAAC-AATGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTT-TTTGCAACA
* * * *
762 CATCGTTCTTAGAGGTTTGTCGGGGTGAGATGAACTTTTTAGACAGCCCTGTGCAGAAAGAAAGC
323 CATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGACAGCCCTATGCAGAAACAAAAC
*
827 TTTCCTAGACGCCCAAAAACCTCAACTTTGAGCGGTTGGT
388 TTTCCTAGAAGCCC-AAAACCTCAACTTTGAGCGGTT-GT
*
867 ATGCAAAACTTCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
1 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
932 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAA
66 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAA
* *
997 GTCCAAAGCCTTAACTTTGCGTGTTTTTGTGCTGAACATAGTTCTTAGGAAAACTCTTTCTGGAT
131 GTCCAAAGCCTCAACTTTGCATGTTTTTGTGCT-AACATAGTTCTTAGGAAAACTCTTTCTGGAT
* * * * * *
1062 GCGTTTTTTCACGCAACTAGAGCTCAAAAGTCTTGTGTCAGAGTGAGATGAGCTTGTTAGACAGC
195 GCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGC
* * *
1127 GCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCCTCAACTTTGCGTGTTTTTGTGCTGA-A
260 GCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTTT-TGC-AACA
* ** * * * **
1191 CATAGTTCTTAGCAAAACTCTT-TCTGGA-TGCG-T----TTTTTCG-C-GCAACTAGTGC-TCA
323 CATCGTTCTTAG---AGGT-TTGTC-GGAGTGAGATGAACTTTTTAGACAGC-CCTA-TGCAGAA
** * * * * ** * * * * * *
1246 A-AAGTCGTGT-GTCGGAG--TGAGA--TGAGCTTGTTAGACAG-CGCT
381 ACAAAAC-TTTCCTAGAAGCCCAAAACCTCAACTT-TGAG-CGGTTG-T
*** * * ** * * **
1288 ATGCACAAACAAAGCTC-TCCTCGAAGTCCAAA-G--CA-TCAACTTTGCGAGTTTGTATGCAAC
1 ATGCA-AAAC--A--TCAT--TTTTAG-CGAAAGGCTCATTCCA-GATGC-ATTTTTTGCGCAAC
* * * ** ** ** * * * * *
1348 ACATTGTTCTCA-G-CGGTTTGTCGGAGTGAGATGA-ACTTTTTGTACAGCCCTGTGCAGAAAGA
56 -GAGTGCTCAAATGTC-GTGCGTCAAATTGCGATGAGA-TTGTTGGACAGCCCTGTGCAGAAACA
* * * * * * * * *
1410 AAGCTTTCCTAC-ACGCCCAAAACTTCAACTTTG-AGTGGTTGTATGCAAAACATCA-TTTTTAG
118 AAGCTTT-C-ACGAAGTCCAAAGCCTCAACTTTGCA-TGTTTTTGTGC-TAACAT-AGTTCTTAG
* * ** * * * *
1472 TGAAAGGCTCATTCCAGATGCATTTTTT-GCGCAACGAGTTCTCAAATGTCGTGCGTC-GAATTG
178 -GAAA-ACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAA-TG
* * * * * * * * * *
1535 CGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCT-TTCACGAAGCCCAAAGCCTCAACTT
240 AGATGAGCTTGTTAGACAGCGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACTT
** * **** * ** *** *
1599 TGCCCGTTTTTGTGCTAA-ACATAGTTCTTAGCAAAACTCTC--TCTG-GATGCGTTTTTTCG-C
305 TGCGAGTTTTT-TGC-AACACATCGTTCTTAG-AGGTTTGTCGGAGTGAGATGAACTTTTTAGAC
*** * * * * * ** * ** * * * * *
1659 AAAACGAGTGC----TCAAAA--GTCGT-G-TGTCGGAATGAGATGAGCTTGTTAGACAG-CGCT
367 AGCCCTA-TGCAGAAACAAAACTTTCCTAGAAG-CCCAA-AACCTCAACTT-TGAG-CGGTTG-T
*** * * * * * **
1715 ATGCAGAAACAAAGCTC-TCCTCGAAGTCCAAA-GCATAAACTT--TG-TG-AGTTTGTATGCAA
1 ATGCA-AAAC--A--TCAT--TTTTAG-CGAAAGGC-T-CA-TTCCAGATGCATTTTTTGCGCAA
* * * * ** ** * * *
1774 CACATCGTTCTTAGA-G--GTTTGTCGGAGTGAGATGA-ACTTTTTGGACAGCCCTGTGCAGAAA
55 C-GA--GTGCTCAAATGTCGTGCGTCAAATTGCGATGAGA-TTGTTGGACAGCCCTGTGCAGAAA
* * * * * * * * * *
1835 GAAAGCTTTCCTAC-ACGCCCAAAACCTCAACCTTG-AGTGGTTGTATGCAAAACATCA-TTTTT
116 CAAAGCTTT-C-ACGAAGTCCAAAGCCTCAACTTTGCA-TGTTTTTGTGC-TAACAT-AGTTCTT
* * ** * * * *
1897 AGTGAAAGGCTCATTCCAGATGCATTTTTT-GCGCAACGAGTTCTCAAATGTCGTGCGTC-GAAT
176 AG-GAAA-ACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAA-
* * * * * * * *
1960 TGCGATGAGATTGTTGGACAGAC-CTGTGCACAAACAAAGCT-TTCACGAAGTCCAAAGCCTCAA
238 TGAGATGAGCTTGTTAGACAG-CGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAA
* ** * ** * *
2023 CCTTGCCCGTTTTTGTGCTAA-ACATAGTTCTTAGCAAAACTATT-TCTGGA-TGCG-T-TA-TT
302 CTTTGCGAGTTTTT-TGC-AACACATCGTTCTTAG---AGGT-TTGTC-GGAGTGAGATGAACTT
*** * * * * * * * * ** * * *
2082 TCGCGA-A--ACGAGTGC----TCAAAA--GTCGT-G-TGTCGAAATGAGATGAGCTTGGAAGAC
360 TTTAGACAGCCCTA-TGCAGAAACAAAACTTTCCTAGAAGCCCAAA--ACCTCAACTTTG-AG-C
* *
2136 AG-CGCT
420 GGTTG-T
*** * * ** * * **
2142 ATGCACAAACAAAGCTC-TCCTCGAAGTCCAAA-G--CA-TCAACTTTGCGAGTTTGTATGCAAC
1 ATGCA-AAAC--A--TCAT--TTTTAG-CGAAAGGCTCATTCCA-GATGC-ATTTTTTGCGCAAC
* * * ** ** ** * * * * * *
2202 ACATTGTTCTCA-G-CGGTTTGTCGGAGTGAGATGA-ACTTTTTGTACAACCCTGTGCAGAAATA
56 -GAGTGCTCAAATGTC-GTGCGTCAAATTGCGATGAGA-TTGTTGGACAGCCCTGTGCAGAAACA
* * * * * * * *
2264 AAGCTTTC-CTAGAAGTCCAAAACCCCAACTTTG-AGCGGTTGTATGCAAAACATCA-TTTTTAG
118 AAGCTTTCAC--GAAGTCCAAAGCCTCAACTTTGCA-TGTTTTTGTGC-TAACAT-AGTTCTTAG
* * ** * * * *
2326 CGAAAGGCTCATTCCAGATGCATTTTTT-GCGCAACGAGTGCTCAAATGTCGTGCGTC-AAATTG
178 -GAAA-ACTCTTTCTGGATGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAA-TG
* * * * * * * *
2389 CGATGAGATTGTTGGACAGAC-CTGTGCACAAACAAAGC-CTTCACGAAGTCCAAAGCCTCAACT
240 AGATGAGCTTGTTAGACAG-CGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACT
** * ** * *
2452 TTGCCCGTTTTTGTGCTAA-ACATAGTTCTTAGCAAAACTAT-TC---CTG-GATG--CGTTTTT
304 TTGCGAGTTTTT-TGC-AACACATCGTTCTTAG---AGGTTTGTCGGAGTGAGATGAAC-TTTTT
* *** * *** * * * * * * * * * *
2509 --TC-GCGAAACG-AGTGCTCAAAA--GTCGT-G-TGTCGAAATGACATGAGCTTGTTAGACAG-
363 AGACAGCCCTATGCAG-AAACAAAACTTTCCTAGAAGCCCAAA--ACCTCAACTT-TGAG-CGGT
*
2565 CGCT
423 TG-T
* *** * * ** * * **
2569 ATGCACAACAAAGCTC-TCCTCGAAGTCCAAA-G--CA-TCAACTTTGCGAGTTTGTATGCAACA
1 ATGCA-AA-ACA--TCAT--TTTTAG-CGAAAGGCTCATTCCA-GATGC-ATTTTTTGCGCAAC-
* * * ** ** ** * * * * *
2629 CACTGTTCTTA-G-CGGTTTGTCGGAGTGAGATGA-ACTTTTTGTACAGCCCTGTGCTGAAACAA
56 GAGTGCTCAAATGTC-GTGCGTCAAATTGCGATGAGA-TTGTTGGACAGCCCTGTGCAGAAACAA
* * * * ** * * * *
2691 AGTTTTC-CTAGAAGCCCAAAACATCAACTTTGACCCG-TTGTATGCAAAACATCA-TTTTTAGC
119 AGCTTTCAC--GAAGTCCAAAGCCTCAACTTTG-CATGTTTTTGTGC-TAACAT-AGTTCTTAG-
* * * ** *
2753 GAAAGACTCATTCCAGG-TGCATTTTTT-GCGC-ACTGAGTGCTCAAGTGTCGTGAGTC-GAAGT
178 GAAA-ACTC-TTTCTGGATGCGTTTTTTCGCGCAAC-GAGTGCTCAAAAGTCGTGTGTCGGAA-T
* * * * *
2814 GCGATGAG-TTCGTTGGACAGCCCTGTGCACAAACAAAG-----CTCGAAGTCCAAAGCATCAAC
239 GAGATGAGCTT-GTTAGACAGCGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAAC
* * * * * * *
2873 TTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTGGTCGAAGTTAGATGAACTTTTTGGAT
303 TTTGCGAGTTT-TTTGCAACACATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGAC
* * * * *
2938 AGCCCTGTGCACAAATAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTTGATCGGTTGT
367 AGCCCTATGCAGAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
* * * * * *
2997 ATGCAATACATCATTTTTAGCGAAAGGCACATTACAAATGCATTTTTTGCGCTACGAGCGCTCAA
1 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
* * * * * *
3062 ATGTCGTGCGTCGAAGTGCAATGAGATTGTTCGACAGCCTTGTGCACAAACAAAGCTTTC-CTAG
66 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCAC--G
* ** ** * * * * *
3126 AAGTCCAAAGCCTCAATTTTGCACATTTTTGTGCTAAACATAGTTCTTATCAGAATTTTTTTTTG
129 AAGTCCAAAGCCTCAACTTTGCATGTTTTTGTGCT-AACATAGTTCTTAGGAAAACTCTTTCTGG
** * * * * * *
3191 ATGTATTTTTTCGCGCAACGAGTGCTCAAAAGTCATGTGTCGGACTGAGCTGACCTTCTTATACA
193 ATGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACA
* * *
3256 GCTCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCTTCAACTTTGC-ACGTTTGTTTGCAA
258 GCGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGA-GTTT-TTTGCAA
* * * * * * *
3320 CACATCGTTCTTAGCGGTGTGTTGGAGTGAGATGAGCTTTTT-GAACCGCCTTATGCACAAACAA
321 CACATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTAG-ACAGCCCTATGCAGAAACAA
* * * * * * *
3384 AGCTTCCCTCGAAGCCCAAAATCTAAACTTTGAGCAGTTCT
385 AACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
*
3425 ATGCAAAACATCAATTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
1 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
* *
3490 ATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAA
66 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAA
* * *
3555 GTCCAAAGCCTCAACTTTGC--GCTTTTGTGCTAAACATAGTTCTTAGCAAAACTCTTTTCTAGA
131 GTCCAAAGCCTCAACTTTGCATGTTTTTGTGCT-AACATAGTTCTTAGGAAAACTC-TTTCTGGA
* *
3618 TGCGTTTTTTCGCGAAACGAGTGCTCAAAAGTCGTGTGTCGGATTGAGATGAGCTTGTTAGACAG
194 TGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAG
* * * * *
3683 CGCTATGCGCAAACAAAGATCTCCTCGAAGTCCAAAGCATCAACTTTGCAAGTTTGTATGCAACA
259 CGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTT-TTTGCAACA
* * * * *
3748 CATCGTTCTTAGCGGTTTGTCGGAGTCAGATGAACTTTTTGGACAGCCCTGTGCAGAAACAAAGC
323 CATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGACAGCCCTATGCAGAAACAAAAC
3813 TTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
388 TTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
*
3851 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGC-TTTTTATGCGCAACGAGTGCTTA
1 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTT-TGCGCAACGAGTGCTCA
* * * *
3915 AATGTCGTTCGTCGAATTGCGATGAGATTGTTGGACAGCCATGTGCACAAACAAAGCTTTCACGA
65 AATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGA
* * * *
3980 AGTCCAAAGCCTTAACTTTGCGTGTTTTTGTCCTGAACATAGTTCTTAGCAAAACTCTTTCTGGA
130 AGTCCAAAGCCTCAACTTTGCATGTTTTTGTGCT-AACATAGTTCTTAGGAAAACTCTTTCTGGA
* * *
4045 TGCGTTTTTTCGGGCAACGAGTGCTCCAAAGTCGTGTGTCGGAATGACATGAGCTTGTTAGACAG
194 TGCGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAG
* *
4110 CGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACA
259 CGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTT-TTTGCAACA
* * * * *
4175 CATCGTTCTTAGAGGTTTGTCGAAGTGAGATGAACTTTTTGGACAGCCCTGTGCAGAAAGAAAGC
323 CATCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGACAGCCCTATGCAGAAACAAAAC
4240 TTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
388 TTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
*
4278 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTTCTCAA
1 ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
* * * *
4343 ATGTTGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACAAA
66 ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAA
4408 GTCCAAAGCCTCAACTTTGC
131 GTCCAAAGCCTCAACTTTGC
4428 CCACTTCTTG
Statistics
Matches: 3396, Mismatches: 435, Indels: 318
0.82 0.10 0.08
Matches are distributed among these distances:
419 1 0.00
420 8 0.00
421 16 0.00
422 71 0.02
423 76 0.02
424 110 0.03
425 81 0.02
426 659 0.19
427 1610 0.47
428 383 0.11
429 344 0.10
430 13 0.00
431 6 0.00
432 13 0.00
433 5 0.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (425 bp):
ATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAA
ATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAA
GTCCAAAGCCTCAACTTTGCATGTTTTTGTGCTAACATAGTTCTTAGGAAAACTCTTTCTGGATG
CGTTTTTTCGCGCAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCG
CTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTTTTGCAACACAT
CGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGACAGCCCTATGCAGAAACAAAACTTT
CCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGT
Found at i:1357 original size:158 final size:158
Alignment explanation
Indices: 903--1338 Score: 651
Period size: 158 Copynumber: 2.8 Consensus size: 158
893 GCTCATTCCA
* * * * * * * * *
903 GATGCATTTTTT-GCGCAACGAGTGCTCAAATGTCGTGCGTCAAATTGCGATGAGATTGTTGGAC
1 GATGCGTTTTTTCGCGCAACTAGTGCTCAAAAGTCGTGTGTCAGAGTGAGATGAGCTTGTTAGAC
* * * * * *
967 AGCCCTGTGCAGAAACAAAGCT-TTCACGAAGTCCAAAGCCTTAACTTTGCGTGTTTTTGTGCTG
66 AGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCCTCAACTTTGCGTGTTTTTGTGCTG
*
1031 AACATAGTTCTTAGGAAAACTCTTTCTG
131 AACATAGTTCTTAGCAAAACTCTTTCTG
* * *
1059 GATGCGTTTTTTCACGCAACTAGAGCTCAAAAGTCTTGTGTCAGAGTGAGATGAGCTTGTTAGAC
1 GATGCGTTTTTTCGCGCAACTAGTGCTCAAAAGTCGTGTGTCAGAGTGAGATGAGCTTGTTAGAC
*
1124 AGCGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCCTCAACTTTGCGTGTTTTTGTGCTG
66 AGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCCTCAACTTTGCGTGTTTTTGTGCTG
1189 AACATAGTTCTTAGCAAAACTCTTTCTG
131 AACATAGTTCTTAGCAAAACTCTTTCTG
*
1217 GATGCGTTTTTTCGCGCAACTAGTGCTCAAAAGTCGTGTGTCGGAGTGAGATGAGCTTGTTAGAC
1 GATGCGTTTTTTCGCGCAACTAGTGCTCAAAAGTCGTGTGTCAGAGTGAGATGAGCTTGTTAGAC
* *
1282 AGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTT
66 AGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCCTCAACTTTGCGTGTTT
1339 GTATGCAACA
Statistics
Matches: 251, Mismatches: 27, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
156 11 0.04
157 59 0.24
158 181 0.72
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (158 bp):
GATGCGTTTTTTCGCGCAACTAGTGCTCAAAAGTCGTGTGTCAGAGTGAGATGAGCTTGTTAGAC
AGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCCTCAACTTTGCGTGTTTTTGTGCTG
AACATAGTTCTTAGCAAAACTCTTTCTG
Found at i:1438 original size:111 final size:111
Alignment explanation
Indices: 1255--1462 Score: 249
Period size: 111 Copynumber: 1.9 Consensus size: 111
1245 AAAAGTCGTG
* * *
1255 TGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAA
1 TGTCGGAGTGAGATGAACTTGTTAGACAGCCCTATGCACAAACAAAGCTCTCCTCGAAGCCCAAA
* * * *
1320 GCATCAACTTTGCGAGTTTGTATGCAACACATTGTTCTCAGCGGTT
66 ACATCAACTTTGAGAGGTTGTATGCAAAACATTGTTCTCAGCGGTT
* * * * * *
1366 TGTCGGAGTGAGATGAACTT-TTTGTACAGCCCTGTGCAGAAAGAAAGCTTTCCTAC-ACGCCCA
1 TGTCGGAGTGAGATGAACTTGTTAG-ACAGCCCTATGCACAAACAAAGCTCTCCT-CGAAGCCCA
* *
1429 AAACTTCAACTTTGAGTGGTTGTATGCAAAACAT
64 AAACATCAACTTTGAGAGGTTGTATGCAAAACAT
1463 CATTTTTAGT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
110 3 0.04
111 76 0.95
112 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (111 bp):
TGTCGGAGTGAGATGAACTTGTTAGACAGCCCTATGCACAAACAAAGCTCTCCTCGAAGCCCAAA
ACATCAACTTTGAGAGGTTGTATGCAAAACATTGTTCTCAGCGGTT
Found at i:1737 original size:585 final size:583
Alignment explanation
Indices: 373--1758 Score: 2012
Period size: 585 Copynumber: 2.4 Consensus size: 583
363 GATGAACTTT
* * * * * *
373 TTGGACAGCCCTATGCAGAAACAAAACTTTC-CTAGAAGCCCAAAACCTCAACTTTGAGCGGTTG
1 TTGGACAGCCCTGTGCAGAAACAAAGCTTTCAC--GAAGCCCAAAGCCTCAACTTTGCGCGTTTT
* * * * ** * *
437 TATGCAAAACATCA-TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTTCTC
64 TGTGCTAAACAT-AGTTCTTAGC-AAA-ACTC-TTCTGGATGCGTTTTTT-CGCAACGAGTGCTC
* * * * * * * * * *
501 AAATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCT-TTCAC
124 AAAAGTCGTGTGTCGAA-TGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTC
* * *
565 GAAGCCCAAAGCCTCAACTTTGCACGTTTTTGTGCTATTCATAGTTCTTAGGAAAACTCTTTCTG
188 GAAGTCCAAAGCCTCAACTTTGCACGTTTTTGTGCTATACATAGTTCTTAGCAAAACTCTTTCTG
630 GATGCGGTTTTTCGCGAAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGAC
253 GATGCGGTTTTTCGCGAAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGAC
* *
695 AGCGCTATGCACAAACAAATCTCTCCTCGAAGTCCAAAGCATCAATTTTGCGAGTTTGTATGCAA
318 AGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAA
* *
760 CACATCGTTCTTAGAGGTTTGTCGGGGTGAGATGAACTTTTTAGACAGCCCTGTGCAGAAAGAAA
383 CACATCGTTCTCAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGACAGCCCTGTGCAGAAAGAAA
* *
825 GCTTTCCTAGACGCCCAAAAACCTCAACTTTGAGCGGTTGGTATGCAAAACTTCATTTTTAGCGA
448 GCTTTCCTACACGCCCAAAAACCTCAACTTTGAGCGGTTGGTATGCAAAACATCATTTTTAGCGA
890 AAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCAAATTGCGATG
513 AAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCAAATTGCGATG
955 AGATTG
578 AGATTG
* * *
961 TTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAAGTCCAAAGCCTTAACTTTGCGTGTTTTTG
1 TTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAAGCCCAAAGCCTCAACTTTGCGCGTTTTTG
* * * *
1026 TGCTGAACATAGTTCTTAGGAAAACTCTTTCTGGATGCGTTTTTTCACGCAACTAGAGCTCAAAA
66 TGCTAAACATAGTTCTTAGCAAAACTC-TTCTGGATGCGTTTTTT--CGCAACGAGTGCTCAAAA
* * *
1091 GTCTTGTGTCAGAGTGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAATGCTCTCCTCGAAG
128 GTCGTGTGTC-GAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAG
**
1156 TCCAAAGCCTCAACTTTGCGTGTTTTTGTGCTGA-ACATAGTTCTTAGCAAAACTCTTTCTGGAT
192 TCCAAAGCCTCAACTTTGCACGTTTTTGTGCT-ATACATAGTTCTTAGCAAAACTCTTTCTGGAT
* * * *
1220 GCGTTTTTTCGCGCAACTAGTGCTCAAAAGTCGTGTGTCGGAGTGAGATGAGCTTGTTAGACAGC
256 GCGGTTTTTCGCGAAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGC
1285 GCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACAC
321 GCTATGCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACAC
* *
1350 ATTGTTCTCAGCGGTTTGTCGGAGTGAGATGAACTTTTT-GTACAGCCCTGTGCAGAAAGAAAGC
386 ATCGTTCTCAGAGGTTTGTCGGAGTGAGATGAACTTTTTAG-ACAGCCCTGTGCAGAAAGAAAGC
* * *
1414 TTTCCTACACGCCC-AAAACTTCAACTTTGAGTGGTT-GTATGCAAAACATCATTTTTAGTGAAA
450 TTTCCTACACGCCCAAAAACCTCAACTTTGAGCGGTTGGTATGCAAAACATCATTTTTAGCGAAA
* *
1477 GGCTCATTCCAGATGCATTTTTTGCGCAACGAGTTCTCAAATGTCGTGCGTCGAATTGCGATGAG
515 GGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCAAATTGCGATGAG
1542 ATTG
580 ATTG
* *
1546 TTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGCCCAAAGCCTCAACTTTGCCCGTTTTTG
1 TTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAAGCCCAAAGCCTCAACTTTGCGCGTTTTTG
1611 TGCTAAACATAGTTCTTAGCAAAACTCTCTCTGGATGCGTTTTTTCGCAAAACGAGTGCTCAAAA
66 TGCTAAACATAGTTCTTAGCAAAACTCT-TCTGGATGCGTTTTTTCGC--AACGAGTGCTCAAAA
*
1676 GTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTATGCAGAAACAAAGCTCTCCTCGAAG
128 GTCGTGTGTC-GAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAG
* *
1741 TCCAAAGCATAAACTTTG
192 TCCAAAGCCTCAACTTTG
1759 TGAGTTTGTA
Statistics
Matches: 714, Mismatches: 74, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
583 3 0.00
584 1 0.00
585 299 0.42
586 82 0.11
587 298 0.42
588 30 0.04
589 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (583 bp):
TTGGACAGCCCTGTGCAGAAACAAAGCTTTCACGAAGCCCAAAGCCTCAACTTTGCGCGTTTTTG
TGCTAAACATAGTTCTTAGCAAAACTCTTCTGGATGCGTTTTTTCGCAACGAGTGCTCAAAAGTC
GTGTGTCGAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCCTCGAAGTCCA
AAGCCTCAACTTTGCACGTTTTTGTGCTATACATAGTTCTTAGCAAAACTCTTTCTGGATGCGGT
TTTTCGCGAAACGAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTAT
GCACAAACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGT
TCTCAGAGGTTTGTCGGAGTGAGATGAACTTTTTAGACAGCCCTGTGCAGAAAGAAAGCTTTCCT
ACACGCCCAAAAACCTCAACTTTGAGCGGTTGGTATGCAAAACATCATTTTTAGCGAAAGGCTCA
TTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCAAATTGCGATGAGATTG
Found at i:1804 original size:427 final size:427
Alignment explanation
Indices: 1108--2877 Score: 2845
Period size: 427 Copynumber: 4.2 Consensus size: 427
1098 GTCAGAGTGA
* * * * * * *
1108 GATGAGCTTGTTAGACAGCGCTATGCACAAACAATGCTCTCCTCGAAGTCCAAAGCCTCAACTTT
1 GATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCT-TTCACGAAGTCCAAAGCCTCAACTTT
** * * * *
1173 GCGTGTTTTTGTGCTGAACATAGTTCTTAGCAAAACTCTTTCTGGATGCGTTTTTTCGCGCAACT
65 GCCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTATTTCTGGATGCGTTTTTTCGCGAAACG
* *
1238 AGTGCTCAAAAGTCGTGTGTCGGAGTGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGC
130 AGTGCTCAAAAGTCGTGTGTCGAAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGC
*
1303 TCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATTGTTCTCAGCGGTTTG
195 TCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTCAGCGGTTTG
*
1368 TCGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCAGAAAGAAAGCTTTCCTACACGCCCAAAAC
260 TCGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCAGAAAGAAAGCTTTCCTACAAGCCCAAAAC
* * *
1433 TTCAACTTTGAGTGGTTGTATGCAAAACATCATTTTTAGTGAAAGGCTCATTCCAGATGCATTTT
325 CTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTT
*
1498 TTGCGCAACGAGTTCTCAAATGTCGTGCGTCGAATTGC
390 TTGCGCAACGAGTGCTCAAATGTCGTGCGTCGAATTGC
*
1536 GATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGCCCAAAGCCTCAACTTTG
1 GATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTG
* * *
1601 CCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTCTCTCTGGATGCGTTTTTTCGCAAAACGA
66 CCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTATTTCTGGATGCGTTTTTTCGCGAAACGA
* *
1666 GTGCTCAAAAGTCGTGTGTCGGAATGAGATGAGCTTGTTAGACAGCGCTATGCAGAAACAAAGCT
131 GTGCTCAAAAGTCGTGTGTCGAAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCT
* * * *
1731 CTCCTCGAAGTCCAAAGCATAAACTTTGTGAGTTTGTATGCAACACATCGTTCTTAGAGGTTTGT
196 CTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTCAGCGGTTTGT
* *
1796 CGGAGTGAGATGAACTTTTTGGACAGCCCTGTGCAGAAAGAAAGCTTTCCTACACGCCCAAAACC
261 CGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCAGAAAGAAAGCTTTCCTACAAGCCCAAAACC
* * *
1861 TCAACCTTGAGTGGTTGTATGCAAAACATCATTTTTAGTGAAAGGCTCATTCCAGATGCATTTTT
326 TCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTT
*
1926 TGCGCAACGAGTTCTCAAATGTCGTGCGTCGAATTGC
391 TGCGCAACGAGTGCTCAAATGTCGTGCGTCGAATTGC
* *
1963 GATGAGATTGTTGGACAGACCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACCTTG
1 GATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTG
*
2028 CCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTATTTCTGGATGCGTTATTTCGCGAAACGA
66 CCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTATTTCTGGATGCGTTTTTTCGCGAAACGA
**
2093 GTGCTCAAAAGTCGTGTGTCGAAATGAGATGAGCTTGGAAGACAGCGCTATGCACAAACAAAGCT
131 GTGCTCAAAAGTCGTGTGTCGAAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCT
*
2158 CTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATTGTTCTCAGCGGTTTGT
196 CTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTCAGCGGTTTGT
* * * *
2223 CGGAGTGAGATGAACTTTTTGTACAACCCTGTGCAGAAATAAAGCTTTCCTAGAAGTCCAAAACC
261 CGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCAGAAAGAAAGCTTTCCTACAAGCCCAAAACC
*
2288 CCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTT
326 TCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTT
*
2353 TGCGCAACGAGTGCTCAAATGTCGTGCGTCAAATTGC
391 TGCGCAACGAGTGCTCAAATGTCGTGCGTCGAATTGC
* *
2390 GATGAGATTGTTGGACAGACCTGTGCACAAACAAAGCCTTCACGAAGTCCAAAGCCTCAACTTTG
1 GATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTG
*
2455 CCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTATTCCTGGATGCGTTTTTTCGCGAAACGA
66 CCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTATTTCTGGATGCGTTTTTTCGCGAAACGA
*
2520 GTGCTCAAAAGTCGTGTGTCGAAATGACATGAGCTTGTTAGACAGCGCTATGCAC-AACAAAGCT
131 GTGCTCAAAAGTCGTGTGTCGAAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCT
*
2584 CTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACA-CTGTTCTTAGCGGTTTG
196 CTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATC-GTTCTCAGCGGTTTG
* * * *
2648 TCGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCTGAAACAAAGTTTTCCTAGAAGCCCAAAAC
260 TCGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCAGAAAGAAAGCTTTCCTACAAGCCCAAAAC
* * * * *
2713 ATCAACTTTGACCCGTTGTATGCAAAACATCATTTTTAGCGAAAGACTCATTCCAGGTGCATTTT
325 CTCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTT
* * *
2778 TTGCGC-ACTGAGTGCTCAAGTGTCGTGAGTCGAAGTGC
390 TTGCGCAAC-GAGTGCTCAAATGTCGTGCGTCGAATTGC
*
2816 GATGAG-TTCGTTGGACAGCCCTGTGCACAAACAAAGC--T--CGAAGTCCAAAGCATCAACTTT
1 GATGAGATT-GTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTT
2876 GC
65 GC
2878 GAGTTTGTAT
Statistics
Matches: 1260, Mismatches: 79, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
422 23 0.02
424 1 0.00
425 4 0.00
426 253 0.20
427 946 0.75
428 33 0.03
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (427 bp):
GATGAGATTGTTGGACAGCCCTGTGCACAAACAAAGCTTTCACGAAGTCCAAAGCCTCAACTTTG
CCCGTTTTTGTGCTAAACATAGTTCTTAGCAAAACTATTTCTGGATGCGTTTTTTCGCGAAACGA
GTGCTCAAAAGTCGTGTGTCGAAATGAGATGAGCTTGTTAGACAGCGCTATGCACAAACAAAGCT
CTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTCAGCGGTTTGT
CGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCAGAAAGAAAGCTTTCCTACAAGCCCAAAACC
TCAACTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTT
TGCGCAACGAGTGCTCAAATGTCGTGCGTCGAATTGC
Found at i:2637 original size:157 final size:156
Alignment explanation
Indices: 2342--2641 Score: 369
Period size: 157 Copynumber: 1.9 Consensus size: 156
2332 GCTCATTCCA
* * *
2342 GATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCAAATTGCGATGAGATTGTTGGACA
1 GATGCATTTTTTGCGAAACGAGTGCTCAAAAGTCGTGCGTCAAATTGCGATGAGATTGTTAGACA
* * * * * *
2407 GACCTGTGCACAAACAAAGCCTTCACGAAGTCCAAAGCCTCAACTTTGCCCGTTTTTGTGCTAAA
66 GACCTATGCACAAACAAAGCCTCCACGAAGTCCAAAGCATCAACTTTGCCAGTTTGTATGCTAAA
2472 CATAGTTCTTAGCAAAACTATTCCTG
131 CATAGTTCTTAGCAAAACTATTCCTG
* * *
2498 GATGCGTTTTTTCGCGAAACGAGTGCTCAAAAGTCGTGTGTCGAAA-TGAC-ATGAGCTTGTTAG
1 GATGCATTTTTT-GCGAAACGAGTGCTCAAAAGTCGTGCGTC-AAATTG-CGATGAGATTGTTAG
* *
2561 ACAG-CGCTATGCAC-AACAAAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATG
63 ACAGAC-CTATGCACAAACAAAGC-CTCCACGAAGTCCAAAGCATCAACTTTGCCAGTTTGTATG
2624 C-AACACACT-GTTCTTAGC
126 CTAA-ACA-TAGTTCTTAGC
2642 GGTTTGTCGG
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
156 22 0.18
157 96 0.78
158 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (156 bp):
GATGCATTTTTTGCGAAACGAGTGCTCAAAAGTCGTGCGTCAAATTGCGATGAGATTGTTAGACA
GACCTATGCACAAACAAAGCCTCCACGAAGTCCAAAGCATCAACTTTGCCAGTTTGTATGCTAAA
CATAGTTCTTAGCAAAACTATTCCTG
Found at i:2884 original size:265 final size:265
Alignment explanation
Indices: 2516--3118 Score: 802
Period size: 265 Copynumber: 2.3 Consensus size: 265
2506 TTTTCGCGAA
* * * * * * * *
2516 ACGAGTGCTCAAAAGTCGTGTGTCGAAATG-ACATGAGCTTGTTAGACAGCGCTATGCAC-AACA
1 ACGAGCGCTCAAATGTCGTGAGTCGAAGTGCA-ATGAGATTGTTCGACAGCCCTGTGCACAAACA
2579 AAGCTCTCCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACA-CTGTTCTTAGCG
65 AAG-----CTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATC-GTTCTTAGCG
* * * ** *
2643 GTTTGTCGGAGTGAGATGAACTTTTTGTACAGCCCTGTGCTGAAACAAAGTTTTCCTAGAAGCCC
124 GTTGGTCGAAGTGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCC
* * **
2708 AAAACATCAACTTTGACCCGTTGTATGCAAAACATCATTTTTAGCGAAAGACTCATTCCAGGTGC
189 AAAACATCAACTTTGACCCGTTGTATGCAAAACATCATTTTTAGCGAAAGACACATTACAAATGC
2773 ATTTTTTGCGC-
254 ATTTTTTGCGCT
* * * *
2784 ACTGAGTGCTCAAGTGTCGTGAGTCGAAGTGCGATGAG-TTCGTTGGACAGCCCTGTGCACAAAC
1 AC-GAGCGCTCAAATGTCGTGAGTCGAAGTGCAATGAGATT-GTTCGACAGCCCTGTGCACAAAC
2848 AAAGCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTGG
64 AAAGCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTGG
* * *
2913 TCGAAGTTAGATGAACTTTTTGGATAGCCCTGTGCACAAATAAAGCTTTCCTAGAAGCCCAAAAC
129 TCGAAGTGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAAC
* * * * *
2978 CTCAACTTTGATCGGTTGTATGCAATACATCATTTTTAGCGAAAGGCACATTACAAATGCATTTT
194 ATCAACTTTGACCCGTTGTATGCAAAACATCATTTTTAGCGAAAGACACATTACAAATGCATTTT
3043 TTGCGCT
259 TTGCGCT
* *
3050 ACGAGCGCTCAAATGTCGTGCGTCGAAGTGCAATGAGATTGTTCGACAGCCTTGTGCACAAACAA
1 ACGAGCGCTCAAATGTCGTGAGTCGAAGTGCAATGAGATTGTTCGACAGCCCTGTGCACAAACAA
3115 AGCT
66 AGCT
3119 TTCCTAGAAG
Statistics
Matches: 296, Mismatches: 32, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
265 235 0.79
266 5 0.02
268 4 0.01
269 45 0.15
270 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (265 bp):
ACGAGCGCTCAAATGTCGTGAGTCGAAGTGCAATGAGATTGTTCGACAGCCCTGTGCACAAACAA
AGCTCGAAGTCCAAAGCATCAACTTTGCGAGTTTGTATGCAACACATCGTTCTTAGCGGTTGGTC
GAAGTGAGATGAACTTTTTGGACAGCCCTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACAT
CAACTTTGACCCGTTGTATGCAAAACATCATTTTTAGCGAAAGACACATTACAAATGCATTTTTT
GCGCT
Done.