Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012367.1 Corchorus olitorius cultivar O-4 contig12400, 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: 131263
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1929 original size:327 final size:331
Alignment explanation
Indices: 164--2940 Score: 3481
Period size: 332 Copynumber: 8.4 Consensus size: 331
154 CGGTTTTTGA
* * * * * * * *
164 CTGAAAACGCGTTCAGGGGC-CTCGACACAGTTTTGCATGTTTTTTGGCGCCGATACTCCTTGAA
1 CTGAAAACGCGTTCCGGGGCTC-CGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAA
* * * * *
228 ATATATATATTCATCTAATCAAATCTCATCCACATTGGAATTAAGGATATGTTTTTACGAGTATC
65 ATATCTATATTCATCTAATCAAATCTCAGCCACACTGGATTTAAGGATATGTTTTTACGAGCATC
* *
293 TGAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAAAAATAGGGAAAACAATATTAGAAGCG
130 TGAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCG
* *
358 TGAAAAGCCCGCCAATCTTTTTGGCGTTCAATTATATATTATTTATGCGTATTTTGGGCAAAAAT
195 TGAAAAGCCCGCCAATATTTTTGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAAAT
* *
423 TGACGAAAAATA-TTTCGGATCAAATTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCAC
260 TGACGAAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT--TAACCATCAC
487 GGTTTCTAG
323 GGTTTCTAG
496 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAAA
1 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAAA
*
561 TATCTATATTCATCTAATCAAATCTCAGCCA-AATAGGATTTAAGGATATGTTTTTACGAGCATC
66 TATCTATATTCATCTAATCAAATCTCAGCCACACT-GGATTTAAGGATATGTTTTTACGAGCATC
*
625 TGAATCTTGTTTCGATTTATAT-AGAAATTAATTTGGTAAAAATAGGAAAAACGATATTAGAAGC
130 TGAATCTTGTTTCGATTTA-ATCAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGC
689 GTGAAAAGCCCGCCAATATTTTAT-GCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAA
194 GTGAAAAGCCCGCCAATATTTT-TGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAA
* *
753 ATAGATGAAAAAATATTTT-GGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTGCT-ACCAT
258 ATTGACG-AAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT--TAACCAT
** * *
816 CACAATTTTTAA
320 CACGGTTTCTAG
* * * *
828 TTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTTGCGCAGAGAGTCAATAAAA
1 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAAA
* ** *
893 TATATATATTCATCTAATTTAATCTCAGCCATA-TAGGATTTACA-GATATGTTTTTACGAGCAT
66 TATCTATATTCATCTAATCAAATCTCAGCCACACT-GGATTTA-AGGATATGTTTTTACGAGCAT
* * *
956 CTGAATCTTGTTTCGATTT-ATACAAAAATTAATTTGGTAAAAATAGTAAAAACGATATTA-AGA
129 CTGAATCTTGTTTCGATTTAAT-CAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGA-A
* * * * * * *
1019 GCGTGAAAAGACTGCCAATATTTTTTGCATTCAATTATATATTATTAAGGCATAGTTTGGGCAAA
192 GCGTGAAAAGCCCGCCAATATTTTTGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAA
* * * * *
1084 AATTGATGAAAAATATTTT-GGGCCAATTTTTACAAAATTTTAGCTGAAATCATATACTAACCAT
257 AATTGACGAAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT--TAACCAT
*
1148 CACGGTTTCTGG
320 CACGGTTTCTAG
*
1160 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTGTGGCGCAGAGAGTCATTG-AA
1 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAAA
* * * *
1224 TATCTATATTTATCTAATCAAATCTTAGCCACACTAGATTTAAGGAAATGTTTTTACGAGCATCT
66 TATCTATATTCATCTAATCAAATCTCAGCCACACTGGATTTAAGGATATGTTTTTACGAGCATCT
* * * * * *
1289 GAATCTTGTTTTGATTTAATTAGAACTTAATTTGGAAAAAAATAGGAAAAACCATATTTGAAGCA
131 GAATCTTGTTTCGATTTAATCAGAAATTAATTTGG-AAAAAATAGGAAAAACGATATTAGAAGCG
* *** * * ** * *
1354 TGAAAATCCCTTAAATAGTTTTAGCGTTGGATTATATATTTTTTATG-AGTATTGT-GGCAAAAA
195 TGAAAAGCCCGCCAATATTTTTGGCGTTCAATTATATATTATTTATGCA-TATTTTGGGC-AAAA
* * ** * ** *
1417 ATTAACGAAAAA-CTTTTCGTTTTC-GTTTTAT-CAAAATTTTAGTTGAAATCGTGTGTTAACCA
258 ATTGACGAAAAATATTTTCG-GGTCAATTTT-TGCAAAATTTTAGCCGAAATC--ATGTTAACCA
1479 TCACGGTTTCT-G
319 TCACGGTTTCTAG
* * * * * * * *
1491 ACTGAAAATGCGTTCAGGGGCCCCAGCTCAGTTATGCATGATTTTTGGCGCCGAGACTCCTTGAA
1 -CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAA
* * * * *
1556 ATATCTATACTCATCTAATCAAATCTCAGTCACATTGGAATTAAGGATATGTTTATACGAGCATC
65 ATATCTATATTCATCTAATCAAATCTCAGCCACACTGGATTTAAGGATATGTTTTTACGAGCATC
* * * *
1621 TGAATCTTGTTCCGATTTTATCAGAAATTAATTTGGAAAAAATAGGAAAAACAATATTAGAACCG
130 TGAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCG
* * *
1686 TGAAAAGCCCGCCAATCTTTTTGGCGTTCAATTACATATT-TTTATGCGTATTTTGGGCAAAAAT
195 TGAAAAGCCCGCCAATATTTTTGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAAAT
* * * *
1750 TGAGGAAAAATATTTTCGAGTCAATTTCTGCAAAATTTTAGCCGAAATCATG-T-A-CATCACAG
260 TGACGAAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTTAACCATCACGG
1812 TTTCTAG
325 TTTCTAG
* * *
1819 TTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGTGCAGAGAGTCAATGAAA
1 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAAA
* * * *
1884 TATCTATATTTATCTAATCAAATCTCAGCCATACTGGATTTAAGGAAATGTTTTTACGTGCATCT
66 TATCTATATTCATCTAATCAAATCTCAGCCACACTGGATTTAAGGATATGTTTTTACGAGCATCT
*
1949 GAATCTTGTTTCGATTTAATC-GAAAATTAATTTGGAAAAAATAGGAAAAACTG-TATTAGAAAC
131 GAATCTTGTTTCGATTTAATCAG-AAATTAATTTGGAAAAAATAGGAAAAAC-GATATTAGAAGC
* * * * * *
2012 ATGTAAAGCCCGCCAATCTTTTTGGCGTTCAGTTATATATTTTTTATGCGTATTTTGGGCAAAAA
194 GTGAAAAGCCCGCCAATATTTTTGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAAA
* * * *
2077 TTGAGGAAAAATA-TTTCGGGTCAAATTTTGCAAAATTTTAGCCGAAATCATG-T-ACCTTCACT
259 TTGACGAAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTTAACCATCACG
*
2139 GTTTCTGG
324 GTTTCTAG
* * * **
2147 TTGAAAACGCGTTCTGCGGC-CCTGATTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAA
1 CTGAAAACGCGTTCCGGGGCTCC-GGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAA
* * *
2211 TTATCTATATTCATCTAATCAAATCTCAGCCAGA-TAAGATTTAAGGATATGTTTTTACGAGCAT
65 ATATCTATATTCATCTAATCAAATCTCAGCCACACT-GGATTTAAGGATATGTTTTTACGAGCAT
* * *
2275 CTGAATCTTGTTTCGGTTT-ATACAGAAATTAATTTGGTAAAAATAGGAAAAATGATATTAGAAG
129 CTGAATCTTGTTTCGATTTAAT-CAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAG
*
2339 CGTGAAAAGCCCGCCAATATTTTTGCCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAA
193 CGTGAAAAGCCCGCCAATATTTTTGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAA
* *
2404 ATTGATGAAAAATATTTT-GGGTCAATTTTTGCAAAATTTTAGCTGAAATCATG-T-ACCATCAC
258 ATTGACGAAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTTAACCATCAC
2466 GGTTTCTAG
323 GGTTTCTAG
* * * *
2475 CTGAAAACGCGTT-CGAGGCTCCGGATCAGTTTTGCATGATTTTTGGCGTAAAG-GCTCATTGAA
1 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAG-TCATTGAA
* * * * *
2538 ATATATATATTCATCTAATCAAATCTGAGCCACATTGGATGTAAGGATATATTTTTACGAGCATC
65 ATATCTATATTCATCTAATCAAATCTCAGCCACACTGGATTTAAGGATATGTTTTTACGAGCATC
* * * * *
2603 TGAATCTTGTTTAGATTTAATCGGAAATTAATTTGTAAAAAATAGGAAAAACCATATTATAAGCG
130 TGAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCG
* * * *
2668 TGAAAAGCCCGCCAATCTTGTTT-GCATTCGATTATATATTTTTTATGCATATTTTGGG-AAAAA
195 TGAAAAGCCCGCCAATATT-TTTGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAAA
* * * *
2731 ATGACGAAAAAGA-ATTCGGATCAATTTTTGCAAAATTTTAGCCGAAATCATGTATTAACCATCA
259 TTGACGAAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATG--TTAACCATCA
*
2795 CGGTTTCTGG
322 CGGTTTCTAG
* * * * * *
2805 TTGAAAACACGTTCTGGGGCTCCGGTTCAGTGTTGCATGATTTTTGGCGCAAAGAGTCATTGAAA
1 CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAAA
* *
2870 TATCTATATTCAACTAATCAAATCTCAGCCACACTGGATTTAAGGAAATGTTTTTACGAGCATCT
66 TATCTATATTCATCTAATCAAATCTCAGCCACACTGGATTTAAGGATATGTTTTTACGAGCATCT
2935 GAATCT
131 GAATCT
2941 AAAAATTGAG
Statistics
Matches: 2128, Mismatches: 262, Indels: 111
0.85 0.10 0.04
Matches are distributed among these distances:
325 2 0.00
326 50 0.02
327 457 0.21
328 353 0.17
329 6 0.00
330 32 0.02
331 277 0.13
332 806 0.38
333 140 0.07
334 5 0.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (331 bp):
CTGAAAACGCGTTCCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCGCAGAGAGTCATTGAAA
TATCTATATTCATCTAATCAAATCTCAGCCACACTGGATTTAAGGATATGTTTTTACGAGCATCT
GAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGT
GAAAAGCCCGCCAATATTTTTGGCGTTCAATTATATATTATTTATGCATATTTTGGGCAAAAATT
GACGAAAAATATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTTAACCATCACGGT
TTCTAG
Found at i:3138 original size:215 final size:215
Alignment explanation
Indices: 2726--3155 Score: 646
Period size: 215 Copynumber: 2.0 Consensus size: 215
2716 ATATTTTGGG
* * * *
2726 AAAAAATGACGAAAAAGAATTCGGATCAATTTTTGCAAAATTTTAGCCGAAATCATGTATTAACC
1 AAAAAATGACGAAAAAGAATTCGGATCAAATTTTACAAAATTTCAGCCGAAATCATGTACTAACC
* * * *
2791 ATCACGGTTTCTGGTTGAAAACACGTTCTGGGGCTCCGGTTCAGTGTTGCATGATTTTTGGCGCA
66 ATCACGGTTTCAGGTTGAAAACACATTCTGGGGCTCCCGCTCAGTGTTGCATGATTTTTGGCGCA
* *
2856 AAGAGTCATTGAAATATCTATATTCAACTAATCAAATCTCAGCCACACTGGATTTAAGGAAATGT
131 AAGAGTCATCGAAATATCTATATTCAACTAATCAAATCTCAGCCACAATGGATTTAAGGAAATGT
2921 TTTTACGAGCATCTGAATCT
196 TTTTACGAGCATCTGAATCT
* * * * *
2941 AAAAATTGAGGAAAAATATTTCGGGTCAAATTTTACAAAATTTCAGCCGAAATCATGTACTAACC
1 AAAAAATGACGAAAAAGAATTCGGATCAAATTTTACAAAATTTCAGCCGAAATCATGTACTAACC
* *
3006 ATCACGGTTTCAGGTTGAAAACGCATTCTGGGGCTCCCGCTCAGTTTTGCATGATTTTTGGCGCA
66 ATCACGGTTTCAGGTTGAAAACACATTCTGGGGCTCCCGCTCAGTGTTGCATGATTTTTGGCGCA
* * *
3071 GAGAGTCATCGAAATATCTATATTCATCTAATCAAATCTCAGCCA-AATAGGATTTAAGGATATG
131 AAGAGTCATCGAAATATCTATATTCAACTAATCAAATCTCAGCCACAAT-GGATTTAAGGAAATG
* *
3135 TTTTTTCGAGCATTTGAATCT
195 TTTTTACGAGCATCTGAATCT
3156 TGCTTCGATT
Statistics
Matches: 192, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
214 2 0.01
215 190 0.99
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (215 bp):
AAAAAATGACGAAAAAGAATTCGGATCAAATTTTACAAAATTTCAGCCGAAATCATGTACTAACC
ATCACGGTTTCAGGTTGAAAACACATTCTGGGGCTCCCGCTCAGTGTTGCATGATTTTTGGCGCA
AAGAGTCATCGAAATATCTATATTCAACTAATCAAATCTCAGCCACAATGGATTTAAGGAAATGT
TTTTACGAGCATCTGAATCT
Found at i:4287 original size:21 final size:21
Alignment explanation
Indices: 4261--4302 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4251 GTTACGCAGC
*
4261 GCTTCCAAAAGGGGTACATAA
1 GCTTCCAAAAAGGGTACATAA
*
4282 GCTTCCAAAAAGGTTACATAA
1 GCTTCCAAAAAGGGTACATAA
4303 TTTAAGAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (21 bp):
GCTTCCAAAAAGGGTACATAA
Found at i:6097 original size:12 final size:12
Alignment explanation
Indices: 6080--6104 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6070 GCCAGCCTCT
6080 TTCTTCTTTTTC
1 TTCTTCTTTTTC
6092 TTCTTCTTTTTC
1 TTCTTCTTTTTC
6104 T
1 T
6105 CGCCTAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:22357 original size:4 final size:4
Alignment explanation
Indices: 22348--22386 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
22338 GAAACACTGA
* * *
22348 AAAG AAAG AAAG AAAG AAAG AGAG AAAG AGAG AAGG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
22387 AAAAAGGGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:29359 original size:15 final size:15
Alignment explanation
Indices: 29339--29370 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29329 GATTTAAGAT
29339 ATCCTTAATAAGTAA
1 ATCCTTAATAAGTAA
*
29354 ATCCTTGATAAGTAA
1 ATCCTTAATAAGTAA
29369 AT
1 AT
29371 GGGGCTGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (15 bp):
ATCCTTAATAAGTAA
Found at i:32169 original size:32 final size:32
Alignment explanation
Indices: 32133--32213 Score: 114
Period size: 30 Copynumber: 2.6 Consensus size: 32
32123 CTACAATATG
*
32133 GATATACTAGTTTTTTTTTTTGGCAATAAAA-A
1 GATATACTAGTTTTTTTTTTT-GCAAGAAAATA
32165 GATATACTA--TTTTTTTTTTGCAAGAAAATA
1 GATATACTAGTTTTTTTTTTTGCAAGAAAATA
*
32195 GATATGCTAGTTTTTTTTT
1 GATATACTAGTTTTTTTTT
32214 GGCGATAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
29 8 0.18
30 19 0.43
32 17 0.39
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (32 bp):
GATATACTAGTTTTTTTTTTTGCAAGAAAATA
Found at i:32224 original size:30 final size:30
Alignment explanation
Indices: 32145--32325 Score: 132
Period size: 29 Copynumber: 6.1 Consensus size: 30
32135 TATACTAGTT
* * *
32145 TTTTTTTTTGGCAATAAAAAGATATACTA-
1 TTTTTTTTTGGCGATAAATAGATATGCTAG
*
32174 TTTTTTTTTTGCAAGA-AAATAGATATGCTAG
1 TTTTTTTTTGGC--GATAAATAGATATGCTAG
32205 TTTTTTTTTGGCGATAAAT--ATAT-CT--
1 TTTTTTTTTGGCGATAAATAGATATGCTAG
* *
32230 TTTTGTTCATTCGCGATAAATAGATATGCTAGG
1 TTTT-TT-TTTGGCGATAAATAGATATGCTA-G
*
32263 TTTTTTTTTTGAC-ATCAAAATAG-TATGCTAG
1 -TTTTTTTTTGGCGAT--AAATAGATATGCTAG
*
32294 -TTTTTTTTGGC-ACCAAATAGATATGCTAG
1 TTTTTTTTTGGCGA-TAAATAGATATGCTAG
32323 TTT
1 TTT
32326 AGTAGGACAA
Statistics
Matches: 122, Mismatches: 12, Indels: 35
0.72 0.07 0.21
Matches are distributed among these distances:
25 4 0.03
26 2 0.02
27 13 0.11
28 10 0.08
29 36 0.30
30 20 0.16
31 15 0.12
32 10 0.08
33 8 0.07
34 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.46
Consensus pattern (30 bp):
TTTTTTTTTGGCGATAAATAGATATGCTAG
Found at i:40725 original size:21 final size:21
Alignment explanation
Indices: 40699--40740 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
40689 ATAGCCTACT
*
40699 TCAACTCCAGTTCTAGGGAAC
1 TCAACTCCAGTTCCAGGGAAC
40720 TCAACTCCAGTTCCAGGGAAC
1 TCAACTCCAGTTCCAGGGAAC
40741 GGTTAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (21 bp):
TCAACTCCAGTTCCAGGGAAC
Found at i:44250 original size:19 final size:19
Alignment explanation
Indices: 44226--44262 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44216 TTAATTAGCA
44226 ACTGTACAGATGAGATTAC
1 ACTGTACAGATGAGATTAC
* *
44245 ACTGTATAGATTAGATTA
1 ACTGTACAGATGAGATTA
44263 GGTATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (19 bp):
ACTGTACAGATGAGATTAC
Found at i:52679 original size:2 final size:2
Alignment explanation
Indices: 52672--52704 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52662 TCTCCATAGT
52672 TA TA 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 TA TA T
52705 GTTTTATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72260 original size:12 final size:12
Alignment explanation
Indices: 72243--72269 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
72233 AATAACAATC
72243 TTATACTAGATT
1 TTATACTAGATT
72255 TTATACTAGATT
1 TTATACTAGATT
72267 TTA
1 TTA
72270 ATGGATTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (12 bp):
TTATACTAGATT
Found at i:73382 original size:21 final size:20
Alignment explanation
Indices: 73345--73405 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
73335 TGTAATGCTG
*
73345 AATTTTTTGATACCATTATA
1 AATTTTTTGATAACATTATA
*
73365 AATTTTTTGATAATCATTACA
1 AATTTTTTGATAA-CATTATA
* * *
73386 ACTTCTTTAATAACATTATA
1 AATTTTTTGATAACATTATA
73406 TAAAAATGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.48
Consensus pattern (20 bp):
AATTTTTTGATAACATTATA
Found at i:86570 original size:13 final size:13
Alignment explanation
Indices: 86550--86581 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
86540 TTTTCTCTCT
86550 TTTCTTTTTTT--
1 TTTCTTTTTTTGG
86561 TTTCTTTTTTTGG
1 TTTCTTTTTTTGG
86574 TTTCTTTT
1 TTTCTTTT
86582 CTCATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTCTTTTTTTGG
Found at i:87177 original size:15 final size:15
Alignment explanation
Indices: 87154--87188 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
87144 TTCAAAAACA
*
87154 ACTGAAAAAACACTT
1 ACTGGAAAAACACTT
87169 ACTGG-AAAACACTT
1 ACTGGAAAAACACTT
87183 ACTGGA
1 ACTGGA
87189 TTTTCCGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (15 bp):
ACTGGAAAAACACTT
Found at i:87179 original size:14 final size:14
Alignment explanation
Indices: 87160--87188 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
87150 AACAACTGAA
87160 AAAACACTTACTGG
1 AAAACACTTACTGG
87174 AAAACACTTACTGG
1 AAAACACTTACTGG
87188 A
1 A
87189 TTTTCCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
AAAACACTTACTGG
Found at i:92960 original size:65 final size:65
Alignment explanation
Indices: 92856--92993 Score: 240
Period size: 65 Copynumber: 2.1 Consensus size: 65
92846 TAGAGCGGTG
* * *
92856 TTACAGTGGTGTGATTGACACTATTTAACAGTAATTGATACTATTTAGTAACTGTACATATGAGA
1 TTACATTGGTGCGATTGACACTATTTAACAGTAATTGATACTATTTAGCAACTGTACATATGAGA
*
92921 TTACATTGGTGCGATTGACACTATTTAGCAGTAATTGATACTATTTAGCAACTGTACATATGAGA
1 TTACATTGGTGCGATTGACACTATTTAACAGTAATTGATACTATTTAGCAACTGTACATATGAGA
92986 TTACATTG
1 TTACATTG
92994 TACAAATTAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (65 bp):
TTACATTGGTGCGATTGACACTATTTAACAGTAATTGATACTATTTAGCAACTGTACATATGAGA
Found at i:92997 original size:19 final size:20
Alignment explanation
Indices: 92965--93028 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
92955 TTGATACTAT
92965 TTAGCAACTGTACATATGAGA
1 TTAGC-ACTGTACATATGAGA
* * *
92986 TTA-CATTGTACAAATTAGA
1 TTAGCACTGTACATATGAGA
*
93005 TTAGGTACTGTACATATGAGA
1 TTA-GCACTGTACATATGAGA
93026 TTA
1 TTA
93029 TTAGAGCAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 15 0.44
20 1 0.03
21 18 0.53
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (20 bp):
TTAGCACTGTACATATGAGA
Found at i:96158 original size:40 final size:40
Alignment explanation
Indices: 96103--96188 Score: 172
Period size: 40 Copynumber: 2.1 Consensus size: 40
96093 AAAGGGAATT
96103 GATCGGTTCAATGTACGAATAAGAAGAAGAAGAAGAAGAA
1 GATCGGTTCAATGTACGAATAAGAAGAAGAAGAAGAAGAA
96143 GATCGGTTCAATGTACGAATAAGAAGAAGAAGAAGAAGAA
1 GATCGGTTCAATGTACGAATAAGAAGAAGAAGAAGAAGAA
96183 GATCGG
1 GATCGG
96189 ATGCTACAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.48, C:0.08, G:0.29, T:0.15
Consensus pattern (40 bp):
GATCGGTTCAATGTACGAATAAGAAGAAGAAGAAGAAGAA
Found at i:102749 original size:18 final size:17
Alignment explanation
Indices: 102716--102749 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
102706 ATGTTTACTC
102716 TGCTGATGAAATAGATT
1 TGCTGATGAAATAGATT
*
102733 TGCTGACTGAGATAGAT
1 TGCTGA-TGAAATAGAT
102750 GCAAAGGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (17 bp):
TGCTGATGAAATAGATT
Found at i:127078 original size:334 final size:332
Alignment explanation
Indices: 126448--127577 Score: 1403
Period size: 333 Copynumber: 3.4 Consensus size: 332
126438 GGACTTTTCA
* *
126448 AGACTCCTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTGGATTTAAAAATTTGTT
1 AGACTACTTGAAATATCCATATTCATCTAATCAAATCTCAGCCACATTGGATTT-AAAATTTGTT
* * *
126513 TTTGCGAGCATCTGAATCTTATTTCGATTTAATTAAAAATTAATTCAGAAAAAATATGAAAAACG
65 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACG
*
126578 ATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTAGTGCTAAATTATATATATTTTATGAATATT
130 ATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTAGTGTTAAATTATATATATTTTATGAATATT
*
126643 TCATCCAAAAATTGAGGAAAATTTTTTCGGGTCATTTTTTTTACAAAATTTTAGCCAAAATCGTG
195 TTATCCAAAAATTGAGGAAAA--TTTTCGGGTCA--TTTTTTACAAAATTTTAGCCAAAATCGTG
* * * * * *
126708 TACTAACCATCAC-G--ATTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTTAGGTTTGCAAGA
256 TACTAACCATCACAGTTTTTTTTTGCTAAAAAAGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGA
126770 TTTTTGGCTCCG
321 TTTTTGGCTCCG
* * *
126782 AGACTACTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGCT
1 AGACTACTTGAAATATCCATATTCATCTAATCAAATCTCAGCCACATTGGATTTAA-AATTTGTT
* * * ** *
126847 TTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATCATTTC-GGGAAAATAGGAAAAACG
65 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACG
* * * * * * *
126911 ATATTAGAAGCGTCAAAA-TCTCTTCAATCTTTTT-GTCGTTGAATTATATATTTTTTAAGATTA
130 ATATTAAAAGCGTGAAAAGTC-CTCCAATCTTTTTAGT-GTTAAATTATATATATTTTATGAATA
* * * * *
126974 TTTTAGCCAAAAATTGAGGAAATATCTTCCGGGTCAATCTTTACAAAATTTTAGCCGAAATCGTG
193 TTTTATCCAAAAATTGAGGAAA-AT-TTTCGGGTCATTTTTTACAAAATTTTAGCCAAAATCGTG
* * * ** *
127039 TAATAACCGTCACAGTTTTTTTTTGTTAAAAAAGCGTTTC-GGGCCCCAACTCAATTTTGCATGA
256 TACTAACCATCACAGTTTTTTTTTGCTAAAAAAGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGA
** *
127103 TTTTTGGCGACA
321 TTTTTGGCTCCG
* * * * * * *
127115 AAACTCCTGGAGATATCCATATTCATATAATCAAATCTCAACCACATTGGATTTAAAATTTATTT
1 AGACTACTTGAAATATCCATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAATTTGTTT
* *
127180 TTACGAGCATCTGAATGTTGTTTTGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGA
66 TTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGA
* * *
127245 TATTAAAAGTGTGAAAAGTCCTCCAATCTTTTTGGTGTTAAATTATATATATTTTATGAATAATT
131 TATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTAGTGTTAAATTATATATATTTTATGAATATTT
*** * * * *
127310 TATCTTGAAATTGAGGAAAAAATTTTTGGCTCATTTTTTCGCAAAATTTTAGTCAAAATCGTGTA
196 TATCCAAAAATTGAGG--AAAATTTTCGGGTCATTTTTT-ACAAAATTTTAGCCAAAATCGTGTA
* * *
127375 CTAACCATCACAGTTTTTTTTTGGCTAAAAAAGCGTTTCGAGACCTCGGCTCAGTTTTGCATGAT
258 CTAACCATCACAGTTTTTTTTT-GCTAAAAAAGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGAT
*
127440 TATT-GCTCCG
322 TTTTGGCTCCG
* * * * *
127450 AGACTACTTGAAATATCTATATTCAACTAATCAAAACTCAGCCACATTGCATTTAATTATTTGTT
1 AGACTACTTGAAATATCCATATTCATCTAATCAAATCTCAGCCACATTGGATTTAA-AATTTGTT
* **
127515 TTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATATGAAAAA
65 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAA
127578 ATCGAAAAAA
Statistics
Matches: 667, Mismatches: 112, Indels: 32
0.82 0.14 0.04
Matches are distributed among these distances:
331 37 0.06
332 52 0.08
333 260 0.39
334 165 0.25
335 67 0.10
336 86 0.13
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (332 bp):
AGACTACTTGAAATATCCATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAATTTGTTT
TTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGA
TATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTAGTGTTAAATTATATATATTTTATGAATATTT
TATCCAAAAATTGAGGAAAATTTTCGGGTCATTTTTTACAAAATTTTAGCCAAAATCGTGTACTA
ACCATCACAGTTTTTTTTTGCTAAAAAAGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTT
GGCTCCG
Found at i:128984 original size:334 final size:333
Alignment explanation
Indices: 127596--131263 Score: 5428
Period size: 333 Copynumber: 11.1 Consensus size: 333
127586 AATCTGAATC
*
127596 TTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * * *
127661 TCCATTGTGGCTGATATTTGGGATGATTAATATAGATATTTCAATGAGTCTTTGCGCGAAATATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * *
127726 ATGCAAAATTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGAACACGA
131 ATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
* *
127791 TTTCGGC-AAAAA-TT------A---ACCCGAAAGATTTTTTCTCAATTTTTAACCACAGTACCC
196 TTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACTC
** * *
127845 GT-AAAAATATATAATTCAATACCAAAAAGATTGAAGGGTTTTTCACGCTTGTAATATCATTTTT
261 GTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTT
127909 TCAATTCT
326 TCAATTCT
127917 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCCA-ATGATCGTAAAAACAAATCCTTAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATT-CAGATGATCGTAAAAACAAATCCTTAA
* * * * * * * **
127981 ATCCATTGTGGCTGTGATTTAGGATGAATATTACAGATATTTAAATGAGTCATGGTTCCAAAAAT
65 ATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAAT
* * ** *
128046 CATGCAAAACTGAGCCGGGCCACCGGAACATGTCTTTAGCCAAAAACCGTGATGGTTAGTACACG
130 CATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACG
* * *
128111 ATTTCTGCAAAAAAATTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCATAGTACT
195 ATTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
* *
128176 CATAAAAAATATATGATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
128241 TTCAATTCT
325 TTCAATTCT
* *
128250 TTCCTGAATTAATTTCTAATTAAATCGAAACAAGATTCATATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * *
128315 TCCATTGTGGCTGACATTTGGGATGATTAATATAGATATTTCAGTGAGACTTGGCGCCAAAAATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * *
128380 ATGCAAAACTGAGTCGGGGCACCAGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACATGA
131 ATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
*
128445 TTTCGGC-AAAAATTTAGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAACCACAGTACT
196 TTTCGGCAAAAAATTT-GCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
*
128509 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATAATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
*
128574 TTCAATTCA
325 TTCAATTCT
* *
128583 TTCCCGAATTAATCTCTAACTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * *
128648 TCCATTGTGGCTAAGATTTGGGAAGATTAATATAGATATTTCAATGAGTCTTGGTGCCAAAAATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * *
128713 ATGCAAAACTGAGTAGGGGCACCGGAACACGTTTTTAGCCAAAAACCGTGAT-GTAACGTACACG
131 ATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA-GTACACG
* * *
128777 ATTTCGGCAAAAAAATTGCAAAAATTAACCCGAAAGATTTTTTCCTCAATTTTTAGCCACAGTAC
195 ATTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGA-TTTTTCCTCAATTTTTAACCACAGTAC
* *
128842 TCGTAAAAAATATATAATTCAAAGCCTAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
259 TCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
128907 TTTCAATTCT
324 TTTCAATTCT
* *
128917 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCGGATAATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * * * * * *
128982 TCCCTTGTGCCTAAGATTTGGGATGATTAATATAGATGTTTCAATGAGTCTTGACTCCAAATATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
*
129047 ATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAACGTACAC
131 ATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT-A-GTACAC
* * * * *
129112 GATTTCTGTAAAAAATTTGCAAAAATTGACCCAAAAGATTATTCCTCATTTTTTAACCACAGTAC
194 GATTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTAC
* * *
129177 TCGTAAAAAATTTATAATTCAACGCCATAAAGAATGAAGGGCTTTTCACGCTTCTAATATCATTT
259 TCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
129242 TTTCAATTCT
324 TTTCAATTCT
* *
129252 TTCCCGAATTAATTTCTAATTAAATCAAAACAAAATTCAGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * * * *
129317 TCCATTGTGGCTGATATTTGGGATGATTAATATATATATTTCAATGATTCTTGGCGCGAAATATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * *
129382 ATGTAAAACTGAGTTGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGCTTAGTACACGA
131 ATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
* * * * *
129447 TTTCGGCAAAAATTTTGCAAAAATTAACCCGAAAGATTTTTTTCTCAATTTTTAACTACAGTACC
196 TTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGA-TTTTTCCTCAATTTTTAACCACAGTACT
* * *
129512 CGTAAAAAATA-ATTAATTCAATGCCAAAAAGATTGAAGGGTTTTTCACACTTCTAATATCATTT
260 CGTAAAAAATATA-TAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
129576 TTTCAATTCT
324 TTTCAATTCT
*
129586 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCCGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * * * **
129651 TCCATTGTGGCTGAGATTTGGGATGAATATTACAGATATTTAAATGAGTCTTGGTTCCAAAAATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * *
129716 ATGCAAAACTGAGCCGGGGCACCGGAACACGTCTTTT-GCCAAAAACCGTGATGGTTAGTACACA
131 ATGCAAAACTGAGTCGGGGCACCGGAACGCGT-TTTTAGCCAAAAACCGTGATGGTTAGTACACG
* * **
129780 ATTTCTGCAAAAAAATTGCAAAAATTGACCCGAAAGGGTTTTCCTCAATTTTTAACCACAGTACT
195 ATTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
*
129845 CGTAAAAAATATATGATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
129910 TTCAATT-T
325 TTCAATTCT
*
129918 CTTCCCGAATTAATTTCTAGTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAA
1 -TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAA
* * * *
129983 ATCCATTGTGGCTGAGATTTGGGATGATTAATAAAGATATTTCAGTGAGTCTTGGAGCCAAATAT
65 ATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAAT
* *
130048 CATGCAAAACTGAGTCGGGACACCGGAACGCGTTTTTAGCCAAAAACCTTGATGGTTAGTACACG
130 CATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACG
* * * *
130113 ATTTCTGCAAAAACAATTGCAAAAATTGACCCGAAAGGTTTTTCCTCAACTTTTAACCACAGTAC
195 ATTTCGGCAAAAA-ATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTAC
* * * * *
130178 TCGTAGAAAATATATGATTCAATGCCAAAAAGATTGAAGGGCTTCTCATGCTTCTAATATCATTT
259 TCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
*
130243 TTTCAATTTT
324 TTTCAATTCT
* * *
130253 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCATATGATGGTAAAAAGAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
** * *
130318 TCCATTGTAACTGATATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATA
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * * * * *
130383 ATGCAAAACTAAG-CTAGGGCACCGGAACACATTTTTAGGCAAAAACTGTGATGGTTAGTACACG
131 ATGCAAAACTGAGTC-GGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACG
* * * * * * *
130447 ATTTTGGCGAAAAATTTGCAAAAATTGACCCGAAAGATATTTCCTCAATTTTCAACCGCAATACA
195 ATTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
130512 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
130577 TTCAATTCT
325 TTCAATTCT
* * * *
130586 TTCCCGAATTAATTTCTAATTAAATCGAAATAAGATTCATATGATGGTAAAAAGAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
** * * *
130651 TCCATTGTGATTGATATTTGGG-TGATTAATATAGGTATTTCAATGAATCTTGGCGCCAAAAATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* *
130715 ATGCAAAACTGAG-CTAGGGCACCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACG
131 ATGCAAAACTGAGTC-GGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACG
130779 ATTTCGGC-AAAAA-TT------A---ACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
195 ATTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
** *
130833 CGTAAAAAATATATAATTCAATACCAAAAAGATTGAAGGGC-TTTCACGCTTTTAATATCATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
130897 TTCAATTCT
325 TTCAATTCT
130906 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
**
130971 TCCATTGTTACAT-AGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAAT
66 TCCATTGTGGC-TGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAAT
*
131035 CATGC-AAACTGAGTCGGGGCACCGGAACGCGTTTTTGGCCAAAAACCGTGATGGTTAGTACACG
130 CATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACG
* ** *
131099 ATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCAAAATTTTTAACAACAGTACT
195 ATTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
* * *
131164 -GATAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATATCATAT
260 CG-TAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
131228 TTTCAATTCT
324 TTTCAATTCT
131238 TTCCCGAATTAATTTCTAATTAAATC
1 TTCCCGAATTAATTTCTAATTAAATC
Statistics
Matches: 3024, Mismatches: 278, Indels: 79
0.89 0.08 0.02
Matches are distributed among these distances:
320 171 0.06
321 298 0.10
322 9 0.00
323 2 0.00
324 1 0.00
328 1 0.00
329 1 0.00
330 3 0.00
331 77 0.03
332 216 0.07
333 1072 0.35
334 863 0.29
335 269 0.09
336 41 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (333 bp):
TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
ATGCAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
TTTCGGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACTC
GTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTT
TCAATTCT
Found at i:130084 original size:667 final size:666
Alignment explanation
Indices: 127596--131263 Score: 5446
Period size: 667 Copynumber: 5.5 Consensus size: 666
127586 AATCTGAATC
*
127596 TTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * * *
127661 TCCATTGTGGCTGATATTTGGGATGATTAATATAGATATTTCAATGAGTCTTTGCGCGAAATATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * * *
127726 ATGCAAAATTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTAGAACACGA
131 ATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
* * *
127791 TTTC-G----------GCAAAAATTAACCCGAAAGATTTTTTCTCAATTTTTAACCACAGTACCC
196 TTTCTGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACTC
** * *
127845 GT-AAAAATATATAATTCAATACCAAAAAGATTGAAGGGTTTTTCACGCTTGTAATATCATTTTT
261 GTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTT
127909 TCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCCA-ATGATCGTAAAAACAA
326 TCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATT-CAGATGATCGTAAAAACAA
* * * * * * * **
127973 ATCCTTAAATCCATTGTGGCTGTGATTTAGGATGAATATTACAGATATTTAAATGAGTCATGGTT
390 ATCCTTAAATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCG
** * ** *
128038 CCAAAAATCATGCAAAACTGAGCCGGGCCACCGGAACATGTCTTTAGCCAAAAACCGTGATGGTT
455 CCAAAAATCATGCAAAACTGAGTAGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT
* *
128103 AGTACACGATTTCTGCAAAAAAATTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACC
520 AGTACACGATTTCGGCAAAAAAATTGCAAAAATTAACCCGAAAGATTTTTCCTCAATTTTTAACC
* * * *
128168 ATAGTACTCATAAAAAATATATGATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAAT
585 ACAGTACTCGTAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAAT
128233 ATCATTTTTTCAATTCT
650 ATCATTTTTTCAATTCT
* *
128250 TTCCTGAATTAATTTCTAATTAAATCGAAACAAGATTCATATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * *
128315 TCCATTGTGGCTGACATTTGGGATGATTAATATAGATATTTCAGTGAGACTTGGCGCCAAAAATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* * * *
128380 ATGCAAAACTGAGTCGGGGCACCAGAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACATGA
131 ATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
* *
128445 TTTCGGC-AAAAATTTAGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAACCACAGTACT
196 TTTCTGCAAAAAATTT-GCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
*
128509 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATAATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
* * *
128574 TTCAATTCATTCCCGAATTAATCTCTAACTAAATCGAAACAAGATTCAGATGATCGTAAAAACAA
325 TTCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAA
* * *
128639 ATCCTTAAATCCATTGTGGCTAAGATTTGGGAAGATTAATATAGATATTTCAATGAGTCTTGGTG
390 ATCCTTAAATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCG
* *
128704 CCAAAAATCATGCAAAACTGAGTAGGGGCACCGGAACACGTTTTTAGCCAAAAACCGTGAT-GTA
455 CCAAAAATCATGCAAAACTGAGTAGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT
*
128768 ACGTACACGATTTCGGCAAAAAAATTGCAAAAATTAACCCGAAAGATTTTTTCCTCAATTTTTAG
520 A-GTACACGATTTCGGCAAAAAAATTGCAAAAATTAACCCGAAAGA-TTTTTCCTCAATTTTTAA
* *
128833 CCACAGTACTCGTAAAAAATATATAATTCAAAGCCTAAAAGATTGAAGGGCTTTTCACGCTTCTA
583 CCACAGTACTCGTAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTA
128898 ATATCATTTTTTCAATTCT
648 ATATCATTTTTTCAATTCT
* *
128917 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCGGATAATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * * * * * *
128982 TCCCTTGTGCCTAAGATTTGGGATGATTAATATAGATGTTTCAATGAGTCTTGACTCCAAATATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
129047 ATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAACGTACAC
131 ATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT-A-GTACAC
* * * *
129112 GATTTCTGTAAAAAATTTGCAAAAATTGACCCAAAAGATTATTCCTCATTTTTTAACCACAGTAC
194 GATTTCTGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTAC
* * *
129177 TCGTAAAAAATTTATAATTCAACGCCATAAAGAATGAAGGGCTTTTCACGCTTCTAATATCATTT
259 TCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
* *
129242 TTTCAATTCTTTCCCGAATTAATTTCTAATTAAATCAAAACAAAATTCAGATGATCGTAAAAACA
324 TTTCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACA
* * *
129307 AATCCTTAAATCCATTGTGGCTGATATTTGGGATGATTAATATATATATTTCAATGATTCTTGGC
389 AATCCTTAAATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGC
* * * * *
129372 GCGAAATATCATGTAAAACTGAGTTGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGCT
454 GCCAAAAATCATGCAAAACTGAGTAGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT
** *
129437 TAGTACACGATTTCGGCAAAAATTTTGCAAAAATTAACCCGAAAGATTTTTTTCTCAATTTTTAA
519 TAGTACACGATTTCGGCAAAAAAATTGCAAAAATTAACCCGAAAGA-TTTTTCCTCAATTTTTAA
* * * *
129502 CTACAGTACCCGTAAAAAATA-ATTAATTCAATGCCAAAAAGATTGAAGGGTTTTTCACACTTCT
583 CCACAGTACTCGTAAAAAATATA-TAATTCAATGCCAAAAAGATTGAAGGGCTTTTCACGCTTCT
129566 AATATCATTTTTTCAATTCT
647 AATATCATTTTTTCAATTCT
*
129586 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCCGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
* * * * **
129651 TCCATTGTGGCTGAGATTTGGGATGAATATTACAGATATTTAAATGAGTCTTGGTTCCAAAAATC
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* *
129716 ATGCAAAACTGAGCCGGGGCACCGGAACACGTCTTTT-GCCAAAAACCGTGATGGTTAGTACACA
131 ATGCAAAACTGAGCCGGGGCACCGGAACGCGT-TTTTAGCCAAAAACCGTGATGGTTAGTACACG
* **
129780 ATTTCTGCAAAAAAATTGCAAAAATTGACCCGAAAGGGTTTTCCTCAATTTTTAACCACAGTACT
195 ATTTCTGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
*
129845 CGTAAAAAATATATGATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
*
129910 TTCAATT-TCTTCCCGAATTAATTTCTAGTTAAATCGAAACAAGATTCAGATGATCGTAAAAACA
325 TTCAATTCT-TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACA
* * *
129974 AATCCTTAAATCCATTGTGGCTGAGATTTGGGATGATTAATAAAGATATTTCAGTGAGTCTTGGA
389 AATCCTTAAATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGC
* * * *
130039 GCCAAATATCATGCAAAACTGAGTCGGGACACCGGAACGCGTTTTTAGCCAAAAACCTTGATGGT
454 GCCAAAAATCATGCAAAACTGAGTAGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT
* * * *
130104 TAGTACACGATTTCTGCAAAAACAATTGCAAAAATTGACCCGAAAGGTTTTTCCTCAACTTTTAA
519 TAGTACACGATTTCGGCAAAAA-AATTGCAAAAATTAACCCGAAAGATTTTTCCTCAATTTTTAA
* * * *
130169 CCACAGTACTCGTAGAAAATATATGATTCAATGCCAAAAAGATTGAAGGGCTTCTCATGCTTCTA
583 CCACAGTACTCGTAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTA
*
130234 ATATCATTTTTTCAATTTT
648 ATATCATTTTTTCAATTCT
* * *
130253 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCATATGATGGTAAAAAGAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
** * *
130318 TCCATTGTAACTGATATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATA
66 TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
* ** * * * *
130383 ATGCAAAACTAAGCTAGGGCACCGGAACACATTTTTAGGCAAAAACTGTGATGGTTAGTACACGA
131 ATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
* * * * * *
130448 TTT-TGGCGAAAAATTTGCAAAAATTGACCCGAAAGATATTTCCTCAATTTTCAACCGCAATACA
196 TTTCT-GCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
130512 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
260 CGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTT
* * * *
130577 TTCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAATAAGATTCATATGATGGTAAAAAGAA
325 TTCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAA
** * * *
130642 ATCCTTAAATCCATTGTGATTGATATTTGGG-TGATTAATATAGGTATTTCAATGAATCTTGGCG
390 ATCCTTAAATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCG
*
130706 CCAAAAATCATGCAAAACTGAGCTA-GGGCACCGGAACGCATTTTTAGCCAAAAACCGTGATGGT
455 CCAAAAATCATGCAAAACTGAG-TAGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT
130770 TAGTACACGATTTC-G----------GCAAAAATTAACCCGAAAGATTTTTCCTCAATTTTTAAC
519 TAGTACACGATTTCGGCAAAAAAATTGCAAAAATTAACCCGAAAGATTTTTCCTCAATTTTTAAC
* *
130824 CACAGTACTCGTAAAAAATATATAATTCAATACCAAAAAGATTGAAGGGC-TTTCACGCTTTTAA
584 CACAGTACTCGTAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAA
130888 TATCATTTTTTCAATTCT
649 TATCATTTTTTCAATTCT
130906 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
1 TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
**
130971 TCCATTGTTACAT-AGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAAT
66 TCCATTGTGGC-TGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAAT
* *
131035 CATGC-AAACTGAGTCGGGGCACCGGAACGCGTTTTTGGCCAAAAACCGTGATGGTTAGTACACG
130 CATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACG
* * ** *
131099 ATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCAAAATTTTTAACAACAGTACT
195 ATTTCTGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACT
* * *
131164 -GATAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATATCATAT
260 CG-TAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTT
131228 TTTCAATTCTTTCCCGAATTAATTTCTAATTAAATC
324 TTTCAATTCTTTCCCGAATTAATTTCTAATTAAATC
Statistics
Matches: 2731, Mismatches: 252, Indels: 64
0.90 0.08 0.02
Matches are distributed among these distances:
651 1 0.00
652 198 0.07
653 154 0.06
654 268 0.10
655 1 0.00
665 53 0.02
666 373 0.14
667 1050 0.38
668 25 0.01
669 594 0.22
670 14 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (666 bp):
TTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAA
TCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATC
ATGCAAAACTGAGCCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
TTTCTGCAAAAAATTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCACAGTACTC
GTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTT
TCAATTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAA
TCCTTAAATCCATTGTGGCTGAGATTTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGC
CAAAAATCATGCAAAACTGAGTAGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
GTACACGATTTCGGCAAAAAAATTGCAAAAATTAACCCGAAAGATTTTTCCTCAATTTTTAACCA
CAGTACTCGTAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA
TCATTTTTTCAATTCT
Done.