Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012875.1 Corchorus capsularis cultivar CVL-1 contig12896, 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: 44970
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:1631 original size:14 final size:15
Alignment explanation
Indices: 1612--1667 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 15
1602 CTTACAGTAC
*
1612 TATATTTTATATAT-
1 TATATTATATATATA
1626 TATATTATATATATA
1 TATATTATATATATA
1641 TATA-TATATATA-A
1 TATATTATATATATA
*
1654 TATACTACTATATA
1 TATATTA-TATATA
1668 GCCTTCTCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
13 5 0.13
14 23 0.61
15 10 0.26
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATTATATATATA
Found at i:1635 original size:12 final size:12
Alignment explanation
Indices: 1618--1656 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
1608 GTACTATATT
1618 TTATATATTATA
1 TTATATATTATA
1630 TTATATATATATA
1 TTATATAT-TATA
*
1643 TATATATATAATA
1 T-TATATATTATA
1656 T
1 T
1657 ACTACTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 9 0.38
14 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATATATTATA
Found at i:1636 original size:2 final size:2
Alignment explanation
Indices: 1619--1667 Score: 59
Period size: 2 Copynumber: 25.0 Consensus size: 2
1609 TACTATATTT
1619 TA TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1658 CTA CTA TA TA
1 -TA -TA TA TA
1668 GCCTTCTCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.07
2 35 0.81
3 5 0.12
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2368 original size:3 final size:3
Alignment explanation
Indices: 2360--2407 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
2350 AAATGATATG
2360 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
2405 ATA
1 ATA
2408 GTAGCCGTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:8162 original size:45 final size:46
Alignment explanation
Indices: 8107--8193 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
8097 AGTGTAGTAA
* *
8107 AATTACTAAAAGAT-CTCTACCCCGA-ATTAATGATGAGCTGGGTGG
1 AATTACTAAAAAATCCT-TACCCCAAGATTAATGATGAGCTGGGTGG
*
8152 AATTATTAAAAAATCCTTACCCCAAGATTAATGATGAGCTGG
1 AATTACTAAAAAATCCTTACCCCAAGATTAATGATGAGCTGG
8194 AGAAGTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 19 0.51
46 18 0.49
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (46 bp):
AATTACTAAAAAATCCTTACCCCAAGATTAATGATGAGCTGGGTGG
Found at i:11763 original size:2 final size:2
Alignment explanation
Indices: 11758--11789 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11748 TTTCCTTCCA
11758 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11790 CTAATTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31544 original size:13 final size:13
Alignment explanation
Indices: 31526--31551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31516 CATCATCATC
31526 TTTCTTTAATTGG
1 TTTCTTTAATTGG
31539 TTTCTTTAATTGG
1 TTTCTTTAATTGG
31552 AATTACTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTTCTTTAATTGG
Found at i:34426 original size:43 final size:42
Alignment explanation
Indices: 34353--34437 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 42
34343 TCCACAAGGT
* *
34353 TTGTATTGGAATTCTAGACTTCTGTGTTGGATGTGGTCAATC
1 TTGTATTGGAATCCTAGACTTCTGTATTGGATGTGGTCAATC
*
34395 TTGTATTGGAATACCTAGACTTTTGTATTGGATGTGGTCAATC
1 TTGTATTGGAAT-CCTAGACTTCTGTATTGGATGTGGTCAATC
34438 ATTTCATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 12 0.31
43 27 0.69
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (42 bp):
TTGTATTGGAATCCTAGACTTCTGTATTGGATGTGGTCAATC
Found at i:34719 original size:47 final size:47
Alignment explanation
Indices: 34650--34747 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
34640 CCCTTTGACG
*
34650 CTATGTTTTTGGTGATCTCAGATTTATCCTTAACTATCTGCTTGGAA
1 CTATGTTTTTGGTGATCTCAGATTTATCCTTAACCATCTGCTTGGAA
*
34697 CTATGTTTTTGGTGATCTCAGATTTATTCTTAACCATCTGCTTGGAA
1 CTATGTTTTTGGTGATCTCAGATTTATCCTTAACCATCTGCTTGGAA
34744 -TATG
1 CTATG
34748 CAGGTTGTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 4 0.08
47 45 0.92
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.45
Consensus pattern (47 bp):
CTATGTTTTTGGTGATCTCAGATTTATCCTTAACCATCTGCTTGGAA
Found at i:36974 original size:37 final size:37
Alignment explanation
Indices: 36916--36987 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
36906 TACTCGTTCG
* *
36916 ACTCGAACAAGGTGATTAATGAAGAAAAGAAAACCTT
1 ACTCAAACAAGGTGATGAATGAAGAAAAGAAAACCTT
36953 ACTCAAACAAGGTGATGAATGAAGAAAAGAAAACC
1 ACTCAAACAAGGTGATGAATGAAGAAAAGAAAACC
36988 ATTCTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.15
Consensus pattern (37 bp):
ACTCAAACAAGGTGATGAATGAAGAAAAGAAAACCTT
Found at i:37942 original size:279 final size:277
Alignment explanation
Indices: 37495--37998 Score: 660
Period size: 279 Copynumber: 1.8 Consensus size: 277
37485 AGGAGATATT
* * * * *
37495 TTTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTGACTAA
1 TTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTCTACTAACCATAACGGGTTTTGACTAA
** * * *
37560 AAACGCGTTCTGGAGCCCTGACTCAGTCTTGTACGATTTTTTGCGCCAAGTCTCATTGAAATATC
66 AAACGCAATCCGGAGCCCTGACTCAGTCTTGTACGATTTTTGGCGCCAAGACTCATTGAAATATC
* * * * *
37625 TATATCCTTCTAACCAAATCTTACCCACATTGGATTTAATGATTTGTTTTTACGAGCATATGAAT
131 TATATCCTTCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACAAGCATATCAAT
*
37690 CATG-TTTCGATTCAATTA-ACAATTAATTCGTGTTGAATTATATGTTTTTTTTAGTATCGTAGC
196 C-CGATTTCGATTCAATTAGA-AATTAATTCGTGTTGAATTATATGTTTTTTTTAGTATCGTAGC
37753 CAAAAATTGAGGAAAACTC
259 CAAAAATTGAGGAAAACTC
* * * *
37772 TTTCAGGTCAATTTTTTTCAAAATTTTAGCCGAAATCTGTCTATTAACTATAACGGGTTTTGGCT
1 TTTCAGGTCAA-TTTTTGCAAAATTTTAGCCGAAATC-GTCTACTAACCATAACGGGTTTTGACT
* *
37837 AAAAACGCAATCCGG-GTCCTTGGCTCAGT-TT-TACATGATTTTTGGCGCCAAGACTCATTGAA
64 AAAAACGCAATCCGGAG-CCCTGACTCAGTCTTGTAC--GATTTTTGGCGCCAAGACTCATTGAA
* *
37899 ATATCTATAT-TTATCTAACGAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACAAGCAT
126 ATATCTATATCCT-TCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACAAGCAT
* *
37963 CTCAATCCGATTTCGATTTAATTAGAAATTAATTCG
190 ATCAATCCGATTTCGATTCAATTAGAAATTAATTCG
37999 GAAAAAATAA
Statistics
Matches: 193, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
277 13 0.07
278 28 0.15
279 151 0.78
280 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (277 bp):
TTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTCTACTAACCATAACGGGTTTTGACTAA
AAACGCAATCCGGAGCCCTGACTCAGTCTTGTACGATTTTTGGCGCCAAGACTCATTGAAATATC
TATATCCTTCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACAAGCATATCAAT
CCGATTTCGATTCAATTAGAAATTAATTCGTGTTGAATTATATGTTTTTTTTAGTATCGTAGCCA
AAAATTGAGGAAAACTC
Found at i:38699 original size:296 final size:294
Alignment explanation
Indices: 38090--38685 Score: 820
Period size: 296 Copynumber: 2.0 Consensus size: 294
38080 ATGGTGGCCG
* * *
38090 GATATTGAGAAGA-AATTTCTCAGGTCAATTTTTGCAAAATTTTAGTTGAAATCGTATACTAACC
1 GATATTGAGGAGAGATTTTCTCAGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACC
* *
38154 ATCACGGTTTTTGACTAAAAACATTCTAGAGCCCCGACTCAATTTTGTACGATTTTTGGCGCCAA
66 ATCAAGGTTTTTGACTAAAAACATTCTAGAGCCCCGACTCAATTTTGCACGATTTTTGGCGCCAA
* * * * *
38219 ATCTGATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGCATTTAAGCATTTGTTT
131 ATCTCATTGAAATATATATACCCATCTAACCAAACCTTACCCACACTGCATTTAAGCATTTGTTT
* * * *
38284 TTACGAGCATATGAATCATGTCTCGGTTCAATTAAGAATTAATTTGGAAAAAAATAGGAGAAACG
196 TTACGAGCATAAGAATCATGTCTCGATTCAATTAAGAATTAATTCGGAAAAAAATAGGAAAAACG
* *
38349 ATATTAGAAGCGTGAATAGCCTTTCAATCTTTTT
261 ATATTAGAAGCGTGAATAACCTTTCAATATTTTT
* * * * *
38383 GGTATTGAGGAGAGATTTTCTCAGGTCAATTTTTGCACAATTTTAGCTGAAATTGTGTACTAATC
1 GATATTGAGGAGAGATTTTCTCAGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACC
* * * * * * * *
38448 ATCAATGTTTTTGATTAAAAACGCGTTTTAGAGCCCGGGCTCAGTTTTGCACGATTTTTGGTGCC
66 ATCAAGGTTTTTGACTAAAAA--CATTCTAGAGCCCCGACTCAATTTTGCACGATTTTTGGCGCC
* * * *
38513 AAGTCTCATTGAAATATATTTACCCATCTAACCAAACCTTACCCATACTGGATTTAA-CAATTTG
129 AAATCTCATTGAAATATATATACCCATCTAACCAAACCTTACCCACACTGCATTTAAGC-ATTTG
* *
38577 TTTTTACGAGCATAAGAATCATGTTTCGATTCAATTAGGAATTAATTCGG-AAAAAATAGGAAAA
193 TTTTTACGAGCATAAGAATCATGTCTCGATTCAATTAAGAATTAATTCGGAAAAAAATAGGAAAA
38641 ACGATATTAGAAGCGTGAATAACCTTTCAATATTTTT
258 ACGATATTAGAAGCGTGAATAACCTTTCAATATTTTT
*
38678 GATGTTGA
1 GATATTGA
38686 ATTATATATT
Statistics
Matches: 262, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
293 11 0.04
294 63 0.24
295 55 0.21
296 133 0.51
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (294 bp):
GATATTGAGGAGAGATTTTCTCAGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACC
ATCAAGGTTTTTGACTAAAAACATTCTAGAGCCCCGACTCAATTTTGCACGATTTTTGGCGCCAA
ATCTCATTGAAATATATATACCCATCTAACCAAACCTTACCCACACTGCATTTAAGCATTTGTTT
TTACGAGCATAAGAATCATGTCTCGATTCAATTAAGAATTAATTCGGAAAAAAATAGGAAAAACG
ATATTAGAAGCGTGAATAACCTTTCAATATTTTT
Found at i:39961 original size:334 final size:330
Alignment explanation
Indices: 38386--43279 Score: 4598
Period size: 334 Copynumber: 14.8 Consensus size: 330
38376 TCTTTTTGGT
* * * * * * *
38386 ATTGAGGAGAGATTTTCTCAGGTCAATTTTTGCACAATTTTAGCTGAAATTGTGTACTAATCATC
1 ATTGAGGAGAAATCTT-TCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATC
** * * * * * *
38451 AATGTTTTTGATTAAAAACGCGTTTTAGAGCCCGGGCTCAGTTTTGCACGATTTTTGGTGCCAAG
65 ACGGTTTTTGACTAAAAACGCGTTCTGGA-CCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
* * ** * * * * * **
38516 TCTCATTGAAATATATTTACCCATCTAACCAAACCTTACCCATACTGGATTTAACAATTTGTTTT
129 TCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
* * * *
38581 TACGAGCATAAGAATCATGTTTCGATTCAATTAGGAATTAATTCGGAAAAAATAGGAAAAACGAT
194 TACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTC-GAAAAAATAGAAAAAACAAT
* * * *
38646 ATTAGAAGCGTGAATAACCTTTCAATATTTTTGATGTTGAATTATATATTTTCTATGAGTATCGT
258 ATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGT
**
38711 ATCCAAAA
323 GGCCAAAA
* * *
38719 ATTGAGGA-AAATTCTTTCGAGTCAATTTTTACAAAACTTTAG-TCGAAATTAGTGTACGT----
1 ATTGAGGAGAAA-TCTTTCGGGTCAATTTTTACAAAATTTTAGCT-GAAA-TCGTGTAC-TAACC
* * * * * * *
38778 -T-ACTGTTTTCGGCTAAAAACGCGTTCCGTGG-CTCCGGCACAGTTTTTCATGATTTTTGGCGT
62 ATCACGGTTTTTGACTAAAAACGCGTT-C-TGGACCCCGGCTCAGTTTTGCATGATTTTTGGCGC
** * * * *
38840 CAAAACTCATTGAAATATCTATATTTATCTAACAAAATCTCAGCAACATT-GATTTAAGGATTTG
125 CAAGTCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTG
* * ** * *
38904 TTTTTACGAGCATCTCAATCCGGTTTCAATTTAATTAGAAATTAATTC-AGAAAAATA-AAAAAA
190 TTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTCGA-AAAAATAGAAAAAA
* * * *
38967 CAATATTAGAAGCGTGAGA-AACCCTTCAATCTTTTTGGCGTTGAATTATATGTATTTTTATGAG
254 CAATATTAGAAGCGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATAT-TTTTTATGAG
*
39031 TATGGTGGCCGAAAA
317 TATCGTGGCC-AAAA
* *
39046 A-TGAGGAGAAA-CTTCTCGGGTCAATTTTTGCAAAATTTAAGCTGAAATCGTGTACTAACCATC
1 ATTGAGGAGAAATCTT-TCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATC
* * * *
39109 ACGGTTTTTGACTAAAAACGCGTTCTGGAGCCCTGACTCAGTTTTGCACGATTTTTAGCGCCAAG
65 ACGGTTTTTGACTAAAAACGCGTTCTGGA-CCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
* *
39174 TCTGATTGAAATATCTATATTCATCTAACTAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
129 TCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
* * * *
39239 TACGAGCATATGAATCATGTTTCGGTTCAATTA-AGAATTACTTCCG-AAAAATAGGAAAAACGA
194 TACGAGCATATGAATCATGTTTCGATTCAATTAGA-AATTAATT-CGAAAAAATAGAAAAAACAA
* * *
39302 TATTAGAAGCGTGAATAACCTTTCAATCTTTTTGGTATTGAATTATATATTTTTTATGAGTATCA
257 TATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCG
39367 TGGCCAAAA
322 TGGCCAAAA
* ** **
39376 ATTGAGGA-AAATTCTTTCGGTTCAATTTTTTA-AATTTTTTAGCCAAAATCGGTGTACTAACTA
1 ATTGAGGAGAAA-TCTTTCGGGTCAA-TTTTTACAAAATTTTAGCTGAAATC-GTGTACTAAC--
* * * * * * * *
39439 TCACGGTTTTACGGTTTTTGGCTAAAAACGCGATCCGGGTCCTCGGCTGAATTTTGCATGATTTT
61 -CA-----TCACGGTTTTTGACTAAAAACGCG-TTCTGGACCCCGGCTCAGTTTTGCATGATTTT
* * * * *
39504 T-G-G--AA-ACTTATTGAAATATCTATATTTATCTAACGAAATCTCAGCTACATTGGATTTAAG
119 TGGCGCCAAGTCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAG
* * ** * *
39564 GATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAGA
184 GATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTCGAAAAAATAG-
* * * *
39629 AAAAAAAATAATATTAGAAACGTGAGA-AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTT
248 --AAAAAACAATATTAGAAGCGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTT
* * **
39693 TTATGAATATAGTGGCCGGAA
310 TTATGAGTATCGTGGCCAAAA
* * * * *
39714 ATTGAAGAGAAATCTTTTGGGTCAATTTTTCCAAAATTTTAGCTGAAATCTTATACTAACCATCA
1 ATTGAGGAGAAATCTTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATCA
* * * *
39779 CGGTTTTTGACTAAAAACGCGTTCTGGCACCCCGGCTCGGTTTTGCACGATTTTTGACGCTAAGT
66 CGGTTTTTGACTAAAAACGCGTTCTGG-ACCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGT
* * *
39844 CTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
130 CTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTTT
* * * * *
39909 ATGAGCATATGAATCATGTTTCGGTTCAATTAAAAATTAATTCGAAAAAATAGGAAAAACGATAT
195 ACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTCGAAAAAATAGAAAAAACAATAT
* *
39974 TAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGATTATCGTTG
260 TAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTGG
40039 CCAAAA
325 CCAAAA
* * * * *
40045 ATTAAGGA-AAGCTATTTCGAGTCAATTTTTACAAAATTTTAGCTGAAAT--TG--------GT-
1 ATTGAGGAGAA-ATCTTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATC
* * * * * * * * *
40098 ACGGTTCTTGGCTAAAAACGCATTCCGGGGCTCCGACTCTGTTTTGCATGATTTTCGGCGCCAAG
65 ACGGTTTTTGACTAAAAACGCGTT-CTGGACCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
* * * * * * * *
40163 ACTTAATGAAATATCTATATTTATCAAACGAAATCTCAACCACATTGGATTTATGGTTTTGTTTT
129 TCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
* * * * *
40228 TACGAGTATCTCAATC-CGATTTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAAAAA
194 TACGAGCATATGAATCATG-TTTCGATTCAATTAGAAATTAATTC-GAAAAAATA-G--AAAAAA
* * * * *
40292 CAATATTAGAAGCGAGAGAT-CCCCTTCAATGTCTTTGGTGTTGAATTATATATTTTTTTTATGA
254 CAATATTAGAAGCGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATA--TTTTTTATGA
* * *
40356 ATATTGTGG-CAGGAA
316 GTATCGTGGCCA-AAA
* *
40371 ATTGAGGAGAAA-CTTCTCGTGTCAATTTTTGCAAAA-TTT---T---A----G------CCATC
1 ATTGAGGAGAAATCTT-TCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATC
* * * * * *
40418 ACGGTTTTCGACTAAAAACGCTTTCTAGAGCCCCAGCTCAGTTTTGCACGATTTTTGGCACCAAG
65 ACGGTTTTTGACTAAAAACGCGTTCTGGA-CCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
* * * * * *
40483 TCTCACTGAAATATTTATATCCATCTAACCAAACCTTACCCACATTGGATTTAAGGATTTGTTTT
129 TCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
* * * **
40548 TACGAGCATATGAATCATGTTTCGATTCAATCAGGAATTAATTCGGAAAAAATAGGAAAAATGAT
194 TACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTC-GAAAAAATAGAAAAAACAAT
* * * * *
40613 ATTAGAAGCGTGAATAGCCTTTCAATATTTATGGTGTTGAATTATATATTTTCTATGTGTTTCGT
258 ATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGT
*
40678 AGCCAAAA
323 GGCCAAAA
** *
40686 ATTGAGGA-AAATCCTTTCGAATCAATTTTTACAAAATTTTAGCCGAAATCGGTGTACT---CAT
1 ATTGAGGAGAAAT-CTTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATC-GTGTACTAACCAT
* * * * * ** *
40747 CACGGTTTTTTTTGGCTAATAACGCGTTCCAGGGCCACAACTTAGTTTTGCATGATTTTTGGCGC
64 CACGG---TTTTTGACTAAAAACGCGTT-CTGGACCCCGGCTCAGTTTTGCATGATTTTTGGCGC
** * * * * * *
40812 CAAAACTCATTGCAATATCTATATTTATATCACGTAATCTCAGCCACATT-GATTTAAGGATTTG
125 CAAGTCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTG
* * ** * * * *
40876 TTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGAAGAATAGAAAAAAT
190 TTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTCGAAAAAATAGAAAAAAC
* * *
40941 AATATTAGAAGTGTGAGA-AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTA
255 AATATTAGAAGCGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTA
*
41005 TGGTGGCCGAAAA
319 TCGTGGCC-AAAA
* *
41018 A-TAAGGAGAAA-CTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATC
1 ATTGAGGAGAAATCTT-TCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATC
* * * *
41081 ACGGTTTTTGACTAAAAACGCGTTCTTGAGCCCTGGCTCAGTTTTGCACGGTTTTTGGCGCCAAG
65 ACGGTTTTTGACTAAAAACGCGTTCTGGA-CCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
* * * * * *
41146 TCTGATTGAAATATCTATATCCATCTAACTAAAACTTACCCACATTGGATTTAAGGATTTGCTTT
129 TCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
* * *
41211 TACGAGCATATGAATCATGTTTCGGTTCAATCATG-AATTAATTCGGAAAAAATATG-AAAAACG
194 TACGAGCATATGAATCATGTTTCGATTCAATTA-GAAATTAATTC-GAAAAAATA-GAAAAAACA
* * *
41274 ATATTAGAAGCGTGAATATCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGGGTATC
256 ATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATC
*
41339 ATGGCCAAAA
321 GTGGCCAAAA
* ** * **
41349 GTTGAGGA-AAATTCTTTCAAGTCAATTTTTTTAAAAATATTTTTAGCCAAAATCGGTGTACTAA
1 ATTGAGGAGAAA-TCTTTCGGGTCAA--TTTTTACAAA-A-TTTTAGCTGAAATC-GTGTACTAA
* * * * * * ** * * *
41413 CTATAACGGTTTTTGGCTAAAAACACGTTCCGTGTCTTCGGCTCAGTTTTGAATGATATTTGGCA
60 CCATCACGGTTTTTGACTAAAAACGCGTTCTG-GACCCCGGCTCAGTTTTGCATGATTTTTGGCG
** * * *
41478 CCAAAACTCCTTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAAGGATTT
124 CCAAGTCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTT
* * * ** * * *
41543 GTTTTTACGACCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTTGGAAAAATAGGAAAAA
189 GTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTCGAAAAAATA-G--AAA
* * * *
41608 AAACAATATTAGAAGCGTGGGA-AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTAATG
251 AAACAATATTAGAAGCGT-GAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATG
* * **
41672 AATATAGTAGG-CGGAA
315 AGTATCGT-GGCCAAAA
* * * * * * * *
41688 ATTGAGGAGAATTTTTTGGGGTCAAATTTTGCAAAGTTTTAGCTGAAATCGTATACTAACCTTCA
1 ATTGAGGAGAAATCTTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATCA
* * * * * *
41753 CGGTTCTTGACTAAAAACGTGTTCTGGCGCCCCGGCTCGGTTTTGCACGATTTTTGGCACCAAGT
66 CGGTTTTTGACTAAAAACGCGTTCTGG-ACCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGT
* * * * *
41818 CGCATTTAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
130 CTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTTT
* *
41883 ACGAGCATATAAATCATGTTTCGATTCAATTA-ATAATTAATTCGGAAAAAAATAGGAAAAACAA
195 ACGAGCATATGAATCATGTTTCGATTCAATTAGA-AATTAATTC-G-AAAAAATAGAAAAAACAA
* *
41947 TATTAGAAGCGTGAATATCCTTTCAATCTTTTTTGCTGTTGAATTATATATATTTTTATGAGTAT
257 TATTAGAAGCGTGAATAGCCTTTCAATC-TTTTTGGTGTTGAATTATATAT-TTTTTATGAGTAT
* *
42012 CGTGGCTATAA
320 CGTGGCCAAAA
* *
42023 ATTGAGGA-AAACTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATC
1 ATTGAGGAGAAA-TCTTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATC
* * * * *
42087 GCGG-TTTAGACTAAAAACGCGTTCTAGAGCCCCAGCTCAGTTTTGCACGATTTTTGGCGCCAAG
65 ACGGTTTTTGACTAAAAACGCGTTCTGGA-CCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
* * * * *
42151 TCTCACTGAAATATCTATATCCATCTAACCAAACCTTACCCACATTGGATTTAAGGATTTGTTTT
129 TCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
* * * *
42216 TACGAGCGTATGAATCATGTTTCGATTCAATCAGGAATTAATTCGGAAAAAATATG-AAAAACGA
194 TACGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTC-GAAAAAATA-GAAAAAACAA
* * *
42280 TATTAGAAGCGTGAATAGCCATTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGATTATTG
257 TATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCG
* *
42345 TAGCAAAAA
322 TGGCCAAAA
* * ** *
42354 ATTAAGGA-AAATTATTTCGATTCAATTTTTACAAAATTTTAGCTGAAATCGGTGAACTAACCAT
1 ATTGAGGAGAAA-TCTTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATC-GTGTACTAACCAT
* * * * ** * *
42418 CATGGTTTTTGGCTAAAAACGCGTTCCGGGGCTTCGACTCTGTTTTGCATG-TTTTTCGGCGCCA
64 CACGGTTTTTGACTAAAAACGCGTT-CTGGACCCCGGCTCAGTTTTGCATGATTTTT-GGCGCCA
* * * * * *
42482 AGACTCATTGAAATATCTATATTTATCTAACGAAATCTCAACCACATTGGATTTATGGTTTTGGT
127 AGTCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTT
* * * * *
42547 TTTACGTGTATCTCAATC-CGATTTCGA-TCTAATTAGAAATTAATTCGGAAAAAATAGAAAACA
192 TTTACGAGCATATGAATCATG-TTTCGATTC-AATTAGAAATTAATTC-GAAAAAATAG------
* * * * * *
42610 AAAAAATAATATTAGAAGCGAGAGA-AGCCCTTCAATCTCTTTGGTGTTGAATTATCTGTTTTTT
248 AAAAAACAATATTAGAAGCGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTT
* * **
42674 ATGATTATGGTGGCCGGAA
312 ATGAGTATCGTGGCCAAAA
* *
42693 ATTAAGGAGAAA-CTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATC
1 ATTGAGGAGAAATCTT-TCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATC
*
42757 ACGGTTTTTGACTAAAAACGCGTTCTGGAGCCCTGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
65 ACGGTTTTTGACTAAAAACGCGTTCTGGA-CCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAG
* * * * * *
42822 TATGATTGAAATATCTATATCCATCTAACTAAATCTTACCCACATTGGATTTAAGGATTTGCTTT
129 TCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTT
* * * *
42887 TACGAGCATATGAATCATGTTTC-AGTTTAATTA-AGAATTACTTCCGAAAAAATAGGAAAAACG
194 TACGAGCATATGAATCATGTTTCGA-TTCAATTAGA-AATTAATT-CGAAAAAATAGAAAAAACA
**
42950 ATATTTCAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATATTTTTATGAGTAT
256 ATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATAT-TTTTTATGAGTAT
* *
43015 CGTGTCCTAAA
320 CGTGGCCAAAA
* * * * * *
43026 ATTGACGA-AAACTCTTTCTGTTCAATGTTTTTA-AAAATTTTAGCCGGAATCGTGTACTAACTA
1 ATTGAGGAGAAA-TCTTTCGGGTCAA--TTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCA
* * * * * * * * *
43089 TCACGGTTTTTGGCTAAAAACGCATTCCGGGGCACTGGTTCAGTTTTGCATTATTATTGGCGCCA
63 TCACGGTTTTTGACTAAAAACGCGTT-CTGGACCCCGGCTCAGTTTTGCATGATTTTTGGCGCCA
* * ** * *
43154 AGACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGTCACATTGGATTTAAAGA-TTCTT
127 AGTCTCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTT
* * * * * *
43218 TTTACGAGCATCTTAATC-CGATTTCGATTTAATTTGAAATTAATTCGGAAAAATAGAAAAAA
192 TTTACGAGCATATGAATCATG-TTTCGATTCAATTAGAAATTAATTCGAAAAAATAGAAAAAA
43280 GAAATAGAAA
Statistics
Matches: 3707, Mismatches: 682, Indels: 345
0.78 0.14 0.07
Matches are distributed among these distances:
314 3 0.00
315 40 0.01
316 10 0.00
317 47 0.01
319 6 0.00
320 282 0.08
321 14 0.00
322 3 0.00
324 49 0.01
325 70 0.02
326 99 0.03
327 64 0.02
328 87 0.02
329 49 0.01
330 198 0.05
331 447 0.12
332 359 0.10
333 387 0.10
334 582 0.16
335 195 0.05
336 32 0.01
337 174 0.05
338 255 0.07
339 199 0.05
340 52 0.01
341 4 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (330 bp):
ATTGAGGAGAAATCTTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCATCA
CGGTTTTTGACTAAAAACGCGTTCTGGACCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGTC
TCATTGAAATATCTATATTCATCTAACGAAATCTCACCCACATTGGATTTAAGGATTTGTTTTTA
CGAGCATATGAATCATGTTTCGATTCAATTAGAAATTAATTCGAAAAAATAGAAAAAACAATATT
AGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTGGC
CAAAA
Found at i:41842 original size:671 final size:665
Alignment explanation
Indices: 38386--43279 Score: 5382
Period size: 671 Copynumber: 7.4 Consensus size: 665
38376 TCTTTTTGGT
* * * * * *
38386 ATTGAGGAGAGATTTTCTCAGGTCAATTTTTGCACAATTTTAGCTGAAATTGTGTACTAATCATC
1 ATTGAGGAGA-ATCTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACCATC
** * * * * *
38451 AATGTTTTTGATTAAAAACGCGTTTTAGAGCCCGGGCTCAGTTTTGCACGATTTTTGGTGCCAAG
65 ACGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAAG
* * * * * * **
38516 TCTCATTGAAATATATTTACCCATCTAACCAAACCTTACCCATACTGGATTTAACAATTTGTTTT
130 TCTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTT
* * *
38581 TACGAGCATAAGAATCATGTTTCGATTCAATTAGGAATTAATTCGGAAAAAATAGGAAAAACGAT
195 TACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTAATTCGGAAAAAATAGGAAAAACGAT
* * *
38646 ATTAGAAGCGTGAATAACCTTTCAATATTTTTGATGTTGAATTATATATTTTCTATGAGTATCGT
260 ATTAGAAGCGTGAATAGCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGT
** * * *
38711 ATCCAAAAATTGAGGAAAATTCTTTCGAGTCAATTTTTACAAAACTTTAGTCGAAATTAGTGTAC
325 GGCCAAAAATTGAGGAAAATTCTTTCGAGTCAATTTTTACAAAATTTTAGCCGAAA-TCGTGTAC
* * * * * * *
38776 ---GT-T-ACTGTTTTCGGCTAAAAACGCGTTCCGTGGCTCCGGCACAGTTTTTCATGATTTTTG
389 TAACTATCACGGTTTTTGGCTAAAAACGCGTTCCGAGGCCCCGGCTCAGTTTTGCATGATTTTTG
* * *
38836 GCGTCAAAACTCATTGAAATATCTATATTTATCTAACAAAATCTCAGCAACATT-GATTTAAGGA
454 GCGCCAAAACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAAGGA
* *
38900 TTTGTTTTTACGAGCATCTCAATCCGGTTTCAATTTAATTAGAAATTAATTCAGAAAAAT---AA
519 TTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAGGAA
* *
38962 AAAAACAATATTAGAAGCGTGAGAAACCCTTCAATCTTTTTGGCGTTGAATTATATGTATTTTTA
584 AAAAACAATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATAT-TTTTTA
* *
39027 TGAGTATGGTGGCCGAAA
648 TGAATATAGTGGCCGAAA
* * * *
39045 AATGAGGAGAAACTTCTCGGGTCAATTTTTGCAAAATTTAAGCTGAAATCGTGTACTAACCATCA
1 ATTGAGGAGAATCTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACCATCA
* * *
39110 CGGTTTTTGACTAAAAACGCGTTCTGGAGCCCTGACTCAGTTTTGCACGATTTTTAGCGCCAAGT
66 CGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAAGT
* * * *
39175 CTGATTGAAATATCTATATTCATCTAACTAAATCTCACCCACATTGGATTTAAGGATTTGTTTTT
131 CTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
* *
39240 ACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTACTTCCG-AAAAATAGGAAAAACGATA
196 ACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTAATTCGGAAAAAATAGGAAAAACGATA
* * * *
39304 TTAGAAGCGTGAATAACCTTTCAATCTTTTTGGTATTGAATTATATATTTTTTATGAGTATCATG
261 TTAGAAGCGTGAATAGCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTG
** *
39369 GCCAAAAATTGAGGAAAATTCTTTCG-GTTCAATTTTTTA-AATTTTTTAGCCAAAATCGGTGTA
326 GCCAAAAATTGAGGAAAATTCTTTCGAG-TCAA-TTTTTACAAAATTTTAGCCGAAATC-GTGTA
* * * *
39432 CTAACTATCACGGTTTTACGGTTTTTGGCTAAAAACGCGATCCG-GGTCCTCGGCTGAATTTTGC
388 CTAACTAT--C------ACGGTTTTTGGCTAAAAACGCGTTCCGAGG-CCCCGGCTCAGTTTTGC
* *
39496 ATGATTTTT-G-G---AAACTTATTGAAATATCTATATTTATCTAACGAAATCTCAGCTACATTG
444 ATGATTTTTGGCGCCAAAACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTG
39556 GATTTAAGGATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGA
509 GATTTAAGGATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGA
* * *
39621 AAAATAGAAAAAAAAATAATATTAGAAACGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTAT
574 AAAATAG-GAAAAAAACAATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTAT
*
39686 ATATTTTTTATGAATATAGTGGCCGGAA
638 ATATTTTTTATGAATATAGTGGCCGAAA
* * * *
39714 ATTGAAGAGAAATCTT-TTGGGTCAATTTTTCCAAAATTTTAGCTGAAATCTTATACTAACCATC
1 ATTGAGGAG-AATCTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACCATC
* * *
39778 ACGGTTTTTGACTAAAAACGCGTTCTGGCA-CCCCGGCTCGGTTTTGCACGATTTTTGACGCTAA
65 ACGGTTTTTGACTAAAAACGCGTTCTGG-AGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAA
39842 GTCTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTT
129 GTCTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTT
* *
39907 TTATGAGCATATGAATCATGTTTCGGTTCAATTAAAAATTAATTC-GAAAAAATAGGAAAAACGA
194 TTACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTAATTCGGAAAAAATAGGAAAAACGA
* *
39971 TATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGATTATCG
259 TATTAGAAGCGTGAATAGCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGAGTATCG
* * ** * *
40036 TTGCCAAAAATTAAGGAAAGCTATTTCGAGTCAATTTTTACAAAATTTTAGCTGAAAT--TG---
324 TGGCCAAAAATTGAGGAAAATTCTTTCGAGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAC
* * * * * * * *
40096 -----GT-ACGGTTCTTGGCTAAAAACGCATTCCGGGGCTCCGACTCTGTTTTGCATGATTTTCG
389 TAACTATCACGGTTTTTGGCTAAAAACGCGTTCCGAGGCCCCGGCTCAGTTTTGCATGATTTTTG
* * * * * * *
40155 GCGCCAAGACTTAATGAAATATCTATATTTATCAAACGAAATCTCAACCACATTGGATTTATGGT
454 GCGCCAAAACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAAGGA
* *
40220 TTTGTTTTTACGAGTATCTCAATCCGATTTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGA
519 TTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGG-AAAAATAGG-
* ** * * *
40285 AAAAAAACAATATTAGAAGCGAGAGATCCCCTTCAATGTCTTTGGTGTTGAATTATATATTTTTT
582 AAAAAAACAATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATA--TTTT
* * *
40350 TTATGAATATTGTGGCAGGAA
645 TTATGAATATAGTGGCCGAAA
* *
40371 ATTGAGGAGAAACTTCTCGTGTCAATTTTTGCAAAA-TTT---T---A--G--------CCATCA
1 ATTGAGGAGAATCTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACCATCA
* * * * *
40419 CGGTTTTCGACTAAAAACGCTTTCTAGAGCCCCAGCTCAGTTTTGCACGATTTTTGGCACCAAGT
66 CGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAAGT
* * *
40484 CTCACTGAAATATTTATATCCATCTAACCAAACCTTACCCACATTGGATTTAAGGATTTGTTTTT
131 CTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
* * * *
40549 ACGAGCATATGAATCATGTTTCGATTCAATCAGGAATTAATTCGGAAAAAATAGGAAAAATGATA
196 ACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTAATTCGGAAAAAATAGGAAAAACGATA
* * * * *
40614 TTAGAAGCGTGAATAGCCTTTCAATATTTATGGTGTTGAATTATATATTTTCTATGTGTTTCGTA
261 TTAGAAGCGTGAATAGCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTG
* *
40679 GCCAAAAATTGAGGAAAATCCTTTCGAATCAATTTTTACAAAATTTTAGCCGAAATCGGTGTACT
326 GCCAAAAATTGAGGAAAATTCTTTCGAGTCAATTTTTACAAAATTTTAGCCGAAATC-GTGTACT
* * ** *
40744 --C-ATCACGGTTTTTTTTGGCTAATAACGCGTTCC-AGGGCCACAACTTAGTTTTGCATGATTT
390 AACTATCACGG---TTTTTGGCTAAAAACGCGTTCCGA-GGCCCCGGCTCAGTTTTGCATGATTT
* * * *
40805 TTGGCGCCAAAACTCATTGCAATATCTATATTTATATCACGTAATCTCAGCCACATT-GATTTAA
451 TTGGCGCCAAAACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAA
*
40869 GGATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGAAGAATA-
516 GGATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAG
* *
40933 G-AAAAAATAATATTAGAAGTGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTT
581 GAAAAAAACAATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTT
* *
40997 TATGAGTATGGTGGCCGAAA
646 TATGAATATAGTGGCCGAAA
* * * *
41017 AATAAGGAGAAACTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCA
1 ATTGAGGAGAATCTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACCATCA
* * *
41082 CGGTTTTTGACTAAAAACGCGTTCTTGAGCCCTGGCTCAGTTTTGCACGGTTTTTGGCGCCAAGT
66 CGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAAGT
* * * *
41147 CTGATTGAAATATCTATATCCATCTAACTAAAACTTACCCACATTGGATTTAAGGATTTGCTTTT
131 CTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
* * *
41212 ACGAGCATATGAATCATGTTTCGGTTCAATCATGAATTAATTCGGAAAAAATATGAAAAACGATA
196 ACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTAATTCGGAAAAAATAGGAAAAACGATA
* * *
41277 TTAGAAGCGTGAATATCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGGGTATCATG
261 TTAGAAGCGTGAATAGCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTG
* * * *
41342 GCCAAAAGTTGAGGAAAATTCTTTCAAGTCAATTTTTTTAAAAATATTTTTAGCCAAAATCGGTG
326 GCCAAAAATTGAGGAAAATTCTTTCGAGTCAA--TTTTTACAAA-A-TTTTAGCCGAAATC-GTG
* * * * ** * *
41407 TACTAACTATAACGGTTTTTGGCTAAAAACACGTTCCGTGTCTTCGGCTCAGTTTTGAATGATAT
386 TACTAACTATCACGGTTTTTGGCTAAAAACGCGTTCCGAGGCCCCGGCTCAGTTTTGCATGATTT
* *
41472 TTGGCACCAAAACTCCTTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAA
451 TTGGCGCCAAAACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAA
* *
41537 GGATTTGTTTTTACGACCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTTGGAAAAATAG
516 GGATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAG
*
41602 GAAAAAAAACAATATTAGAAGCGTGGGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTT
581 G-AAAAAAACAATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTT
* *
41667 TAATGAATATAGTAGG-CGGAA
645 TTATGAATATAGT-GGCCGAAA
* * * * * *
41688 ATTGAGGAGAATTTTTTGGGGTCAAATTTTGCAAAGTTTTAGCTGAAATCGTATACTAACCTTCA
1 ATTGAGGAGAATCTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACCATCA
* * * * *
41753 CGGTTCTTGACTAAAAACGTGTTCTGGCGCCCCGGCTCGGTTTTGCACGATTTTTGGCACCAAGT
66 CGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAAGT
* *
41818 CGCATTTAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
131 CTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
* * * *
41883 ACGAGCATATAAATCATGTTTCGATTCAATTAATAATTAATTCGGAAAAAAATAGGAAAAACAAT
196 ACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTAATTCGG-AAAAAATAGGAAAAACGAT
* * *
41948 ATTAGAAGCGTGAATATCCTTTCAATCTTTTTTGCTGTTGAATTATATATATTTTTATGAGTATC
260 ATTAGAAGCGTGAATAGCCTTTCAAT-ATTTTTGGTGTTGAATTATATAT-TTTTTATGAGTATC
* * * *
42013 GTGGCTATAAATTGAGGAAAACTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTA
323 GTGGCCAAAAATTGAGGAAAATTCTTTCGAGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTA
* * * * * *
42078 CTAACTATCGCGG-TTTAGACTAAAAACGCGTT-CTAGAGCCCCAGCTCAGTTTTGCACGATTTT
388 CTAACTATCACGGTTTTTGGCTAAAAACGCGTTCCGAG-GCCCCGGCTCAGTTTTGCATGATTTT
** * ** * * * *
42141 TGGCGCCAAGTCTCACTGAAATATCTATATCCATCTAACCAAACCTTACCCACATTGGATTTAAG
452 TGGCGCCAAAACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAAG
* * * ** * * * *
42206 GATTTGTTTTTACGAGCGTATGAATCATGTTTCGATTCAATCAGGAATTAATTCGGAAAAAATAT
517 GATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGG-AAAAATAG
* * *
42271 G--AAAAACGATATTAGAAGCGTGA-ATAGCCATTCAATCTTTTTGGTGTTGAATTATATATTTT
581 GAAAAAAACAATATTAGAAGCGTGAGA-AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTT
* * * **
42333 TTATGATTATTGTAGCAAAAA
645 TTATGAATATAGTGGCCGAAA
* * * ** *
42354 ATTAAGGAAAAT-TATTTCGATTCAATTTTTACAAAATTTTAGCTGAAATCGGTGA-ACTAACCA
1 ATTGAGGAGAATCT-TCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATC-GT-ATACTAACCA
* * * * ** * * *
42417 TCATGGTTTTTGGCTAAAAACGCGTTCCGGGGCTTCGACTCTGTTTTGCATG-TTTTTCGGCGCC
63 TCACGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTT-GGCGCC
* ** * * * * * *
42481 AAGACTCATTGAAATATCTATATTTATCTAACGAAATCTCAACCACATTGGATTTATGGTTTTGG
127 AAGTCTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGT
* * * * * *
42546 TTTTACGTGTATCTCAATC-CGATTTC-GATCTAATT-AGAAATTAATTCGGAAAAAATAGAAAA
192 TTTTACGAGCATATGAATCATG-TTTCGGTTC-AATTAAG-AATTAATTCGGAAAAAATAG----
* ** * * * * * *
42608 CAAAAAAATAATATTAGAAGCGAGAGA-AGCCCTTCAATCTCTTTGGTGTTGAATTATCTGTTTT
250 --GAAAAACGATATTAGAAGCGTGA-ATAGCCTTTCAATATTTTTGGTGTTGAATTATATATTTT
* * ** * * *
42672 TTATGATTATGGTGGCCGGAAATTAAGGAGAAA--CTTCTCGGGTCAATTTTTGCAAAATTTTAG
312 TTATGAGTATCGTGGCCAAAAATTGAGGA-AAATTCTT-TCGAGTCAATTTTTACAAAATTTTAG
* * * * *
42735 CTGAAATCGTGTACTAACCATCACGGTTTTTGACTAAAAACGCGTTCTG-GAGCCCTGGCTCAGT
375 CCGAAATCGTGTACTAACTATCACGGTTTTTGGCTAAAAACGCGTTCCGAG-GCCCCGGCTCAGT
* * ** * * *
42799 TTTGCATGATTTTTGGCGCCAAGTA-TGATTGAAATATCTATATCCATCTAACTAAATCTTACCC
439 TTTGCATGATTTTTGGCGCCAA-AACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCC
* * * **
42863 ACATTGGATTTAAGGATTTGCTTTTACGAGCATATGAATCATGTTTC-AGTTTAATTA-AGAATT
503 ACATTGGATTTAAGGATTTGTTTTTACGAGCATCTCAATCCGGTTTCGA-TTTAATTAGA-AATT
* * * ** * *
42926 ACTTCCGAAAAAATAGG--AAAAACGATATTTCAAGCGTGA-ATAGCCTTTCAATCTTTTTGGTG
566 AATT-CGGAAAAATAGGAAAAAAACAATATTAGAAGCGTGAGA-AGCCCTTCAATCTTTTTGGCG
* * * *
42988 TTGAATTATATATATTTTTATGAGTATCGTGTCCTAAA
629 TTGAATTATATAT-TTTTTATGAATATAGTGGCCGAAA
* * * * ** * * * *
43026 ATTGACGAAAACTCTT-TCTGTTCAATGTTTTTAAAAATTTTAGCCGGAATCGTGTACTAACTAT
1 ATTGAGGAGAA-TCTTCTCGGGTCAAT-TTTTGCAAAATTTTAGCTGAAATCGTATACTAACCAT
* * * * * * * ** *
43090 CACGGTTTTTGGCTAAAAACGCATTCCGGGGCACTGGTTCAGTTTTGCATTATTATTGGCGCCAA
64 CACGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAA
* ** * * ** * *
43155 GACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGTCACATTGGATTTAAAGA-TTCTTT
129 GTCTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTT
* * * * * * *
43219 TTACGAGCATCTTAATC-CGATTTCGATTTAATT-TGAAATTAATTCGG-AAAAATAGAAAAAA
194 TTACGAGCATATGAATCATG-TTTCGGTTCAATTAAG-AATTAATTCGGAAAAAATAGGAAAAA
43280 GAAATAGAAA
Statistics
Matches: 3634, Mismatches: 482, Indels: 233
0.84 0.11 0.05
Matches are distributed among these distances:
639 1 0.00
640 161 0.04
641 127 0.03
644 2 0.00
646 54 0.01
647 3 0.00
648 50 0.01
649 44 0.01
650 10 0.00
651 7 0.00
652 60 0.02
653 89 0.02
654 104 0.03
655 60 0.02
656 10 0.00
657 172 0.05
658 204 0.06
659 9 0.00
660 1 0.00
661 1 0.00
663 270 0.07
664 6 0.00
665 57 0.02
666 196 0.05
667 255 0.07
668 212 0.06
669 380 0.10
670 209 0.06
671 556 0.15
672 234 0.06
673 48 0.01
674 42 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (665 bp):
ATTGAGGAGAATCTTCTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTATACTAACCATCA
CGGTTTTTGACTAAAAACGCGTTCTGGAGCCCCGGCTCAGTTTTGCACGATTTTTGGCGCCAAGT
CTCATTGAAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTT
ACGAGCATATGAATCATGTTTCGGTTCAATTAAGAATTAATTCGGAAAAAATAGGAAAAACGATA
TTAGAAGCGTGAATAGCCTTTCAATATTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTG
GCCAAAAATTGAGGAAAATTCTTTCGAGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTA
ACTATCACGGTTTTTGGCTAAAAACGCGTTCCGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGC
GCCAAAACTCATTGAAATATCTATATTTATCTAACGAAATCTCAGCCACATTGGATTTAAGGATT
TGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAGGAAAA
AAACAATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGA
ATATAGTGGCCGAAA
Found at i:43299 original size:14 final size:13
Alignment explanation
Indices: 43266--43299 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
43256 ATTAATTCGG
43266 AAAAATAGAAAAA
1 AAAAATAGAAAAA
*
43279 AGAAATAGAAAAA
1 AAAAATAGAAAAA
43292 AAACAATA
1 AAA-AATA
43300 TTAGAAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAATAGAAAAA
Found at i:44851 original size:671 final size:662
Alignment explanation
Indices: 43563--44970 Score: 1878
Period size: 671 Copynumber: 2.1 Consensus size: 662
43553 TGGGAGGGAG
** * *
43563 TATTTTTTATGAATATGGTGGCCGAAAATTGAGGAGAAATTTTCTCGGGTCAACTTTTGCAAAAT
1 TATTTTTTATGAATATTATGGCCGGAAATTGAGGAGAAATCTTCTCGGGTCAACTTTTGCAAAAT
* * *
43628 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGACTAAAGACGCGTTTTAAAGCCCGACTC
66 TTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGACTAAAAACGCGTTTTAAAGCCCGACTC
*
43693 AGTTTTGCACGATTTTTGGTGTCAAGTCTCATTGAAATATCTATATCCATCTAACCAAACTTAAC
131 AGTTTTGCACGATTTTTGGTGCCAAGTCTCATTGAAATATCTATATCCATCTAACCAAACTTAAC
*
43758 CACATTGGATTTAAGGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGGAATTA
196 CACATTGGATTTAAGGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAAGAATTA
* *
43823 ATTCGGTAAAAAATAGAAAAAAACGATATTAGAAGCGTGAATAGCTTTTCATTCTTTTTGGTGTT
261 ATTCGG-AAAAAATAGAAAAAAACAATATTAGAAGCGTGAATAGCCTTTCATTCTTTTTGGTGTT
* *
43888 GAATTATATATTTTTTATGATTATCGTAGGCAAAAATTAAGGAAAATTATTTCGAGTCAATTTTT
325 GAATTATATATTTTTTATGAGTATCGTAGGCAAAAATTAAGGAAAACTATTTCGAGTCAATTTTT
* * **
43953 ACAAAATTTTAGCTGAAATCGGTGTACTAACCATCACGGTTTTTGGCTAAAAACGTGTTCCGGGG
390 ACAAAATTTTAGCCGAAATCGGTGAACTAACCATCACGGTTTTTGGCTAAAAACGCATTCCGGGG
*
44018 CTCCGACTCTATATTGCATGATTTTCGGCGCCAAGACTCATTGAAATATCTATATTTATCTAACG
455 CACCGACTCTATATTGCATGATTTTCGGCGCCAAGACTCATTGAAATATCTATATTTATCTAACG
* * *
44083 AAATCTCAACCACATTGGATTTATGGTTTTGTTTTTACGAGTATCTCAATCCGATTTCGATTTAA
520 AAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTCAATCCGATTTCGATTTAA
*
44148 TTAGAAATTAATTCGGAAAAAATAAGAAAAAAAACAATATTAGAAGCGAGAG-ATCCCCTTCAA-
585 TTAGAAATTAATTCGGAAAAAATAA-AAAAAAAACAACATTAGAAGCGAGAGAAT-CCCTTCAAT
*
44211 T-GTGTTGAATTATA
648 TGGCGTTGAATTATA
* ** *
44225 TATTCTTTATGAATATTATGGCCGGAAATTGAGGAGAAA-CTTCT-GGTGTCAGTTTTTGGAAAA
1 TATTTTTTATGAATATTATGGCCGGAAATTGAGGAGAAATCTTCTCGG-GTCAACTTTTGCAAAA
* * *
44288 TTTTTGCTGAAATCATGTACTAACCATCACGGTTTTCGACTAAAAACGC-TTTCTAAAGCCCCGG
65 TTTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGACTAAAAACGCGTTT-TAAAG-CCCGA
44352 CTCAGTTTTGCACGATTTTTGGTGCCAAGTCTCATTGAAATATCTATATCCATCTAACCAAATCT
128 CTCAGTTTTGCACGATTTTTGGTGCCAAGTCTCATTGAAATATCTATATCCATCTAACCAAA-CT
** * * * *
44417 TGCCCACATTGGCTCAGTTTTGCATGATTTAAGGATTTTT-GGCGCATATGAATCATGTTTCGAT
192 TAACCACATTGG---A--TTT-AAGGATTT---G-TTTTTACGAGCATATGAATCATGTTTCGAT
*
44481 TCAATTAAGAATTAATTCGG-AAAAATAG-GAAAAACAATATTAGAAGCGTGAATAGCCTTTCAA
247 TCAATTAAGAATTAATTCGGAAAAAATAGAAAAAAACAATATTAGAAGCGTGAATAGCCTTTC-A
* * * *
44544 TTTTTTTTTGTGTTGAATTATATATATTTTTATGAGTATCGT-GGCCAAAAATTGAGGAAAACTC
311 TTCTTTTTGGTGTTGAATTATATAT-TTTTTATGAGTATCGTAGG-CAAAAATTAAGGAAAACTA
* * *
44608 TTTCG-GATCAATTTTTACAAAATTTTAGCCGAAATC-GTGAACTAACTATCACAGTTTTTTTGC
374 TTTCGAG-TCAATTTTTACAAAATTTTAGCCGAAATCGGTGAACTAACCATCAC-GGTTTTTGGC
* * * * * *
44671 TAAAAACGCATTTCGGGGCACCGTCTC-AGTTTTGCATTATTTTTGGCGCCAAGACTCTTTGAAA
437 TAAAAACGCATTCCGGGGCACCGACTCTA-TATTGCATGATTTTCGGCGCCAAGACTCATTGAAA
* *
44735 TATCTATATTTATCTAACGAAATCTCAGCCGCATTGGATTTAAGGATTT-TTTTTACGAGCATCT
501 TATCTATATTTATCTAACGAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCT
44799 CAATCCGATTTCGATTTAATTAGAAATTAATTCGG-AAAAATAGGAAAAAAAAACAACATTAGAA
566 CAATCCGATTTCGATTTAATTAGAAATTAATTCGGAAAAAATA--AAAAAAAAACAACATTAGAA
* *
44863 GCGTGAGAATTCCTTCAATCTTTTTGGCGTTGAATTATA
629 GCGAGAGAATCCCTTCAA-----TTGGCGTTGAATTATA
* * * * * *
44902 TATTTTTTATAAATA-TAGTGGCTGGAAATTGAGGAGAAATATT-TTGGGTCAATTTTTCCAAAA
1 TATTTTTTATGAATATTA-TGGCCGGAAATTGAGGAGAAATCTTCTCGGGTCAACTTTTGCAAAA
44965 TTTTAG
65 TTTTAG
Statistics
Matches: 651, Mismatches: 62, Indels: 51
0.85 0.08 0.07
Matches are distributed among these distances:
660 5 0.01
661 66 0.10
662 100 0.15
663 12 0.02
666 1 0.00
668 3 0.00
669 43 0.07
670 130 0.20
671 173 0.27
672 42 0.06
673 5 0.01
676 3 0.00
677 64 0.10
678 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (662 bp):
TATTTTTTATGAATATTATGGCCGGAAATTGAGGAGAAATCTTCTCGGGTCAACTTTTGCAAAAT
TTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGACTAAAAACGCGTTTTAAAGCCCGACTC
AGTTTTGCACGATTTTTGGTGCCAAGTCTCATTGAAATATCTATATCCATCTAACCAAACTTAAC
CACATTGGATTTAAGGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAAGAATTA
ATTCGGAAAAAATAGAAAAAAACAATATTAGAAGCGTGAATAGCCTTTCATTCTTTTTGGTGTTG
AATTATATATTTTTTATGAGTATCGTAGGCAAAAATTAAGGAAAACTATTTCGAGTCAATTTTTA
CAAAATTTTAGCCGAAATCGGTGAACTAACCATCACGGTTTTTGGCTAAAAACGCATTCCGGGGC
ACCGACTCTATATTGCATGATTTTCGGCGCCAAGACTCATTGAAATATCTATATTTATCTAACGA
AATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTCAATCCGATTTCGATTTAAT
TAGAAATTAATTCGGAAAAAATAAAAAAAAAACAACATTAGAAGCGAGAGAATCCCTTCAATTGG
CGTTGAATTATA
Done.