Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009520.1 Corchorus capsularis cultivar CVL-1 contig09541, 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: 37353
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:6438 original size:21 final size:20
Alignment explanation
Indices: 6401--6439 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6391 TTTAGAAGCA
*
6401 ATTAATTAAAAGCATTAAAC
1 ATTAATTAAAAACATTAAAC
6421 ATTAATTAAAAACAATTAA
1 ATTAATTAAAAAC-ATTAA
6440 GGAAGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (20 bp):
ATTAATTAAAAACATTAAAC
Found at i:6532 original size:74 final size:74
Alignment explanation
Indices: 6446--6602 Score: 253
Period size: 74 Copynumber: 2.1 Consensus size: 74
6436 TTAAGGAAGG
* *
6446 GAAATGTGTAATTACGAAAAAGGGTAGAAGGAAAAGGAATTGGGGAAACTCATAAAGGGGCTTTT
1 GAAAAGTGTAATTACGAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTCATAAAGGGGCTTTT
6511 TAGTCATCC-
66 TAGTCA-CCT
* * *
6520 GAAAAGTGTAATTACGAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTTATAGAGGGGTTTTT
1 GAAAAGTGTAATTACGAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTCATAAAGGGGCTTTT
6585 TAGTCACCT
66 TAGTCACCT
6594 GAAAAGTGT
1 GAAAAGTGT
6603 GAAAAGACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
73 2 0.03
74 75 0.97
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (74 bp):
GAAAAGTGTAATTACGAAAAAGGGTAGAAGGAAAAGGAATAGGGGAAACTCATAAAGGGGCTTTT
TAGTCACCT
Found at i:12469 original size:4 final size:4
Alignment explanation
Indices: 12460--12496 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
12450 ATAATTCCAA
12460 TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG T
1 TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG T
12497 TGTTTTCGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.49, T:0.27
Consensus pattern (4 bp):
TAGG
Found at i:13516 original size:102 final size:102
Alignment explanation
Indices: 13340--13544 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
13330 CCGTACCGCA
13340 AATAGCTAGCAAACATATTACAATCAAATTTAGCTCCATAATAAAGCAAGCTCCTTCTCATAAGA
1 AATAGCTAGCAAACATATTACAATCAAATTTAGCTCCATAATAAAGCAAGCTCCTTCTCATAAGA
13405 TTGGAGCAATTAAAAGCAGCATAAAACCCTAAAACCC
66 TTGGAGCAATTAAAAGCAGCATAAAACCCTAAAACCC
*
13442 AATAGCTAGCAAACATATTACAATCAAATTTAGCTCCATAATGAAGCAAGCTCCTTCTCATAAGA
1 AATAGCTAGCAAACATATTACAATCAAATTTAGCTCCATAATAAAGCAAGCTCCTTCTCATAAGA
13507 TTGGAGCAATTAAAAGCAGCATAAAACCCTAAAACCC
66 TTGGAGCAATTAAAAGCAGCATAAAACCCTAAAACCC
13544 A
1 A
13545 CACGCATTGA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (102 bp):
AATAGCTAGCAAACATATTACAATCAAATTTAGCTCCATAATAAAGCAAGCTCCTTCTCATAAGA
TTGGAGCAATTAAAAGCAGCATAAAACCCTAAAACCC
Found at i:14136 original size:20 final size:20
Alignment explanation
Indices: 14113--14152 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14103 CTTTCACTCT
14113 AGCTAGTGACCTTTGGTAGA
1 AGCTAGTGACCTTTGGTAGA
14133 AGCTAGTGACCTTTGGTAGA
1 AGCTAGTGACCTTTGGTAGA
14153 TGAAAGAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (20 bp):
AGCTAGTGACCTTTGGTAGA
Found at i:19249 original size:30 final size:29
Alignment explanation
Indices: 19213--19288 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
19203 GGCCCTGCCC
19213 ACATTTATTCTCCTTT-TTTTTTTGCTACAT
1 ACATTTATTCTCCTTTATTTTTTT--TACAT
**
19243 ACATTTATTCTCCTTTACTTTTTTTTTTAT
1 ACATTTATTCTCCTTTA-TTTTTTTTACAT
19273 ACA-TTATTCTCCTTTA
1 ACATTTATTCTCCTTTA
19289 CTAATTGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 13 0.31
30 22 0.52
32 7 0.17
ACGTcount: A:0.18, C:0.20, G:0.01, T:0.61
Consensus pattern (29 bp):
ACATTTATTCTCCTTTATTTTTTTTACAT
Found at i:20864 original size:24 final size:24
Alignment explanation
Indices: 20828--20878 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
20818 TTTCTTTCTC
*
20828 TTCTTTCTCTGACTCAGCTGTGAA
1 TTCTTTCTCTGACTCAGCTATGAA
*
20852 TTCTTTCTTTGACTCAGCTATGAA
1 TTCTTTCTCTGACTCAGCTATGAA
20876 TTC
1 TTC
20879 AACATAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.45
Consensus pattern (24 bp):
TTCTTTCTCTGACTCAGCTATGAA
Found at i:22300 original size:22 final size:20
Alignment explanation
Indices: 22247--22287 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
22237 TGCTGTATGC
22247 ATGACATTTGGCTCTTCTCT
1 ATGACATTTGGCTCTTCTCT
*
22267 ATGCTCAGTTTGGCTCTTCTC
1 ATG-ACA-TTTGGCTCTTCTC
22288 CTGGTGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 2 0.11
22 13 0.72
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (20 bp):
ATGACATTTGGCTCTTCTCT
Found at i:29933 original size:35 final size:35
Alignment explanation
Indices: 29887--29957 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
29877 TCCTATACAT
29887 GGGTACAAGTCTTTGATGCATAGGAACATAGATTA
1 GGGTACAAGTCTTTGATGCATAGGAACATAGATTA
*
29922 GGGTACAAGTCTTTGATGCGTAGGAACATAGATTA
1 GGGTACAAGTCTTTGATGCATAGGAACATAGATTA
29957 G
1 G
29958 CTCACACGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (35 bp):
GGGTACAAGTCTTTGATGCATAGGAACATAGATTA
Found at i:30074 original size:22 final size:23
Alignment explanation
Indices: 30049--30235 Score: 74
Period size: 22 Copynumber: 8.5 Consensus size: 23
30039 TTCTTTATGG
* *
30049 AATTCTT-GTAATCTAGCTATAA
1 AATTCTTGGTAACCTACCTATAA
30071 AATT-TTGGTAACCTACCTATAA
1 AATTCTTGGTAACCTACCTATAA
* * * * *
30093 AATTCGT-GTGACGTCCCTATTA
1 AATTCTTGGTAACCTACCTATAA
* *
30115 GATTC-TGGTAACCT-CCTCATGA
1 AATTCTTGGTAACCTACCT-ATAA
*
30137 AATTC--GAGTAA-CTCACCTGTAA
1 AATTCTTG-GTAACCT-ACCTATAA
* * *
30159 AATT-TTGGTAACCTGCATATGA
1 AATTCTTGGTAACCTACCTATAA
* * * *
30181 AATT-TTTGTAGCCTACTTATGA
1 AATTCTTGGTAACCTACCTATAA
* * * *
30203 AATTC-TAGAAACCCACCTATGA
1 AATTCTTGGTAACCTACCTATAA
30225 AATT-TTGGTAA
1 AATTCTTGGTAA
30236 TCTCACAATG
Statistics
Matches: 124, Mismatches: 29, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
21 9 0.07
22 108 0.87
23 7 0.06
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (23 bp):
AATTCTTGGTAACCTACCTATAA
Found at i:30181 original size:44 final size:43
Alignment explanation
Indices: 30065--30184 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
30055 TGTAATCTAG
* * *
30065 CTATAAAATTTTGGTAACCTACCTATAAAATTCGTGTGACGTCC
1 CTATAAAATTTTGGTAACCT-CCTATGAAATTCGAGTAACGTCC
* * *
30109 CTATTAGATTCTGGTAACCTCCTCATGAAATTCGAGTAAC-TCAC
1 CTATAAAATTTTGGTAACCTCCT-ATGAAATTCGAGTAACGTC-C
* *
30153 CTGTAAAATTTTGGTAACCTGCATATGAAATT
1 CTATAAAATTTTGGTAACCT-CCTATGAAATT
30185 TTTGTAGCCT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
43 5 0.08
44 55 0.89
45 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (43 bp):
CTATAAAATTTTGGTAACCTCCTATGAAATTCGAGTAACGTCC
Found at i:30203 original size:66 final size:66
Alignment explanation
Indices: 30121--30303 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 66
30111 ATTAGATTCT
* * * *
30121 GGTAACCTC-CTCATGAAATTCGAGTAACTCACCTGTAAAATTTTGGTAACCTGCA-TATGAAAT
1 GGTAACCTCACT-ATGAAATTCTAGTAACCCACCTATAAAATTTTGGTAACCT-CACAATGAAAT
*
30184 TTT
64 TTC
* * * * *
30187 TGTAGCCT-ACTTATGAAATTCTAGAAACCCACCTATGAAATTTTGGTAATCTCACAATGAAATT
1 GGTAACCTCAC-TATGAAATTCTAGTAACCCACCTATAAAATTTTGGTAACCTCACAATGAAATT
30251 TC
65 TC
* * *
30253 GGTAACCTCACTATGAAATTCTAGTAACCCATCTATGAAAGTTT-GTAACCT
1 GGTAACCTCACTATGAAATTCTAGTAACCCACCTATAAAATTTTGGTAACCT
30304 ATGAAATTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
65 8 0.08
66 86 0.89
67 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (66 bp):
GGTAACCTCACTATGAAATTCTAGTAACCCACCTATAAAATTTTGGTAACCTCACAATGAAATTT
C
Found at i:30206 original size:44 final size:43
Alignment explanation
Indices: 30158--30314 Score: 103
Period size: 44 Copynumber: 3.7 Consensus size: 43
30148 CTCACCTGTA
* * *
30158 AAATTTTGGTAACCTGCATATGAAATTTTTGTAGCCT-ACTTATG
1 AAATTTTGGTAACCT-CATATGAAATTTTGGTAACCTCAC-AATG
* * * *
30202 AAATTCTAGAAACC-CACCTATGAAATTTTGGTAATCTCACAATG
1 AAATTTTGGTAACCTCA--TATGAAATTTTGGTAACCTCACAATG
* * * *
30246 AAATTTCGGTAACCTCACTATGAAATTCTAGTAACC-CATCTATG
1 AAATTTTGGTAACCTCA-TATGAAATTTTGGTAACCTCA-CAATG
*
30290 AAAGTTT-GTAA-C-C-TATGAAATTTTG
1 AAATTTTGGTAACCTCATATGAAATTTTG
30315 ACAATTTCTT
Statistics
Matches: 89, Mismatches: 19, Indels: 15
0.72 0.15 0.12
Matches are distributed among these distances:
39 10 0.11
41 1 0.01
42 3 0.03
43 6 0.07
44 65 0.73
45 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.35
Consensus pattern (43 bp):
AAATTTTGGTAACCTCATATGAAATTTTGGTAACCTCACAATG
Found at i:30279 original size:22 final size:22
Alignment explanation
Indices: 30116--30292 Score: 118
Period size: 22 Copynumber: 8.0 Consensus size: 22
30106 TCCCTATTAG
30116 ATTCTGGTAACCTC-CTCATGAA
1 ATTCTGGTAACCTCACT-ATGAA
* *
30138 ATTC-GAGTAA-CTCACCTGTAAA
1 ATTCTG-GTAACCTCA-CTATGAA
*
30160 ATTTTGGTAACCTGCA-TATGAA
1 ATTCTGGTAACCT-CACTATGAA
* * *
30182 ATTTTTGTAGCCT-ACTTATGAA
1 ATTCTGGTAACCTCAC-TATGAA
* *
30204 ATTCTAGAAACC-CACCTATGAA
1 ATTCTGGTAACCTCA-CTATGAA
* * *
30226 ATTTTGGTAATCTCACAATGAA
1 ATTCTGGTAACCTCACTATGAA
30248 ATT-TCGGTAACCTCACTATGAA
1 ATTCT-GGTAACCTCACTATGAA
*
30270 ATTCTAGTAACC-CATCTATGAA
1 ATTCTGGTAACCTCA-CTATGAA
30292 A
1 A
30293 GTTTGTAACC
Statistics
Matches: 122, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
20 1 0.01
21 7 0.06
22 103 0.84
23 9 0.07
24 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (22 bp):
ATTCTGGTAACCTCACTATGAA
Found at i:32815 original size:2 final size:2
Alignment explanation
Indices: 32808--32835 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32798 CAAGAAATGG
32808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32836 CATCAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33886 original size:17 final size:17
Alignment explanation
Indices: 33849--33887 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33839 TTTCTGACTT
*
33849 ATTTTATTTTCCTTAAA
1 ATTTTATTTTCCTCAAA
* *
33866 ATTTTCTTTTCCTCAAC
1 ATTTTATTTTCCTCAAA
33883 ATTTT
1 ATTTT
33888 TCCATGTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTTTCCTCAAA
Found at i:35022 original size:333 final size:332
Alignment explanation
Indices: 34117--37351 Score: 4276
Period size: 333 Copynumber: 9.8 Consensus size: 332
34107 TCATAATTAG
* * * * * ** *
34117 TTTGGTTAAAAACGCGTTCCGGGGCCCCGACTCCGTTTTACGTGATTTTTGGTGTTGAGACTCCC
1 TTTGGCTAAAAACGCTTTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCCT
* * * *
34182 TGAAATATCTTTATTCATGTAACTGAATCTCAGCTACATTGAATTTAAGGATTT-TTTTTATGAG
66 TGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
* * *
34246 CATCAGAAACTGTTTTCATTTTCATTAGCAATTAATTC-GGAAAAAAATAGAAAAATCGTTTTTC
131 CATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGG--AAAAATAGGAAAATCGTTGTTC
*
34310 -AAAGAGTGAAAAGCCCTTATATCTTTTTTGTGTTGAATTATATATTTTTTATGAGTATTTCGGC
194 GAAA-AGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGC
* *
34374 AAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC
258 CAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAAC
*
34439 CATCATGGTT
323 CATCACGGTT
* * * * * *
34449 TTTGGCTAAAAACGCATTCTAGGGCCCCGGCTCAATTTTGTGTGATTTTTGGTGCAGAGACTCCT
1 TTTGGCTAAAAACGCTTTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCCT
* * *
34514 TGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGATTTGTGTTTACGAG
66 TGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
*
34579 CATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAAATAGGACAATCGTTGTTCG
131 CATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGG-AAAAATAGGAAAATCGTTGTTCG
* * *
34644 AAAAGTGAAGAGGCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCTGCCA
195 AAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGCCA
*
34709 AAAATTGAGG-AAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCAAAATCGTGTACTAACCA
260 AAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCA
34773 TCACGGTTTT
325 TCACGG--TT
* * * *
34783 TTTGGCTAAAAACGCTTTCTGGGGCCCCGGCTCAATTTTGCGTAATTTTTGGTGCCAAGACTCCT
1 TTTGGCTAAAAACGCTTTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCCT
* * *
34848 TGAAATATCTTTATTCATGTTACTGAGTCTCAGCCACGTTGGATTTAAGGATTTGTTTTTACTAG
66 TGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
* * * *
34913 AATCAGAAACTGTTTTTATTTTCATTAGCAATTAATTCAGGAAAAATAGGAAAATCGTTATTCGA
131 CATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAATAGGAAAATCGTTGTTCGA
* **
34978 AAAGTGAAAAGCCCTTATATCTTTTTGGTGTAGAATTATATATTTTTTATGAGTATTTCGGAAAA
196 AAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGCCAA
*
35043 AAATTGAGGAAAAATATTTCTGGTCAATTTTTAC-AAATTTTAGCCGAAATCGTGTACTAACCAT
261 AAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCAT
35107 CACGGTT
326 CACGGTT
* * * * *
35114 TTTTGCTAAAAACG-TGTTCTGTGGCCCCGGCTCAATTTTGCGTGATTTTTGGTGCCGAGAGTCC
1 TTTGGCTAAAAACGCT-TTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCC
* * *
35178 TTGAAATATCTTTATTCATGTAACTGAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTATGA
65 TTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
* * * * *
35243 GCATCAGAAAACGTTTTCATTTTCATTAGTAATTAATTCAGAAAATAAAAAAGTAAAATCGTTGT
130 GCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAG--GA-AAAATAGGAAAATCGTTGT
* *
35308 TCGAAAAGTGAAAAGCCCTTATATCCTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGA
192 TCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGG
* * * * * *
35373 CCAAAATTTGAGGAAAAATATTTCGGGACAAATTTTGCAAAATTTTAGCTGAAATCATGTACTAA
257 CCAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAA
**
35438 CCATCAAAGTT
322 CCATCACGGTT
* * *
35449 TTTGGCTAAAAACG-TGTTCTGGGGCCCTGACCCAGTTTTGCGTGATTTTTGGTGCCGAGACTTC
1 TTTGGCTAAAAACGCT-TTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCC
* **
35513 TTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGGATTTAAGGATTTCCTTTTACGA
65 TTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
*
35578 GCATCAGAAACCGTTTTCAATTTCATTAGCAATTAATTCAGGAAAAAATAGGAAAATCGTTGTTC
130 GCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGG-AAAAATAGGAAAATCGTTGTTC
* * * *
35643 GAAAAGTGAAAAACCCTTATATCTTTTT-GTCATTGAATTATATAATTTTTATGAGTATTTCAGC
194 GAAAAGTGAAAAGCCCTTATATCTTTTTGGT-GTTGAATTATATATTTTTTATGAGTATTTCGGC
* * *
35707 CAAAAATTGAGGGAAAATATTTCGGGTCAATTTTTACAAAATTTTAACCGAAATCGTGTACTAAG
258 CAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAAC
35772 CATCACGGTT
323 CATCACGGTT
* * * * * * *
35782 TTTGGTTAAAAAAGCGTTCTGGGACCCCGGCTCAATTTTGCGTGATTTTTGGTGCAGAGACTCCT
1 TTTGGCTAAAAACGCTTTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCCT
* *
35847 TGAAATATCTTTATTCATGTTACTAAATCTCAGCCACATTGGATTTAAGGATTTGTGTTTACGAG
66 TGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
* *
35912 CATCAGAAACTGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAATAGGAAAATCGTTGTTCG
131 CATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAG-GAAAAATAGGAAAATCGTTGTTCG
*
35977 AAAAGTGAAAAGCCCTTATATCTTTTTCGTGTTGAATTATATATTTTTTATGAGTATTTCGGCCA
195 AAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGCCA
*
36042 AAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCTGAAATCGTGTACTAACCA
260 AAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCA
36107 TCACGGTT
325 TCACGGTT
* * * * **
36115 TTTGGCTAAAAACGCGTTATGGGGCCCCGGC-CTAGTTTTGTGTGATTTTTGGTGCCGAGACTTT
1 TTTGGCTAAAAACGCTTTCTGGGGCCCCGACTC-AGTTTTGCGTGATTTTTGGTGCCGAGACTCC
* *
36179 TTGAAATATCTTTATTCATATTACTGAATCTCAGCCTA-ATTGGATTTAAGGATTAGTTTTTACG
65 TTGAAATATCTTTATTCATGTTACTGAATCTCAGCC-ACATTGGATTTAAGGATTTGTTTTTACG
* *
36243 AGCATCAG-AACCGTTTTTATTTTCATTAGCAATTAATGCAGGAAGAAATAGGAAAATCGTTGTT
129 AGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAA-AAATAGGAAAATCGTTGTT
* * * * * *
36307 CGAAAAGTGAAAAGCGCTTTTATCTTTTTGGTATTAAATTATATATTCTTTATGAGTTTTTCGGC
193 CGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGC
* * * * *
36372 CAAAAATAGTGGAAACATAATTT-GGGTCAATTTTTATAAAATTTTAGCCAAAATCGTGTACTAA
258 CAAAAATTGAGGAAAAAT-ATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAA
*
36436 CCATCACGATT
322 CCATCACGGTT
* * *
36447 TTTGGTTAAAAACG-TGTTTTAGGGGCCCCGAC-CTAGTTTTACGTGATTTTTGGTGCCGAGACT
1 TTTGGCTAAAAACGCT-TTCT-GGGGCCCCGACTC-AGTTTTGCGTGATTTTTGGTGCCGAGACT
* *
36510 CCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGATTTGTTTTTAC
63 CCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTAC
* *
36575 GAGCATCAGAAACCGTTTTTATTTTCATTAGCAATTAATGCAGGAAAAAATAGGAAAATCGTTGT
128 GAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGG-AAAAATAGGAAAATCGTTGT
* * * * * * *
36640 TCGAAAAGTGAAAAGCGCTTTTATCTTTTTGGTATTAAATTATATGTTCTTTATGAGTTTTTCGG
192 TCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGG
* *
36705 CCAAAAATAGAGGAAATATAATTT-GGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAACT
257 CCAAAAATTGAGGAAAAAT-ATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGT-ACT
36769 AACCATCACGGTT
320 AACCATCACGGTT
* * *
36782 TTTGGCTAAAAACG-TGTTTTGGGGGGCCCGAC-CTAGTTTTGCGTGATTTTTGATGCCGAGACT
1 TTTGGCTAAAAACGCT-TTCT-GGGGCCCCGACTC-AGTTTTGCGTGATTTTTGGTGCCGAGACT
* * * * * *
36845 CCTTGAAATAAT-TTTATTCTTGTTACAGAATCTTAGCCACGTTGAATTTAAGGATTTATTTTTA
63 CCTTGAAAT-ATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTA
* *
36909 CGAGCATCAGAAACCGGTTTT-ATTTTCATTAGCAATTAATT-A-AAAAAATAGGAAAATCGATG
127 CGAGCATCAGAAACC-GTTTTCATTTTCATTAGCAATTAATTCAGGAAAAATAGGAAAATCGTTG
* * * * * * *
36971 TTAGAAGAGTGAAAAGCCCTTGTATTTTTTTGGTGTTGAATTATATATTCTTTATGAGTAATTCT
191 TTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCG
* * * * * *
37036 GCAAAAAATTGAGGAAAAATATTTCGGGTTACTTTTTTCAAAATTTTTGTCGAAATCGTG-----
256 GCCAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTA
37096 ----T-----TT
321 ACCATCACGGTT
* * * * *
37099 TTTAGCTAAAAACGCGTTATGGGGCCCCGACACAGTTTTGCATGATTTTTGGTGCCGAGACTCCT
1 TTTGGCTAAAAACGCTTTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCCT
* * * * * * ** *
37164 TGATATATCTATATTCATATAAC-CAAACTTCAGGTACATTGGATTTAAGGATTTGTTTTTATGA
66 TGAAATATCTTTATTCATGTTACTGAATC-TCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
* * * * * *
37228 GCATCGGAAACCGCTTTCAATTTCATTAGAAATTAATTCA-GAAAAATAGGAAAATCGATGTTAG
130 GCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAATAGGAAAATCGTTGTTCG
** * **
37292 AAAAGTGAAAAATCCTTATAACTTTTTGGCATTGAATTATATATTTTTTATGAGTATTTC
195 AAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTC
37352 AG
Statistics
Matches: 2604, Mismatches: 264, Indels: 85
0.88 0.09 0.03
Matches are distributed among these distances:
315 9 0.00
316 112 0.04
317 93 0.04
322 1 0.00
330 1 0.00
331 160 0.06
332 470 0.18
333 925 0.36
334 474 0.18
335 352 0.14
336 7 0.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (332 bp):
TTTGGCTAAAAACGCTTTCTGGGGCCCCGACTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCCT
TGAAATATCTTTATTCATGTTACTGAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
CATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAATAGGAAAATCGTTGTTCGA
AAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGCCAA
AAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCAT
CACGGTT
Found at i:36267 original size:1000 final size:997
Alignment explanation
Indices: 34117--37351 Score: 4480
Period size: 1000 Copynumber: 3.3 Consensus size: 997
34107 TCATAATTAG
* ** * * * **
34117 TTTGGTTAAAAACGCGTTCCGGGGCCCC-GACTCCGTTTTACGTGATTTTTGGTGTTGAGACTCC
1 TTTGGCTAAAAACGCGTTATGGGGCCCCGGCCTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCC
* * *
34181 CTGAAATATCTTTATTCATGTAACTGAATCTCAGCTACATTGAATTTAAGGATTT-TTTTTATGA
66 TTGAAATATCTTTATTCATATAACTGAATCTCAGCTACATTGGATTTAAGGATTTGTTTTTATGA
* * * *
34245 GCATCAGAAACTGTTTTCATTTTCATTAGCAATTAATTCGGAAAAAAATAGAAAAATCGTTTTTC
131 GCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAATAGGAAAATCGTTGTTC
* *
34310 -AAAGAGTGAAAAGCCCTTATATCTTTTTTGTGTTGAATTATATATTTTTTATGAGTATTTCGGC
196 GAAA-AGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATATTTTTTATGAGTATTTCGGC
*
34374 AAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC
260 CAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC
** ** * * * * *
34439 CATCATGGTTTTTGGCTAAAAACGCATTCTAGGGCCCCGGCTCAATTTTGTGTGATTTTTGGTGC
325 CATCAAAGTTTTTGGCTAAAAACGTGTTCTGGGGCCCCGACCCAGTTTTGCGTGATTTTTGGTGC
* *
34504 AGAGACTCCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGATTTG
390 CGAGACTCCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGATTTC
*
34569 TGTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAAATAGGACAA
455 T-TTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAAATAGGAAAA
* * * *
34634 TCGTTGTTCGAAAAGTGAAGAGGCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGT
519 TCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATAATTTTTATGAGT
* *
34699 ATTTCTGCCAAAAATTGAGGAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCAAAATCGTG
584 ATTTCAGCCAAAAATTGAGGAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTG
* *
34764 TACTAACCATCACGGTTTTTTTGGCTAAAAACGCTTTCTGGGGCCCCGGCTCAATTTTGCGTAAT
649 TACTAACCATCACGG--TTTTTGGCTAAAAACGCGTTCTGGGGCCCCGGCTCAATTTTGCGTGAT
* *
34829 TTTTGGTGCCA-AGACTCCTTGAAATATCTTTATTCATGTTACTGAGTCTCAGCCACGTTGGATT
712 TTTTGGTG-CAGAGACTCCTTGAAATATCTTTATTCATGTTACTAAATCTCAGCCACGTTGGATT
* * *
34893 TAAGGATTTGTTTTTACTAGAATCAGAAACTGTTTTTATTTTCATTAGCAATTAATTCAG-GAAA
776 TAAGGATTTGTTTTTACGAGCATCAGAAACTG-TTTTATTTTCATTAGCAATTAATTCAGAAAAA
* *
34957 AATAGGAAAATCGTTATTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTAGAATTATATATT
840 AATAGGAAAATCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATT
* *
35022 TTTTATGAGTATTTCGGAAAAAAATTGAGGAAAAATATTTCTGGTCAATTTTTAC-AAATTTTAG
905 TTTTATGAGTATTTCGGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAG
*
35086 CCGAAATCGTGTACTAACCATCACGGTT
970 CTGAAATCGTGTACTAACCATCACGGTT
* * * * * *
35114 TTTTGCTAAAAACGTGTTCTGTGGCCCCGG-CTCAATTTTGCGTGATTTTTGGTGCCGAGAGTCC
1 TTTGGCTAAAAACGCGTTATGGGGCCCCGGCCTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCC
* * *
35178 TTGAAATATCTTTATTCATGTAACTGAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTATGA
66 TTGAAATATCTTTATTCATATAACTGAATCTCAGCTACATTGGATTTAAGGATTTGTTTTTATGA
* * * *
35243 GCATCAGAAAACGTTTTCATTTTCATTAGTAATTAATTCAGAAAATAAAAAAGTAAAATCGTTGT
131 GCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAG-AAA-AAAATAGGAAAATCGTTGT
* * *
35308 TCGAAAAGTGAAAAGCCCTTATATCCTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGA
194 TCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATATTTTTTATGAGTATTTCGG
* * * * *
35373 CCAAAATTTGAGGAAAAATATTTCGGGACAAATTTTGCAAAATTTTAGCTGAAATCATGTACTAA
259 CCAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
*
35438 CCATCAAAGTTTTTGGCTAAAAACGTGTTCTGGGGCCCTGACCCAGTTTTGCGTGATTTTTGGTG
324 CCATCAAAGTTTTTGGCTAAAAACGTGTTCTGGGGCCCCGACCCAGTTTTGCGTGATTTTTGGTG
* *
35503 CCGAGACTTCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGGATTTAAGGATTT
389 CCGAGACTCCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGATTT
*
35568 CCTTTTACGAGCATCAGAAACCGTTTTCAATTTCATTAGCAATTAATTCAGGAAAAAATAGGAAA
454 -CTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAAATAGGAAA
*
35633 ATCGTTGTTCGAAAAGTGAAAAACCCTTATATCTTTTT-GTCATTGAATTATATAATTTTTATGA
518 ATCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGT-ATTGAATTATATAATTTTTATGA
*
35697 GTATTTCAGCCAAAAATTGAGGGAAAATATTTCGGGTCAATTTTTACAAAATTTTAACCGAAATC
582 GTATTTCAGCCAAAAATTGA-GGAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATC
* * * *
35762 GTGTACTAAGCATCACGGTTTTTGGTTAAAAAAGCGTTCTGGGACCCCGGCTCAATTTTGCGTGA
646 GTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGGCTCAATTTTGCGTGA
*
35827 TTTTTGGTGCAGAGACTCCTTGAAATATCTTTATTCATGTTACTAAATCTCAGCCACATTGGATT
711 TTTTTGGTGCAGAGACTCCTTGAAATATCTTTATTCATGTTACTAAATCTCAGCCACGTTGGATT
*
35892 TAAGGATTTGTGTTTACGAGCATCAGAAACTGTTTTCATTTTCATTAGCAATTAATTCAGAAAAA
776 TAAGGATTTGTTTTTACGAGCATCAGAAACTGTTTT-ATTTTCATTAGCAATTAATTCAGAAAAA
*
35957 AATAGGAAAATCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTCGTGTTGAATTATATATT
840 AATAGGAAAATCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATT
*
36022 TTTTATGAGTATTTCGGCCAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAG
905 TTTTATGAGTATTTCGGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAG
36087 CTGAAATCGTGTACTAACCATCACGGTT
970 CTGAAATCGTGTACTAACCATCACGGTT
* **
36115 TTTGGCTAAAAACGCGTTATGGGGCCCCGGCCT-AGTTTTGTGTGATTTTTGGTGCCGAGACTTT
1 TTTGGCTAAAAACGCGTTATGGGGCCCCGGCCTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCC
* * *
36179 TTGAAATATCTTTATTCATATTACTGAATCTCAGCCTA-ATTGGATTTAAGGATTAGTTTTTACG
66 TTGAAATATCTTTATTCATATAACTGAATCTCAG-CTACATTGGATTTAAGGATTTGTTTTTATG
* * * *
36243 AGCATCAG-AACCGTTTTTATTTTCATTAGCAATTAATGCAGGAAGAAATAGGAAAATCGTTGTT
130 AGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAATAGGAAAATCGTTGTT
* * * * *
36307 CGAAAAGTGAAAAGCGCTTTTATCTTTTTGGTATTAAATTATATATTCTTTATGAGTTTTTCGGC
195 CGAAAAGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATATTTTTTATGAGTATTTCGGC
* * * ** *
36372 CAAAAATAGTGGAAACATAATTT-GGGTCAATTTTTATAAAATTTTAGCCAAAATCGTGTACTAA
260 CAAAAATTGAGGAAAAAT-ATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
* * * * *
36436 CCATC-ACGATTTTTGGTTAAAAACGTGTTTTAGGGGCCCCGACCTAGTTTTACGTGATTTTTGG
324 CCATCAAAG-TTTTTGGCTAAAAACGTGTTCT-GGGGCCCCGACCCAGTTTTGCGTGATTTTTGG
36500 TGCCGAGACTCCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGAT
387 TGCCGAGACTCCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGAT
* * *
36565 TTGTTTTTACGAGCATCAGAAACCGTTTTTATTTTCATTAGCAATTAATGCAGGAAAAAATAGGA
452 TT-CTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAAATAGGA
* * * *
36630 AAATCGTTGTTCGAAAAGTGAAAAGCGCTTTTATCTTTTTGGTATTAAATTATAT-GTTCTTTAT
516 AAATCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATAATT-TTTAT
* * *
36694 GAGTTTTTCGGCCAAAAATAGAGGAAATATAATTT-GGGTCAATTTTTACAAAATTTTAGCCGAA
580 GAGTATTTCAGCCAAAAATTGAGGAAA-AT-ATTTCGGGTCAATTTTTACAAAATTTTAGCCGAA
* * * * *
36758 ATCGTGTAACTAACCATCACGGTTTTTGGCTAAAAACGTGTTTTGGGGGGCCCGAC-CTAGTTTT
643 ATCGTGT-ACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCT-GGGGCCCCGGCTC-AATTTT
* * * *
36822 GCGTGATTTTTGATGCCGAGACTCCTTGAAATAAT-TTTATTCTTGTTAC-AGAATCTTAGCCAC
705 GCGTGATTTTTGGTGCAGAGACTCCTTGAAAT-ATCTTTATTCATGTTACTA-AATCTCAGCCAC
* * *
36885 GTTGAATTTAAGGATTTATTTTTACGAGCATCAGAAACCGGTTTTATTTTCATTAGCAATTAATT
768 GTTGGATTTAAGGATTTGTTTTTACGAGCATCAGAAA-CTGTTTTATTTTCATTAGCAATTAATT
* * * * *
36950 ---AAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAAGCCCTTGTATTTTTTTGGTGTTGAAT
832 CAGAAAAAAATAGGAAAATCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAAT
* * * * * *
37012 TATATATTCTTTATGAGTAATTCTGCAAAAAATTGAGGAAAAATATTTCGGGTTACTTTTTTCAA
897 TATATATTTTTTATGAGTATTTCGGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAA
*
37077 AATTTTTG-TCGAAATCGTG---------T-----TT
962 AATTTTAGCT-GAAATCGTGTACTAACCATCACGGTT
* * * *
37099 TTTAGCTAAAAACGCGTTATGGGGCCCC-GACACAGTTTTGCATGATTTTTGGTGCCGAGACTCC
1 TTTGGCTAAAAACGCGTTATGGGGCCCCGGCCTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCC
* * * * *
37163 TTGATATATCTATATTCATATAAC-CAAACTTCAGGTACATTGGATTTAAGGATTTGTTTTTATG
66 TTGAAATATCTTTATTCATATAACTGAATC-TCAGCTACATTGGATTTAAGGATTTGTTTTTATG
* * * * *
37227 AGCATCGGAAACCGCTTTCAATTTCATTAGAAATTAATTCAG--AAAAATAGGAAAATCGATGTT
130 AGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAATAGGAAAATCGTTGTT
* ** * *
37290 AGAAAAGTGAAAAATCCTTATAACTTTTTGGCATTGAATTATATATTTTTTATGAGTATTTC
195 CGAAAAGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATATTTTTTATGAGTATTTC
37352 AG
Statistics
Matches: 2002, Mismatches: 204, Indels: 78
0.88 0.09 0.03
Matches are distributed among these distances:
983 78 0.04
984 112 0.06
985 28 0.01
989 1 0.00
997 105 0.05
998 337 0.17
999 425 0.21
1000 570 0.28
1001 334 0.17
1002 12 0.01
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (997 bp):
TTTGGCTAAAAACGCGTTATGGGGCCCCGGCCTCAGTTTTGCGTGATTTTTGGTGCCGAGACTCC
TTGAAATATCTTTATTCATATAACTGAATCTCAGCTACATTGGATTTAAGGATTTGTTTTTATGA
GCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAATAGGAAAATCGTTGTTC
GAAAAGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATATTTTTTATGAGTATTTCGGCC
AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
ATCAAAGTTTTTGGCTAAAAACGTGTTCTGGGGCCCCGACCCAGTTTTGCGTGATTTTTGGTGCC
GAGACTCCTTGAAATATCTTTATTCATGTTACTGAATCTCAGCCACGTTGAATTTAAGGATTTCT
TTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGGAAAAAATAGGAAAATC
GTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTATTGAATTATATAATTTTTATGAGTAT
TTCAGCCAAAAATTGAGGAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTA
CTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGGCCCCGGCTCAATTTTGCGTGATTTTT
GGTGCAGAGACTCCTTGAAATATCTTTATTCATGTTACTAAATCTCAGCCACGTTGGATTTAAGG
ATTTGTTTTTACGAGCATCAGAAACTGTTTTATTTTCATTAGCAATTAATTCAGAAAAAAATAGG
AAAATCGTTGTTCGAAAAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTAT
GAGTATTTCGGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCTGAAA
TCGTGTACTAACCATCACGGTT
Done.