Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012281.1 Corchorus olitorius cultivar O-4 contig12314, 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: 60459
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3571 original size:11 final size:11
Alignment explanation
Indices: 3555--3580 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3545 ATAACTGGGG
3555 CAACTCTGCCC
1 CAACTCTGCCC
3566 CAACTCTGCCC
1 CAACTCTGCCC
3577 CAAC
1 CAAC
3581 GGTGGATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.54, G:0.08, T:0.15
Consensus pattern (11 bp):
CAACTCTGCCC
Found at i:5085 original size:2 final size:2
Alignment explanation
Indices: 5073--5101 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5063 AAAATGTAAA
5073 AT AT A- 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 AT
5102 GTAAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16489 original size:56 final size:55
Alignment explanation
Indices: 16397--16502 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 55
16387 GTATCTTTCA
** * *
16397 ATTTGTAAAAAGGGAAGCACATTCTTTAGTTGAGATTAAGTTGGATAATCGTTCC
1 ATTTGTAAAAAGGGAAGCACATTCTTTAACTAAGATTAAGTTGAATAATCGTTCC
*
16452 ATTTGTAAAAAGGGAAAGCACATTCTTTAACTAAGATTGAGTTGAATAATC
1 ATTTGTAAAAAGGG-AAGCACATTCTTTAACTAAGATTAAGTTGAATAATC
16503 ATGTGGTGCG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 14 0.31
56 31 0.69
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (55 bp):
ATTTGTAAAAAGGGAAGCACATTCTTTAACTAAGATTAAGTTGAATAATCGTTCC
Found at i:16547 original size:22 final size:22
Alignment explanation
Indices: 16519--16563 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16509 TGCGGGACTA
16519 TGCATATTAAATATGTTGATAG
1 TGCATATTAAATATGTTGATAG
16541 TGCATATTAAATATGTTGATAG
1 TGCATATTAAATATGTTGATAG
16563 T
1 T
16564 TATAGATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (22 bp):
TGCATATTAAATATGTTGATAG
Found at i:17600 original size:13 final size:12
Alignment explanation
Indices: 17563--17613 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
17553 TTATTGCCTA
17563 ACAATGTATATAT
1 ACAAT-TATATAT
* *
17576 ACACTAAT-TAT
1 ACAATTATATAT
17587 ACAATGTATATAT
1 ACAAT-TATATAT
17600 ACTAATTATATAT
1 AC-AATTATATAT
17613 A
1 A
17614 TTAGTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 17 0.55
14 3 0.10
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (12 bp):
ACAATTATATAT
Found at i:17611 original size:24 final size:23
Alignment explanation
Indices: 17563--17609 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
17553 TTATTGCCTA
17563 ACAATGTATATATACACTAATTAT
1 ACAATGTATATATA-ACTAATTAT
17587 ACAATGTATATAT-ACTAATTAT
1 ACAATGTATATATAACTAATTAT
17609 A
1 A
17610 TATATTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 10 0.43
24 13 0.57
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (23 bp):
ACAATGTATATATAACTAATTAT
Found at i:43668 original size:15 final size:15
Alignment explanation
Indices: 43648--43676 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43638 CTCAATTAAG
43648 ATTTTTTTTTATTTT
1 ATTTTTTTTTATTTT
43663 ATTTTTTTTTATTT
1 ATTTTTTTTTATTT
43677 ACATAGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
ATTTTTTTTTATTTT
Found at i:51959 original size:17 final size:17
Alignment explanation
Indices: 51937--51971 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51927 TTCAAAAATT
51937 ATAGGAACAAAAG-AGAG
1 ATAGGAA-AAAAGTAGAG
51954 ATAGGAAAAAAGTAGAG
1 ATAGGAAAAAAGTAGAG
51971 A
1 A
51972 AAAAAACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.03, G:0.29, T:0.09
Consensus pattern (17 bp):
ATAGGAAAAAAGTAGAG
Found at i:58404 original size:336 final size:334
Alignment explanation
Indices: 55311--60456 Score: 6910
Period size: 334 Copynumber: 15.4 Consensus size: 334
55301 TTCAATGTTT
* * * *
55311 TTTTTGGCCCCAAGACTTCTTGACATAACTATATTCATCTAACCAAATCTCAGCCAAATTGGGTT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
*
55376 TAAGGATTTGATTTTACGATCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
55441 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* * * * *
55506 GTCTATTAGTGTTTTGGCCAAAGATTGTGAAAAAAAATCTTTTGGGTCAATTTTTGTAAAATTTT
196 TTCTATAAGTGTTTTGGCCAAAGATTGTG-GAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT
* * * * *
55571 AGCCGAAATCGTATATTGACCATCAC-GTTTTTAGGCTAAAAACGCGTTCCGGGGCCCCGACACA
260 AGCCGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCGTTCCGGGGCCCCGGCTCA
55635 GTTTCTAATGA
324 GTTTCTAATGA
*
55646 TTTTTGGCCTCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCC-AATCTGGAT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAAT-TGGAT
* * * * *
55710 TCAAGGATTTGATTTTACGAGCATCAGAATCATATTTCGATTTAATCAAAAATTAATTCAGAAAC
65 TTAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAG
* * *** **
55775 ATATAGGAAAATCGATATTAGAATCGTCAAAAATTTTTCAATATTTTTGGTGTTGAATTATACAT
130 ATATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACAT
* * * * *
55840 ACTCTATAAGTTTTTTGGCCAAAGATTATGGAAAAAATCTTTCGGGTCAAGTTTTGTAAAATTTT
195 ATTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT
* * * *
55905 AACCGAAATCGTGTACTTAA-CATCACGGTTTTTTGCTAAAAACGCATTTCGGGGCCCCGGCTCA
260 AGCCGAAATCGTGTAC-TAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCA
* *
55969 ATTT-TCAACGA
324 GTTTCT-AATGA
* * * * *
55980 TTTTTGGCCCCGAGACACCTTGAAATATATATACTCATCCAACCAAATCTCAGCCAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* * * *
56045 TAAGGATTTGATTTTACGATCATCAGAATCACGTTTTGATTTAATCAGAAATTAATTCAGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
*
56110 TATAGGAAAATCGATATTAGAAGCGTGAAAAAACCTTCAATATTTTTGGCATTGAATTATACATA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* * * * *
56175 GTCTATTAGTGTTTTTGCCAAAGATTGTGGAAAAAATCTTTTGGGTCAATTCTTGCAAAATTTTA
196 TTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTA
* * * *
56240 GCCGAAATC--G---T----ATCACGTTTTTTAGCTAAAAACGCGTTCAGGGGCCCCGACTCAGT
261 GCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGT
56296 TTCTAATGA
326 TTCTAATGA
* *
56305 TTTTTGGCCTCGAGACTCCTTTGACATATCTATATTCATCTAACCAAATCTCAACCAAATTGGAT
1 TTTTTGGCCCCGAGACTCC-TTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGAT
* *
56370 TTAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGAAAAC
65 TTAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAG
* * * * * *
56435 ATATAGGGAAATCGATATTGGAATCGTAAAAAATCCTTCAATATTTTTGGCATTGAATTATTCAT
130 ATATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACAT
* ** * *
56500 ATTCTATAAGTTTTTTGGCCAAAGATTGTTAAAAAAATATTTCGGGTCAATTGTTGCAAAATTTT
195 ATTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT
* * * * * *
56565 AGCCGAAATCGTATACTAACCATCACGATTTTTTGCTAAAAACGCATTTCGGGGCCTCGGCTCAG
260 AGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
56630 TTTCTAATGA
325 TTTCTAATGA
*
56640 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCTAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
56705 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * * *
56770 TATCGGAAAATCGATATTAGAAGCGTGAGAAACCCTTCAATATTTTTGGCGTTGAATTATATATA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* *
56835 TTCTATAAGTGTTTTGGCCAAAGATTATGGAAAAAAGCTTTCGGGTCAATTTTTGCAAAATTTTA
196 TTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTA
** * * * * * * * *
56900 AACGAAATCGTGTATTAACCATTACGGTTTTTGGCAAAAAATGCGTTACGAGGACCAGGCTCAGT
261 GCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGT
*
56965 TT-TCAATAA
326 TTCT-AATGA
* * * *
56974 TTTTTGGCCCTGGGACTCCTTGACATATCTATATTCATCAAACCAAATCTCAGCCAAATTGTATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* *
57039 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAGG
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * *
57104 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* *
57169 TTCTATAAGTTTTTTGGCCAAAGATTGTGGAAAAAA-CTTCCGGGTCAATTTTTGCAAAATTTTA
196 TTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTA
* * * * * * *
57233 GCCAAAATCGTGTACT--CTATAACGGTTTTTGGCTGAAAACGCGTTCCGGGGCCCTGGTTTAGT
261 GCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGT
*
57296 TT-TCAAAGA
326 TTCT-AATGA
* * * *
57305 TTTTTGGGCTCGAGACTCCTTGACATATCTATATTCATCTAACCAAATTTCTGCCAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* * * *
57370 TAAGGATTTGATTTTACGGGCATTACAAACATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * * * * **
57435 TATAGGAAAATCGATATTAGAAGTGTGAAAAACCCTTAAATCTTTTTAGCATTGAATTAAATGTA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
*
57500 TTCTATAAGTGTTTAGGCCAAAGATTGTGGAAAAAAAT-TTTCGGGTCAATTTTTGCAAAATTTT
196 TTCTATAAGTGTTTTGGCCAAAGATTGTGG-AAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT
* * **
57564 AGCCGAAATCGTGTACTAACCATAACGGTTTTAGGCTAAAAACGCGTTCCGGGGCCATGGCTCAG
260 AGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
*
57629 TTT-TCAATGT
325 TTTCT-AATGA
* * * ** * *
57639 TTTTTGGCCCCAAAAGTTGTTGACATAAT-TATATTCATCTAAGCAGATCTCAGCCAAATTGGAT
1 TTTTTGGCCCCGAGACTCCTTGACAT-ATCTATATTCATCTAACCAAATCTCAGCCAAATTGGAT
* * * *
57703 TTAAGGATTTGATTTTAC-AGGCAACAAAATCATATTTCGATTTAATCAAAAATTAATTCGGAAA
65 TTAAGGATTTGATTTTACGA-GCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAA
* *
57767 GATATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAAAATTTTTGGCGTTGAATTATACA
129 GATATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACA
* * * *
57832 TAGTCTATTAGTGATTTGGCCAAAGATTGTGGAAAAAATCTTTTGGGTCAATTTTTGCAAAATTT
194 TATTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTT
* * * **
57897 TAGCCGAAATCGTGTAATAACCATCACGTTTTTCTAGGCTAAAAAACGCGTTCCGGAGCCGTGGC
259 TAGCCGAAATCGTGTACTAACCATCACGGTTTT-T-GGCT-AAAAACGCGTTCCGGGGCCCCGGC
57962 TCAGTTTCTAATGA
321 TCAGTTTCTAATGA
* *
57976 TTTTTGGCCCCGGGACTCCTTGACATATCTAGT-TTCATATAACCAAATCTCAGCCAAATTGGAT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTA-TATTCATCTAACCAAATCTCAGCCAAATTGGAT
* * * * *
58040 TTAAGGATTTGATTTCACGAGAATCAGAATCATGTTTCGATTTAATCAGAATTTAATTCGAAAAC
65 TTAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAG
* * * ** * * *
58105 ATATAGGAAAATC-ATTATTGGAATCGTCAAAATTCCTTCAATCTTTTTAGCGTTGAATTATACA
130 ATATAGGAAAATCGA-TATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACA
*
58169 TATTCTATAAGTGTTTTGGCCAAAGATTGGTGAAAAAAATCTTTCGGGTCAATTTTTGCAAAATT
194 TATTCTATAAGTGTTTTGGCCAAAGATT-GTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATT
* * * * * *
58234 TAAGCCGAAATCGTGTACTAACTAACACGGTTTTTTTGTTAAAAACGCGTTCCGGGGCCCCTGCT
258 TTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCT
58299 CAGTTTCTAATGA
322 CAGTTTCTAATGA
* * * * *
58312 TTTTTGGCCCCGAGACTCCTCGACATATCTATATTCATCTATCCAAATTTCAGCAAAATTAGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* *
58377 TAAGGATTTGATTTTATGAGCATCAGAATCATGTTTTGATTTAATCAGAAATTAATTCGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * * *
58442 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCGTCAATCTTTGTGGCGTTGAATTATACATA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* * *
58507 TTCTATTAGTGCTTTT-GCCAAAGATTGTGGAAAAAATCTTTTGGGTCAATTTTTGCAAAATTCT
196 TTCTATAAGTG-TTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT
* * * ** *
58571 AGCTGAAATCGTGTACTAACCATCAC-GTTTTTATGTTAAAAACGCGTTGTGGGGCCCCAGCTCA
260 AGCCGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCGTTCCGGGGCCCCGGCTCA
58635 GTTTCTAATGA
324 GTTTCTAATGA
* * *
58646 TTTTTGGCCCCGAGAGTCCCTGACATATCTATATTCATCTAACCAAATCTTAGCCAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
*
58711 TAAGGATTTGATTTTACGATCATC-GAAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAG
66 TAAGGATTTGATTTTACGAGCATCAG-AATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAG
* *
58775 ATATAGGAAAATCGATATTAGAAACGTGAAAAACACTTCAATATTTTTGGCATTGAATTATACAT
130 ATATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACAT
* * * * * *
58840 AGTCTATTAGTGTTCTGGCCAAAGATTGTGGAAAAAATCTTTTGGGTTAATTTTTACAAAATTTT
195 ATTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT
* * *
58905 AGCCAAAATCGTGTACTAACCATCACGGATTTTT-GCTAAAAACGCGATCCGGGGCCCCGGCTAA
260 AGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCA
*
58969 GTTT-TCAATGC
324 GTTTCT-AATGA
* * * * * * *
58980 TTTTTGGCCCCAAGACTTCTTGACATAACTCTATTTATCTAAGCAAATGTCAGCCAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* * * * *
59045 TACGGATTTGATTTTACGAGCATCCGAATCATGTTTCGATTTAATTAGAAATTAGTTTGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * * * *
59110 TATAGGAAAATCGATATTAGAAGCGTGAAAATCCCTTCAATCTTTTTGGCGTTGAATTAAATATA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* **
59175 TTCTATAAGTGTTTTGGCCAAAGATTGTGTAAAAAAATCTTTCGGGTCAATTTTCACAAAATTTT
196 TTCTATAAGTGTTTTGGCCAAAGATTGTG-GAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT
* * * * *
59240 AGCCAAAATCGTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTCTGGGGCCTCAGCTCT
260 AGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCA
59305 GTTTCTAATGA
324 GTTTCTAATGA
* *
59316 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACAAAATCTCTGCCAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* * * * * * *
59381 TAAGGATTTAATTGTACGGGCATTACATTCATGTTTCGATTTAATCAGAATTTAATTCGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * * *
59446 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATGTTTTTGGAATTGAATTAAATATA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
59511 TTCTATAAGTGTTTTGGCCAAAGATTGTGG-AAAAA-CGTTTCGGGTCAATTTTTGCAAAATTTT
196 TTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATC-TTTCGGGTCAATTTTTGCAAAATTTT
* * *
59574 AGCCGAAATCGTG---------T-AC-GTTTTTGGCTAAAAATGCGTTCCGGAGCTCCGGCTCAG
260 AGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
59628 TTT-TCAATGA
325 TTTCT-AATGA
*
59638 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCGGCCAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* * * * *
59703 TACGGATTTGACTTGACGAACATCAGAATCATGTTTCGATTTAATCAGAAATTAGTTCGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * * *
59768 TATTGGAAAATCGATATTAAAAGCGTTAAAAACCCTTCAATATTTTTGGCATTGAATTATACATT
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* * *
59833 TTCTATAAATGTTTTGGCAAAAGATTGCGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTA
196 TTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTA
* * * * *
59898 GCCAAAATCGTGTACTAACCATCACAGTTTTTTGGCTAAAAAAGCATTCCGGGGTCCCGGCTCAG
261 GCCGAAATCGTGTACTAACCATCAC-GGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
59963 TTTCTAATGA
325 TTTCTAATGA
* * *
59973 TTTTTGGCTCTGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCTGCCAAATTGGATT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
* * * * * *
60038 TAAGGATTTAATTATACGGGCATTACATTCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
66 TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
* * * * * *
60103 TATAGGAAAATCGATATTAGAAACGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTAAATAAA
131 TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
* * *
60168 TTCTATAAATGTTTTGGCCAAAGATTGT-GAAAAAAACTTTCGGGTCAATTTTTGCAAAAATTTA
196 TTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTA
* * * *
60232 GCCCAAA-CTGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGAGGTCCCGACTCAG
261 GCCGAAATC-GTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAG
*
60296 TTT-TCAATGTTT
325 TTTCT-AATG--A
* * *
60308 TTTTTGGCCCCGAGACTCCTTGATATATCTATATTTATCTAACCAAAATGTCAGCCAAATTGGAT
1 TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACC-AAATCTCAGCCAAATTGGAT
* * * *
60373 TTAAGGATTTGATTTTATGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAGTTCGAAAAC
65 TTAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAG
60438 ATATAGGAAAATCGATATT
130 ATATAGGAAAATCGATATT
60457 GGA
Statistics
Matches: 4230, Mismatches: 512, Indels: 137
0.87 0.10 0.03
Matches are distributed among these distances:
321 1 0.00
322 238 0.06
323 44 0.01
324 3 0.00
325 62 0.01
326 225 0.05
328 1 0.00
331 247 0.06
332 50 0.01
333 103 0.02
334 1729 0.41
335 677 0.16
336 559 0.13
337 224 0.05
338 63 0.01
339 4 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (334 bp):
TTTTTGGCCCCGAGACTCCTTGACATATCTATATTCATCTAACCAAATCTCAGCCAAATTGGATT
TAAGGATTTGATTTTACGAGCATCAGAATCATGTTTCGATTTAATCAGAAATTAATTCGGAAAGA
TATAGGAAAATCGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATACATA
TTCTATAAGTGTTTTGGCCAAAGATTGTGGAAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTA
GCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGT
TTCTAATGA
Done.