Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014434.1 Corchorus capsularis cultivar CVL-1 contig14455, 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: 32885
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:568 original size:16 final size:15
Alignment explanation
Indices: 544--576 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
534 ATTCTGAAAA
544 TTTTCTCTCT-TTCT
1 TTTTCTCTCTCTTCT
558 TTTTCTCTCTCTTCT
1 TTTTCTCTCTCTTCT
573 TTTT
1 TTTT
577 TTTTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCTCTCTCTTCT
Found at i:2840 original size:63 final size:62
Alignment explanation
Indices: 2762--2887 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 62
2752 ATATTCGATC
*
2762 TAGTCATCTTTTCAATTTGGTTGAATCAGGGTTTAAGGTTCTAATTTCGACTCAATGAAGGG
1 TAGTCATCTTTTCAATTTGGTTGAATCAGGATTTAAGGTTCTAATTTCGACTCAATGAAGGG
2824 TAGTCATCGTTTTCAATTTGGTTGAATCAGGATTTAAGGTTCTAATTTCGACTCAATGAAGGG
1 TAGTCATC-TTTTCAATTTGGTTGAATCAGGATTTAAGGTTCTAATTTCGACTCAATGAAGGG
2887 T
1 T
2888 CTAACGGATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 8 0.13
63 54 0.87
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (62 bp):
TAGTCATCTTTTCAATTTGGTTGAATCAGGATTTAAGGTTCTAATTTCGACTCAATGAAGGG
Found at i:3689 original size:16 final size:18
Alignment explanation
Indices: 3653--3689 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
3643 AATTGCTCCG
*
3653 AAAACAACCCAATTCCAT
1 AAAACAACCAAATTCCAT
3671 AAAA-AACCAAATTCC-T
1 AAAACAACCAAATTCCAT
3687 AAA
1 AAA
3690 TATAACACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 10 0.56
18 4 0.22
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAACAACCAAATTCCAT
Found at i:6795 original size:26 final size:27
Alignment explanation
Indices: 6744--6799 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6734 ACTAATAATC
**
6744 AAATTTGAATGTGCTTTTTCCATCAAA
1 AAATTTGAATGTGCTTTTAACATCAAA
6771 AAATTTGAATGTG-TTTTAA-ACTCAAA
1 AAATTTGAATGTGCTTTTAACA-TCAAA
6797 AAA
1 AAA
6800 AAAAATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.04
26 12 0.46
27 13 0.50
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (27 bp):
AAATTTGAATGTGCTTTTAACATCAAA
Found at i:9207 original size:29 final size:29
Alignment explanation
Indices: 9175--9243 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
9165 CTTTTGTGCG
* * *
9175 CATGGCATGCCACGTGTCGCTTTTTGGTA
1 CATGGCATGCCACGTATCACTTTTTGATA
9204 CATGTGGCATGCCACGTATCACTTTTTGATA
1 CA--TGGCATGCCACGTATCACTTTTTGATA
*
9235 CATGACATG
1 CATGGCATG
9244 TCACTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 8 0.24
31 26 0.76
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (29 bp):
CATGGCATGCCACGTATCACTTTTTGATA
Found at i:9215 original size:31 final size:31
Alignment explanation
Indices: 9177--9238 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9167 TTTGTGCGCA
* * *
9177 TGGCATGCCACGTGTCGCTTTTTGGTACATG
1 TGGCATGCCACGTATCACTTTTTGATACATG
9208 TGGCATGCCACGTATCACTTTTTGATACATG
1 TGGCATGCCACGTATCACTTTTTGATACATG
9239 ACATGTCACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (31 bp):
TGGCATGCCACGTATCACTTTTTGATACATG
Found at i:16075 original size:2 final size:2
Alignment explanation
Indices: 16068--16096 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16058 GCGTTTTCAT
16068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16097 TTTTCAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21193 original size:2 final size:2
Alignment explanation
Indices: 21188--21268 Score: 144
Period size: 2 Copynumber: 40.5 Consensus size: 2
21178 TATATATATA
21188 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
21230 CG TG TG TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
21269 ATCCTTTTGA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.00, C:0.02, G:0.49, T:0.48
Consensus pattern (2 bp):
TG
Found at i:23528 original size:16 final size:16
Alignment explanation
Indices: 23507--23538 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23497 GCCCAACGTT
*
23507 ACATCATATAGATTTA
1 ACATCATATAAATTTA
23523 ACATCATATAAATTTA
1 ACATCATATAAATTTA
23539 GGCCCAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (16 bp):
ACATCATATAAATTTA
Found at i:23541 original size:43 final size:44
Alignment explanation
Indices: 23480--23613 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 44
23470 CTTCTGCGTT
* *
23480 ACATCATATAGACTTAGGCCCAACGTTACATCATATAGATTTA-
1 ACATCATATAAATTTAGGCCCAACGTTACATCATATAGATTTAC
* * *
23523 ACATCATATAAATTTAGGCCCAGA-GTTCCATCATATAGGCTTAGACCC
1 ACATCATATAAATTTAGGCCCA-ACGTTACATCATATA-GATT-TA--C
* * * *
23571 ACATCATATACATTTAGGTCTAGCGTTACATCATATAGATTTA
1 ACATCATATAAATTTAGGCCCAACGTTACATCATATAGATTTA
23614 GGTTCAGCGT
Statistics
Matches: 72, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
43 32 0.44
44 4 0.06
45 1 0.01
46 1 0.01
47 3 0.04
48 31 0.43
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (44 bp):
ACATCATATAAATTTAGGCCCAACGTTACATCATATAGATTTAC
Found at i:23663 original size:27 final size:29
Alignment explanation
Indices: 23628--23697 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
23618 CAGCGTCCAG
*
23628 CATTGCATCATATAGA-T-TTA-GCTCCAA
1 CATTACATCATATAGAGTCTTAGGC-CCAA
* *
23655 CGTTACATCATATATAGTCTTAGGCCCAA
1 CATTACATCATATAGAGTCTTAGGCCCAA
23684 CATTACATCATATA
1 CATTACATCATATA
23698 TATCATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.36
28 1 0.03
29 20 0.56
30 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (29 bp):
CATTACATCATATAGAGTCTTAGGCCCAA
Found at i:23907 original size:30 final size:31
Alignment explanation
Indices: 23868--23940 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 31
23858 AATTCGAGCC
*
23868 GAGCTCGAGCTCGAGCTACTCGAGTAGTC-GA
1 GAGC-CGAGCTCGAGCTACTCAAGTAGTCAGA
* *
23899 GAGCCGAGCTCGAGCTGCTCAAGTAGTCAAGT
1 GAGCCGAGCTCGAGCTACTCAAGTAGTC-AGA
23931 GAGCCGAGCT
1 GAGCCGAGCT
23941 TGAGAGGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.59
31 4 0.11
32 11 0.30
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (31 bp):
GAGCCGAGCTCGAGCTACTCAAGTAGTCAGA
Found at i:24818 original size:27 final size:27
Alignment explanation
Indices: 24757--24851 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
24747 TTTTGCCAAA
*
24757 ACATCATATAGATTTAAGCCC-A-GTT
1 ACATCATATAAATTTAAGCCCAACGTT
*
24782 ACATCATATAAATTTAAACCCAACGTT
1 ACATCATATAAATTTAAGCCCAACGTT
* * * *
24809 ACATCGTAT-AGTCTTAGGTCCAACGTT
1 ACATCATATAAAT-TTAAGCCCAACGTT
*
24836 ACATCGTATAAATTTA
1 ACATCATATAAATTTA
24852 GGCACATTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 19 0.33
26 3 0.05
27 34 0.59
28 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (27 bp):
ACATCATATAAATTTAAGCCCAACGTT
Found at i:25774 original size:329 final size:327
Alignment explanation
Indices: 24959--25896 Score: 1093
Period size: 329 Copynumber: 2.9 Consensus size: 327
24949 ATGTTTCGTG
* * *
24959 CCAAAACTCATTGAAATATTTATATTTATCTAACCAAATCTTAGCCACATTGGATTTAAGAATTT
1 CCAAAACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTT
* * * * * * *
25024 GTTTTTATGAGTATCTA-AATCATGTTTCGATTTAATAAGAAATTAA-TTAAAAAAAAGGAAAA-
66 GTTTTTACGAGCATC-AGAATCTTGTTTTGATTTTATTAGAAATTAATTTAAAAAATAGGAAAAC
* * * * ** *
25086 AAAATTAGAAGTGTGAAAAGTCCTTCAAAATTATTGGCATTGAATTATATATTTTTTACGAGTAT
130 GATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAGTAT
* * * * * *
25151 TGTTGCCGAAAATTGAGGAAAAAAAATATCAGGTTAGTTTTTGCAAAATTTTAGCCAAAATC-TT
195 TGAT-CCAAAAATTGAGG-AAAAAATTTTCAGGTCAGTTTTTGCAAAATTTTAGCCGAAATCTTT
** * ***
25215 A-T-ACCATCACAGTTTTT-AGCTAAAAATGCGCTCCGGGCCCCGGCTCAGTTTTGAATAATATT
258 ACTAACCATCACAGTTTTTGA-CTAAAAAAACGCTCCGAGCCAAAGCTCAGTTTTGAATAATATT
*
25277 TTTGCA
322 TTGGCA
* * **
25283 CCAATATTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGGTTT
1 CCAAAACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTT
* * *
25348 ATTTTTACGAGCATCAGAAATCTTATTTTGATTTTATTAGAAATTAATTCACAAAAAATAGGAAA
66 GTTTTTACGAGCATCAG-AATCTTGTTTTGATTTTATTAGAAATTAATT--TAAAAAATAGG-AA
* * *
25413 AACGATATTAGAAGCGTGAAAAGCCTTTCAATCTTTTTGGCATTAAATTATATATTTTTTATGAG
127 AACGATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAG
* * * ** * *
25478 TATTGCGTCAAAAAATTGAGGAAAATATTTTTGGGTCAGTTTTCGGAAAATTTTAGCCGAAATCT
192 TATTG-ATCCAAAAATTGAGGAAAAAATTTTCAGGTCAGTTTTTGCAAAATTTTAGCCGAAATCT
* * * *
25543 TGTACTAACCATCACAGTTTTTGACTAAAAAAACGTTCC-AGCCAAAAGCTTAGTTTTGCATGAT
256 T-TACTAACCATCACAGTTTTTGACTAAAAAAACGCTCCGAGCC-AAAGCTCAGTTTTGAATAAT
*
25607 -TTTTGGCT
319 ATTTTGGCA
* * * * *
25615 CCAAGACTCGTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACATTGGATCTAAAAATTT
1 CCAAAACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTT
25680 GTTTTTACGAGCATCAGAATCTTGTTTTGATTTTATTAGAAATTAATTTAAAAAATAGGAAAGAC
66 GTTTTTACGAGCATCAGAATCTTGTTTTGATTTTATTAGAAATTAATTTAAAAAATAGGAAA-AC
* *
25745 GATATTAGAAGCATGAAAAGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTACAAGTAT
130 GATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAGTAT
* * * *
25810 TGTATCCAAAAATTGAGGAAAAAATTTTCAGGCCAGTTTTTGCAAAATTTTAACTGAAAACGTTT
195 TG-ATCCAAAAATTGAGGAAAAAATTTTCAGGTCAGTTTTTGCAAAATTTTAGCCGAAATC-TTT
* * *
25875 ACCAACCATCAGAGTATTTGAC
258 ACTAACCATCACAGTTTTTGAC
25897 GAGGCTCCCT
Statistics
Matches: 516, Mismatches: 82, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
323 1 0.00
324 70 0.14
325 24 0.05
326 1 0.00
328 12 0.02
329 179 0.35
330 71 0.14
331 33 0.06
332 83 0.16
333 41 0.08
334 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (327 bp):
CCAAAACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTT
GTTTTTACGAGCATCAGAATCTTGTTTTGATTTTATTAGAAATTAATTTAAAAAATAGGAAAACG
ATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAGTATT
GATCCAAAAATTGAGGAAAAAATTTTCAGGTCAGTTTTTGCAAAATTTTAGCCGAAATCTTTACT
AACCATCACAGTTTTTGACTAAAAAAACGCTCCGAGCCAAAGCTCAGTTTTGAATAATATTTTGG
CA
Found at i:29612 original size:24 final size:24
Alignment explanation
Indices: 29539--29618 Score: 106
Period size: 24 Copynumber: 3.2 Consensus size: 24
29529 CCAATAGAAT
* *
29539 AATTATAAAATTTGATTGGAAGTAGAA
1 AATTATAAAATTTG---GGAACTATAA
29566 TAATTATAAAATTTGGGAACTATAA
1 -AATTATAAAATTTGGGAACTATAA
29591 AATTATAAAATTTGGGAACTATAA
1 AATTATAAAATTTGGGAACTATAA
29615 AATT
1 AATT
29619 GAAACAGTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
24 28 0.56
25 8 0.16
28 14 0.28
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (24 bp):
AATTATAAAATTTGGGAACTATAA
Found at i:29669 original size:12 final size:12
Alignment explanation
Indices: 29652--29677 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29642 TAATGTAAAG
29652 TTTGGATAAAAA
1 TTTGGATAAAAA
29664 TTTGGATAAAAA
1 TTTGGATAAAAA
29676 TT
1 TT
29678 GGAAGAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (12 bp):
TTTGGATAAAAA
Found at i:31452 original size:333 final size:331
Alignment explanation
Indices: 29968--32885 Score: 3453
Period size: 330 Copynumber: 8.8 Consensus size: 331
29958 TATATATTAT
* * * * ** * **
29968 GAGTATTGTGCCAAAAAATTGAGGAAAAAATTTTCGGGTCAATTTTTG-AGGA--GTAGTTGAAA
1 GAGTATTGTGTCAAAAAATTGAGGAAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAAA
* * * *
30030 TCGTGTACTAACACTATCACAGTTTTTGGTTAAAAACGCGTTCCGGGCCTCGGCTCAGTTTTGCA
66 TCGTGTACTAAC-C-ATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCA
* * * *
30095 TGATTTTTGGCGCGAAGACTCATTGAAATAT-TTATATTCATCTTACCAAATCTCAGTGACATTG
129 TGATTTTTGGCACCAAGACTCATTGAAATATCTT-TATTCATCTAACCAAATCTCAGTCACATTG
* * ** * * * ** *
30159 GATCTAAGGATTTGTTTTTACGAGCATCAGGTTCTTGTTTCGATTTTATTAGATTTTAATTCA-A
193 GATTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGA
* * * * * * *
30223 AAAATTAGAAAAAATGATATTAGAAGCGTGAAAAGCCCTTCAATCATTT-TTGTATTCAATTATA
258 AAAAATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAAT-GTTTCTGGCATTCAATTATA
**
30287 TTTTTTTTAC
322 TACTTTTTAC
* * * *
30297 GAGTATTGTGTCCAAAAATTGTGGAAAAAATTTTAGGGTCAGTTTTCGCGAAATTTTAGCCGAAA
1 GAGTATTGTGTCAAAAAATTGAGGAAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAAA
* * * *** *
30362 TCGTGCACTAAATAACCATCACAGTATTTGGCTAAAAACGCGTTCCGGGCAAAGACTCAGTTTTG
66 TCGTG---T-ACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTG
* * * *
30427 CAT-ATTTTTGGCTCCAAGACTCATTGAAATATCTATATTCATCTAATCAAATCTCAGGCACATT
127 CATGATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCAAATCTCAGTCACATT
* * * * * * *
30491 GGATTTAAGGATTTGATTTTACGAGCATCAAAATCTTGTCTTAATTTTAATAAAAATTAATTCAG
192 GGATTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAG
* * * * * * *
30556 AAGAAATAGGAAAAATGATTTAAGATGCGTGAAAAGCCATTCAATCTTTTTGGCATTCAATTATA
257 AAAAAATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATA
*
30621 TA-TTTTTAAT
322 TACTTTTT-AC
* * *
30631 GAGTATTGTGTCCAAAAATTGAGGAAAAAATTTTCGGGCCAGTTTTCGCAAAATTTTAGCCGAAA
1 GAGTATTGTGTCAAAAAATTGAGGAAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAAA
* * *** * *
30696 TCGTGTACTAACCATCATAGTATTCGGCTAAAAACGCGTTCCGGGCAAAAGGCTTATTTTTGCAT
66 TCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGC-TTTGGCTCAGTTTTGCAT
* * * *
30761 GAATTTTGGCGCCAAGACTCATTGAAATATCTATATTCATCT-ATCATAATCTCAGTCACATTGG
130 GATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCA-AATCTCAGTCACATTGG
* * * * * * * *
30825 ATCTAAGAATTTGTTTTTACGAGCATCGGAATCTTGCTTTGATTTTATTAGAAATTAATTCA-AA
194 ATTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAA
* * * * * * *
30889 AAAATATGAAAGACGATATTAGATGCGTGAAAAACCCTTCAATGTTTTTGGCATTGAATTATATA
259 AAAATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATA
*
30954 TTTTTTTAC
324 -CTTTTTAC
* * * * *
30963 GAGTATCGTGTCCAACAATTGAGAAAAAAAAATTTCT-GG-C-GTTTTCGCAAAATTTTAGCCGA
1 GAGTATTGTGTCAAAAAATTGAG--GAAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGA
* *
31025 AATCGTGTACTAATCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGACTCAGTTTTGCA
64 AATCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCA
* * * *
31090 TGATTTTTGACACCAAGACTCATTGAAATATCTTTATTTATCTAACCAAATCTCAGCCACTTTGG
129 TGATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCAAATCTCAGTCACATTGG
*
31155 ATTTAAGGATTTGCTTTTACGAGTATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAA
194 ATTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAA
* *
31220 AAAATAGGAAAAACGATTTTAGAAACGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTAAATA
259 AAAATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATA
31285 CTTTTTAC
324 CTTTTTAC
* *
31293 GAGTATTGTGTCAAAAAATTGA-GAAAAAATTTTTTTGGGTAAGTTTTCGGAAAATTTTAGCCGA
1 GAGTATTGTGTCAAAAAATTGAGGAAAAAA--TTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGA
*
31357 AATCGTGTACTAACCCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGACTCAGTTTTGC
64 AATCGTGTACTAA-CCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGC
** * * *
31422 ATGATTTTTAACACCAAGACTCATTGAAATATCTTTATTTATCTAACCAAATCTCAGCCACTTTG
128 ATGATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCAAATCTCAGTCACATTG
31487 GATTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGA-TTTAATAG-AA-T-ATTAAG-
193 GATTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGA
*
31547 AAAAATAGGAAAAGACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTTGCATTCAATTATA
258 AAAAATAGGAAAA-ACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATA
31612 TACTTTTTAC
322 TACTTTTTAC
* * *
31622 GAGTATTGTGTC-CAAAATTGAGGAAAAAATTTTTTGGGTAAGTTTTCGGAAAATTTTAGCCGAA
1 GAGTATTGTGTCAAAAAATTGAGGAAAAAA-TTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAA
* *
31686 ATCGTGTACTAATCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGTTTTGGCTCAGTTTTGCAT
65 ATCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCAT
* * *
31751 GATTTTTGACACCAAGACTCATTGAAATATCTTTATTTATCTAACCAAATCTCAGTCACTTTGGA
130 GATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCAAATCTCAGTCACATTGGA
31816 TTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAG-AA
195 TTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAA
* * *
31880 AAATAGGGAAAACGATTTTAGAAGCGTGAACAGCCCTTTAATGTTTCTGGCATTCAATTATATAC
260 AAATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATAC
31945 TTTTTAC
325 TTTTTAC
* * *
31952 GAGTATTGTGTCAAAAAATTGAGGAAAAATTTTTTCGGTCATTTTTCGCAAAATTTTAGCCGAAA
1 GAGTATTGTGTCAAAAAATTGAGGAAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAAA
*
32017 TC--G---T---CATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTAAGTTTTGCATG
66 TCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCATG
** * * * *
32074 ATTTTTTACACCAAGACTCATTGAAATATCATTATTTATCTAACCAAATCTCAGCCACTTTGGAT
131 ATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCAAATCTCAGTCACATTGGAT
32139 TTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAA
196 TTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAA
** *
32204 AATATTAAAAACGATTTTAAAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATACT
261 AATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATACT
32269 TTTTAC
326 TTTTAC
* *
32275 GAGTATTGTGTCAAAAAATTGAGGAAAAAAATTTTTGGGTCAGTTTTCGGAAAACTTTAGCCGAA
1 GAGTATTGTGTCAAAAAATTGAGG-AAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAA
* * * ** * *** * *
32340 AT--TGT-GT-ACCATCACAGTTTTTGGCTAAAAAGGAATTCCGGACAAAGGCTTAGTTTTGCGT
65 ATCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCAT
* * * *
32401 GATTTTAGGCGCCAATACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGTCACATTGGA
130 GATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCAAATCTCAGTCACATTGGA
* * * * * ** *
32466 TCTAAGAATTTGTTTTTACGAGAATCAGAATTTTGTTTTGATTTTTTTAGAAATTAATTCAGAAA
195 TTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAA
* * * * * *
32531 AAATAGGAAAAACAATATTATAAGCGTGAAAATCCCTTCAATGTTTTTGGCATTGAATTATATAT
260 AAATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGC-----A-T-T-CA-
*
32596 ATATATATATATATATATTAC
316 AT-TATATA-CT-T-T-TTAC
* * * ** *
32617 GAGTATTGTGCCTAAAAATTGAGGAAAAAAATTCCGGGTCAGTTTTCACAAAATTTTAGCCGAAA
1 GAGTATTGTGTCAAAAAATTGAGGAAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAAA
* * *
32682 TCGTGTACTAACCATCACA--TTTTGGCTAAAAACGCGTTCCGGGCCTCGGCTCAGTTTTGCATG
66 TCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCATG
** * * *
32745 ATTTTTGGGGCGAAGACTCATTGAAATATCTATATTCATCTTAA-CAAATCTTAGTCACATTGGA
131 ATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATC-TAACCAAATCTCAGTCACATTGGA
* * * * * * * * **
32809 TCTAAGGATTTGTTTTTACAAGCATCAAAATCTTATTTCGATTTTATTAGATTTTAATTCAA-AA
195 TTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATT-AAGAA
*
32873 AAATTAGGAAAAA
259 AAAATAGGAAAAA
Statistics
Matches: 2287, Mismatches: 242, Indels: 106
0.87 0.09 0.04
Matches are distributed among these distances:
322 174 0.08
323 92 0.04
324 38 0.02
325 1 0.00
326 1 0.00
327 160 0.07
328 275 0.12
329 131 0.06
330 288 0.13
331 240 0.10
332 184 0.08
333 276 0.12
334 175 0.08
335 3 0.00
336 6 0.00
337 2 0.00
338 6 0.00
339 1 0.00
340 1 0.00
341 37 0.02
342 26 0.01
343 156 0.07
344 5 0.00
345 9 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (331 bp):
GAGTATTGTGTCAAAAAATTGAGGAAAAAATTTTTGGGTCAGTTTTCGCAAAATTTTAGCCGAAA
TCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCATG
ATTTTTGGCACCAAGACTCATTGAAATATCTTTATTCATCTAACCAAATCTCAGTCACATTGGAT
TTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAA
AATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATACT
TTTTAC
Found at i:32236 original size:982 final size:980
Alignment explanation
Indices: 30045--32885 Score: 3590
Period size: 982 Copynumber: 2.9 Consensus size: 980
30035 TACTAACACT
* * * * * * *
30045 ATCACAGTTTTTGGTTAAAAACGCGTTCCGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGCGA
1 ATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCATGATTTTTGACACCA
* ** * * *
30110 AGACTCATTGAAATAT-TTATATTCATCTTACCAAATCTCAGTGACATTGGATCTAAGGATTTGT
66 AGACTCATTGAAATATCTTAT-TT-ATCTAACCAAATCTCAGCCACTTTGGATTTAAGGATTTGC
** * * * ** * * *
30174 TTTTACGAGCATCAGGTTCTTGTTTCGATTTTATTAGATTTTAATTCA-AAAAATTAGAAAAAAT
129 TTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAAAATAGAAAAAAC
* * * * * **
30238 GATATTAGAAGCGTGAAAAGCCCTTCAATCATTT-TTGTATTCAATTATATTTTTTTTACGAGTA
194 GATTTTAAAAGCGTGAAAAGCCCTTCAAT-GTTTCTGGCATTCAATTATATACTTTTTACGAGTA
* * *
30302 TTGTGTCCAAAAATTGTGGAAAAAATTTTAGGGTCAGTTTTCGCG-AAATTTTAGCCGAAATCGT
258 TTGTGTCAAAAAATTG-AGAAAAAATTTTTGGGTCAGTTTTCG-GAAAATTTTAGCCGAAATCGT
* *
30366 GCACTAAATAACCATCACAGTATTTGGCTAAAAACGCGTTCCGGGCAAAGACTCAGTTTTGCAT-
321 G---T-ACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCAAAGACTCAGTTTTGCATG
* * * *
30430 ATTTTTGGCTCCAAGACTCATTGAAATATCTATATTCATCTAATCAAATCTCAGGCACATTGGAT
382 ATTTTTAGCACCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGAT
* * * * *
30495 TTAAGGATTTGATTTTACGAGCATCAAAATCTTGTCTTAATTTTAATAAAAATTAATTCAGAAGA
447 TTAAGGATTTGATTTTACGAGCATCAGAATATTGTTTTGATTTTAAT-AGAATTAATTCAGAA-A
* * * * *
30560 AATAGGAAAAATGATTTAAGATGCGTGAAAAGCCATTCAATCTTT-TTGGCATTCAATTATATAT
510 AATAGGAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTT-GCATTCAATTATATAT
* *
30624 TTTTAATGAGTATTGTGTCCAAAAATTGAGGAAAAAATTTTCGGGCCAGTTTTCGCAAAATTTTA
574 TTTT-ACGAGTATTGTGTCCAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTCGCAAAATTTTA
* * * * *
30689 GCCGAAATCGTGTACTAACCATCATAGTATTCGGCTAAAAACGCGTTCCGGGCAAAAGGCTTATT
638 GCCGAAATCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGG-AATAGGCTCAGT
* *
30754 TTTGCATGAATTTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTATCATAATCTCAGTCA
702 TTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTAACA-AATCTCAGTCA
* * *
30819 CATTGGATCTAAGAATTTGTTTTTACGAGCATCGGAATCTTGCTTTGATTTTATTAGAAATTAAT
766 CATTGGATCTAAGGATTTGTTTTTACGAGCATCAGAATCTTGTTTTGATTTTATTAGAAATTAAT
* * * *
30884 TCAAAAAAATA-TGAAAGACGATATTAGATGCGTGAAAAACCCTTCAATGTTTTTGGCATTGAAT
831 TCAAAAAAATAGGGAAA-ACGATATTAGAAGCGTGAAAAACCCTTCAATGTTTCTGGCATTCAAT
* * *
30948 TATATATTTTTTTACGAGTATCGTGTCCAACAATTGAGAAAAAAAAATTTCTGGCGTTTTCGCAA
895 TATATATCTTTTTACGAGTATCGTGTCAAAAAATTGAGAAAAAAAAATTTCTGGCGTTTTCGCAA
31013 AATTTTAGCCGAAATCGTGTACTAATC
960 AATTTTAGCCGAAATCG-G-----ATC
*
31040 ATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGACTCAGTTTTGCATGATTTTTGACACCA
1 ATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCATGATTTTTGACACCA
31105 AGACTCATTGAAATATCTTTATTTATCTAACCAAATCTCAGCCACTTTGGATTTAAGGATTTGCT
66 AGACTCATTGAAATATC-TTATTTATCTAACCAAATCTCAGCCACTTTGGATTTAAGGATTTGCT
* *
31170 TTTACGAGTATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAAAATAGGAAAAACG
130 TTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAAAATAGAAAAAACG
*
31235 ATTTTAGAAA-CGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTAAATACTTTTTACGAGTAT
195 ATTTTA-AAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATACTTTTTACGAGTAT
*
31299 TGTGTCAAAAAATTGAGAAAAAATTTTTTTGGGTAAGTTTTCGGAAAATTTTAGCCGAAATCGTG
259 TGTGTCAAAAAATTGAGAAAAAA--TTTTTGGGTCAGTTTTCGGAAAATTTTAGCCGAAATCGTG
* ***
31364 TACTAACCCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGACTCAGTTTTGCATGATTT
322 TACTAA-CCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCAAAGACTCAGTTTTGCATGATTT
* * * *
31429 TTAACACCAAGACTCATTGAAATATCTTTATTTATCTAACCAAATCTCAGCCACTTTGGATTTAA
386 TTAGCACCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAA
* *
31494 GGATTTGCTTTTACGAGCATCAGAATATTGTTTTGA-TTTAATAGAA-T-ATTAAGAAAAATAGG
451 GGATTTGATTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAATTAATTCAGAAAAATAGG
31556 AAAAGACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTTGCATTCAATTATATACTTTTTA
516 AAAA-ACGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTTGCATTCAATTATATA-TTTTTA
* * *
31621 CGAGTATTGTGTCC-AAAATTGAGGAAAAAATTTTTTGGGTAAGTTTTCGGAAAATTTTAGCCGA
579 CGAGTATTGTGTCCAAAAATTGAGGAAAAAA-TTTTCGGGTCAGTTTTCGCAAAATTTTAGCCGA
* ** *
31685 AATCGTGTACTAATCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGTTTTGGCTCAGTTTTGCA
643 AATCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGAATAGGCTCAGTTTTGCA
* * * * *
31750 TGATTTTTGACACCAAGACTCATTGAAATATCTTTATTTATCTAACCAAATCTCAGTCACTTTGG
708 TGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTAA-CAAATCTCAGTCACATTGG
* * * *
31815 ATTTAAGGATTTGCTTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATT-AAGA
772 ATCTAAGGATTTGTTTTTACGAGCATCAGAATCTTGTTTTGATTTTATTAGAAATTAATTCAA-A
* * * *
31879 AAAATAGGGAAAACGATTTTAGAAGCGTGAACAGCCCTTTAATGTTTCTGGCATTCAATTATATA
836 AAAATAGGGAAAACGATATTAGAAGCGTGAAAAACCCTTCAATGTTTCTGGCATTCAATTATATA
* * *** *
31944 -CTTTTTACGAGTATTGTGTCAAAAAATTGAGGAAAAATTTTTTC-GGTCATTTTTCGCAAAATT
901 TCTTTTTACGAGTATCGTGTCAAAAAATTGAGAAAAAAAAATTTCTGG-C-GTTTTCGCAAAATT
32007 TTAGCCGAAATC-G-TC
964 TTAGCCGAAATCGGATC
* *
32022 ATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTAAGTTTTGCATGATTTTTTACACCA
1 ATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCATGATTTTTGACACCA
32087 AGACTCATTGAAATATCATTATTTATCTAACCAAATCTCAGCCACTTTGGATTTAAGGATTTGCT
66 AGACTCATTGAAATATC-TTATTTATCTAACCAAATCTCAGCCACTTTGGATTTAAGGATTTGCT
**
32152 TTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAAAATATTAAAAACG
130 TTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAAAATAGAAAAAACG
32217 ATTTTAAAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATACTTTTTACGAGTATT
195 ATTTTAAAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATACTTTTTACGAGTATT
*
32282 GTGTCAAAAAATTGAGGAAAAAAATTTTTGGGTCAGTTTTCGGAAAACTTTAGCCGAAAT--TGT
260 GTGTCAAAAAATTGA-G-AAAAAATTTTTGGGTCAGTTTTCGGAAAATTTTAGCCGAAATCGTGT
* * ** * * * *
32345 -GT-ACCATCACAGTTTTTGGCTAAAAAGGAATTCCGGACAAAGGCTTAGTTTTGCGTGA-TTTT
323 ACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCAAAGACTCAGTTTTGCATGATTTTT
* * * *
32407 AGGCGCCAATACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGTCACATTGGATCTAAG
388 A-GCACCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAG
* * * * **
32472 AATTTGTTTTTACGAGAATCAGAATTTTGTTTTGATTTTTTTAGAAATTAATTCAGAAAAAATAG
452 GATTTGATTTTACGAGCATCAGAATATTGTTTTGATTTTAATAG-AATTAATTCAG-AAAAATAG
* * * * * *
32537 GAAAAACAATATTATAAGCGTGAAAATCCCTTCAATGTTTTTGGCATTGAATTATATATATATAT
515 GAAAAACGATTTTAGAAGCGTGAAAAGCCCTTCAATG--TTT--C-TTG---CAT-T-CA-AT-T
* * *
32602 ATATATATATATTACGAGTATTGTG-CCTAAAAATTGAGGAAAAAAATTCCGGGTCAGTTTTCAC
568 ATATAT-T-T-TTACGAGTATTGTGTCC-AAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTCGC
* ** *
32666 AAAATTTTAGCCGAAATCGTGTACTAACCATCACA--TTTTGGCTAAAAACGCGTTCCGGGCCTC
629 AAAATTTTAGCCGAAATCGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGAATA
* *
32729 GGCTCAGTTTTGCATGATTTTTGGGGCGAAGACTCATTGAAATATCTATATTCATCTTAACAAAT
694 GGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTATATTCATC-TAACAAAT
* * * * *
32794 CTTAGTCACATTGGATCTAAGGATTTGTTTTTACAAGCATCAAAATCTTATTTCGATTTTATTAG
758 CTCAGTCACATTGGATCTAAGGATTTGTTTTTACGAGCATCAGAATCTTGTTTTGATTTTATTAG
** *
32859 ATTTTAATTCAAAAAAATTAGGAAAAA
823 AAATTAATTCAAAAAAA-TAGGGAAAA
Statistics
Matches: 1616, Mismatches: 182, Indels: 97
0.85 0.10 0.05
Matches are distributed among these distances:
976 5 0.00
977 130 0.08
978 7 0.00
979 3 0.00
980 4 0.00
981 36 0.02
982 312 0.19
983 4 0.00
984 6 0.00
985 1 0.00
986 3 0.00
988 3 0.00
989 41 0.03
990 226 0.14
991 146 0.09
992 11 0.01
993 161 0.10
994 71 0.04
995 308 0.19
996 96 0.06
997 42 0.03
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (980 bp):
ATCATAGTTTTTGGCTAAAAACGCGTTCCGGGCTTTGGCTCAGTTTTGCATGATTTTTGACACCA
AGACTCATTGAAATATCTTATTTATCTAACCAAATCTCAGCCACTTTGGATTTAAGGATTTGCTT
TTACGAGCATCAGAATATTGTTTTGATTTTAATAGAAATTAATTAAGAAAAAATAGAAAAAACGA
TTTTAAAAGCGTGAAAAGCCCTTCAATGTTTCTGGCATTCAATTATATACTTTTTACGAGTATTG
TGTCAAAAAATTGAGAAAAAATTTTTGGGTCAGTTTTCGGAAAATTTTAGCCGAAATCGTGTACT
AACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCAAAGACTCAGTTTTGCATGATTTTTAGC
ACCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
TGATTTTACGAGCATCAGAATATTGTTTTGATTTTAATAGAATTAATTCAGAAAAATAGGAAAAA
CGATTTTAGAAGCGTGAAAAGCCCTTCAATGTTTCTTGCATTCAATTATATATTTTTACGAGTAT
TGTGTCCAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTCGCAAAATTTTAGCCGAAATCGTGT
ACTAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGAATAGGCTCAGTTTTGCATGATTTTT
GGCGCCAAGACTCATTGAAATATCTATATTCATCTAACAAATCTCAGTCACATTGGATCTAAGGA
TTTGTTTTTACGAGCATCAGAATCTTGTTTTGATTTTATTAGAAATTAATTCAAAAAAATAGGGA
AAACGATATTAGAAGCGTGAAAAACCCTTCAATGTTTCTGGCATTCAATTATATATCTTTTTACG
AGTATCGTGTCAAAAAATTGAGAAAAAAAAATTTCTGGCGTTTTCGCAAAATTTTAGCCGAAATC
GGATC
Found at i:32596 original size:2 final size:2
Alignment explanation
Indices: 32589--32613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32579 GGCATTGAAT
32589 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32614 TACGAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.