Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017895.1 Corchorus olitorius cultivar O-4 contig17928, 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: 248595
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1262 original size:658 final size:653
Alignment explanation
Indices: 1--1486 Score: 1935
Period size: 658 Copynumber: 2.3 Consensus size: 653
* * *
1 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT--TAAAAATATGA
1 ATTTGTTTTTATGTGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGA
* * ** * *
64 AAAACGATATTAAAAGCGTGAAAAAG-GCTTTCAATTTTTTTGGCGTTGAATTATATATTTTTAA
66 AAAACGATATTAAAAGCGTG-AAAAGTAC-TCCAATCCTTTTGACGTTGAATTATATATTTTTTA
* * * * * *
128 GGAGTATTTTCGCTCGAAATCGAGGAAAAATCTTT-TGAGTCAATTTTTGCAAAATTTTAGCCGA
129 TGAGTATTTTTGCTAGAAATTGAGGAAAAATCTTTCGGA-TCAATTTTTACAAAATTTTAGCCGA
** *
192 AATCATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTCCGGGGCCGGACTTAGTTTTGCA
193 AATCATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTCCGGGGCCCAACTCAGTTTTGCA
* * *
257 TGATTTTTGGTGTCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAG
258 GGATTTTTGGTGCCAAGA--CCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAA
322 ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAGTTAAAAATTAATTTGGAA
321 ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAGTT-AAAATTAATTTGGAA
* * *
387 AAAATAGGAAAACGATATTAGAAACGTCAAAAACCCTTCAATCTTTTTGGCGTTCAATTATATAT
385 AAAATAGGAAAACAATATTAGAAACGTCAAAAACCCTTCAATCTTTATGACGTTCAATTATATAT
452 TTTTTATAAGTATTTTAACCAAAAATTGAGGAAATAATTTTCTAATCAATTTTTACAAAATTTTA
450 TTTTTATAAGTATTTTAACCAAAAATTGAGGAAATAATTTTCTAATCAATTTTTACAAAATTTTA
** * * * * * *
517 GCCGAAATCGTTTAATAATCATCATAGTTTTTGACTAAAAAAAACGTTTGGGGGCTCAGTTTTGC
515 GCCGAAATCGTGCAATAACCATAACAGTTTTTGACTAAAAAAAACGTTTAGGGCCACAGTTTTGC
* * * *
582 ATGATTTTTGGCACCAAGACTCCTTGAGATAT-TCATATTCATCTAATCAAATCTCAGCCACATT
580 ATAATTTTTGACACCAAGACTCCTTGAAATATCT-ATATTCATCTAATCAAATCTCAGACACATT
*
646 GGATTTAATA
644 GGATTTAAGA
* * *
656 ATTTGTTTTTATGTGCATCTGAATTTTGTTTCGATCTAATTACAAATTAATTCAGAAAAAATATG
1 ATTTGTTTTTATGTGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAATATG
* * * *
721 AAAAACGATATTAAAAGCGTGGAAAGTACACCAATCCTTTTGACGTTGAACTGTATATTTTTTAT
65 AAAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGACGTTGAATTATATATTTTTTAT
* *
786 GCGTATTTTTGCTAGAAATTGAGGAAAAGTCTTTCGGATCAATTTTTACAAAAATTTTAGCCGAA
130 GAGTATTTTTGCTAGAAATTGAGGAAAAATCTTTCGGATCAATTTTTAC-AAAATTTTAGCCGAA
*
851 ATCATGTACTAACCATCACGGTTTTTGGCTAAAACCGCGTTCCGGGGCCCAACTCAGTTTTGCAG
194 ATCATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTCCGGGGCCCAACTCAGTTTTGCAG
*
916 GATTTTTTGTGCCAAGA-CTTGAAATAAT-TATATTCATCTAACCAAATCTCAGCCA-AGTTAAA
259 GATTTTTGGTGCCAAGACCTTGAAAT-ATCTATATTCATCTAACCAAATCTCAGCCACA-TTAAA
*
978 TTTAAGGATTTGTTTTTAGGAGCATCTGAATCTTGTTTCGATTTAA-TT-AAATTAATTT-GAAA
322 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA-TTAAGTTAAAATTAATTTGGAAA
* * * *
1040 AAATAGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCAATCTTTATGATGTTGAATTATATAT
386 AAATAGG-AAAACAATATTAGAAACGTCAAAAACCCTTCAATCTTTATGACGTTCAATTATATAT
* ** ** *
1105 TTTTTATGAGTATTTTAGGCAAAAATTGAGGAAAT-ATCTTT-TGGCTCAATTTTTGCAAAATTT
450 TTTTTATAAGTATTTTAACCAAAAATTGAGGAAATAAT-TTTCT-AATCAATTTTTACAAAATTT
* * * * * **
1168 TAGTCGAAATCGTGCACTAACCATAACGGTTTTTGGCT-AAGAACGCGTTCTAGGGCCACAAATA
513 TAGCCGAAATCGTGCAATAACCATAACAGTTTTTGACTAAAAAAAACGTT-TAGGGCCAC----A
* *
1232 TGTTTTGCATAATTTTTGACACCGAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAG
573 -GTTTTGCATAATTTTTGACACCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAG
*
1297 ACACATTGGATTTAAGG
637 ACACATTGGATTTAAGA
* *
1314 ATTTGTTTTCATGTGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGA
1 ATTTGTTTTTATGTGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGA
* * * * *
1379 AAAATGATATTAAAAGCGTGAAAAGTCCTCTAATCCTTTT-AGCGTTGAATTATATATATTGTAT
66 AAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGA-CGTTGAATTATATATTTTTTAT
* * * *
1443 GAGTA-TTTTGCCAAAAATTGCGGAAAAATCTTTCGGGTC-ATTTT
130 GAGTATTTTTGCTAGAAATTGAGGAAAAATCTTTCGGATCAATTTT
1487 AACCATCATG
Statistics
Matches: 722, Mismatches: 89, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
652 22 0.03
653 147 0.20
654 1 0.00
655 133 0.18
656 36 0.05
657 138 0.19
658 244 0.34
659 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (653 bp):
ATTTGTTTTTATGTGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGA
AAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGACGTTGAATTATATATTTTTTATG
AGTATTTTTGCTAGAAATTGAGGAAAAATCTTTCGGATCAATTTTTACAAAATTTTAGCCGAAAT
CATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTCCGGGGCCCAACTCAGTTTTGCAGGA
TTTTTGGTGCCAAGACCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAATTTA
AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAGTTAAAATTAATTTGGAAAAAATA
GGAAAACAATATTAGAAACGTCAAAAACCCTTCAATCTTTATGACGTTCAATTATATATTTTTTA
TAAGTATTTTAACCAAAAATTGAGGAAATAATTTTCTAATCAATTTTTACAAAATTTTAGCCGAA
ATCGTGCAATAACCATAACAGTTTTTGACTAAAAAAAACGTTTAGGGCCACAGTTTTGCATAATT
TTTGACACCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGACACATTGGATTTA
AGA
Found at i:1270 original size:329 final size:325
Alignment explanation
Indices: 1--1475 Score: 1549
Period size: 326 Copynumber: 4.5 Consensus size: 325
1 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTT--AAAAATATGA
1 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA-AAATTAATTTGAAAAAATATGA
* * * * * *
64 AAAACGATATTAAAAGCGTGAAAAAGGCTTTCAATTTTTTTGGCGTTGAATTATATATTTTTAAG
65 AAAACGATATTAAAAGCGTGAAAAA-CCCTTCAA-TCTTTTGACGTTGAATTATATATTTTTTAT
* ** * *
129 GAGTATTTTCGCTCGAAATCGAGGAAAAATCTTTT-GAGTCAATTTTTGCAAAATTTTAGCCGAA
128 GAGTATTTTGGC-AAAAATTGAGGAAAAATCTTTTGGA-TCAATTTTTACAAAATTTTAGCCGAA
* * *
193 ATCATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTCCGGGGCCGGACTTAGTTTTGCAT
191 ATCATGTACTAACCATCACGGTTTTTGGCTAAAACCGCGTTCCGGGGCC-CA-ATAGTTTTGCAT
* ***
258 GATTTTTGGTGTCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAGA
254 AATTTTTGGCACCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAGA
323 TTTAAGG
319 TTTAAGG
330 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA-TTAAGTTAAAAATTAATTTGGAAAAAATA-
1 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA-TT-AAAATTAATTT-GAAAAAATAT
* * * *
393 GGAAAACGATATTAGAAA-CGTCAAAAACCCTTCAATCTTTTTGGCGTTCAATTATATATTTTTT
63 GAAAAACGATATTA-AAAGCGTGAAAAACCCTTCAATC-TTTTGACGTTGAATTATATATTTTTT
* ** *
457 ATAAGTATTTTAACCAAAAATTGAGGAAATAAT-TTTCT-AATCAATTTTTACAAAATTTTAGCC
126 ATGAGTATTTT-GGCAAAAATTGAGGAAA-AATCTTT-TGGATCAATTTTTACAAAATTTTAGCC
* * * * ** * *** ** *
520 GAAATCGTTTAATAATCATCATAGTTTTTGACTAAAAAAAACGTTTGGGGGCTC---AGTTTTGC
188 GAAATCATGTACTAACCATCACGGTTTTTGGCT-AAAACCGCGTTCCGGGGCCCAATAGTTTTGC
* * *
582 ATGATTTTTGGCACCAAGACTCCTTGAGATAT-TCATATTCATCTAATCAAATCTCAGCCACATT
252 ATAATTTTTGGCACCAAGACTCCTTGAAATATCT-ATATTCATCTAACCAAATCTCAGCCACATT
* **
646 GGATTTAATA
316 AGATTTAAGG
* * * * *
656 ATTTGTTTTTATGTGCATCTGAATTTTGTTTCGATCTAATTACAAATTAATTCAGAAAAAATATG
1 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA-AAATTAATT-TGAAAAAATATG
* * * *
721 AAAAACGATATTAAAAGCGTGGAAAGTACAC--CAATCCTTTTGACGTTGAACTGTATATTTTTT
64 AAAAACGATATTAAAAGCGT-GAAA-AACCCTTCAAT-CTTTTGACGTTGAATTATATATTTTTT
* * * * *
784 ATGCGTATTTTTGCTAGAAATTGAGGAAAAGTCTTTCGGATCAATTTTTACAAAAATTTTAGCCG
126 ATGAGTATTTTGGC-AAAAATTGAGGAAAAATCTTTTGGATCAATTTTTAC-AAAATTTTAGCCG
849 AAATCATGTACTAACCATCACGGTTTTTGGCTAAAACCGCGTTCCGGGGCCCAACTCAGTTTTGC
189 AAATCATGTACTAACCATCACGGTTTTTGGCTAAAACCGCGTTCCGGGGCCCAA-T-AGTTTTGC
** * **
914 AGGATTTTTTGTGCCAAGA---CTTGAAATAAT-TATATTCATCTAACCAAATCTCAGCCA-AGT
252 ATAATTTTTGGCACCAAGACTCCTTGAAAT-ATCTATATTCATCTAACCAAATCTCAGCCACA-T
*
974 TAAATTTAAGG
315 TAGATTTAAGG
* *
985 ATTTGTTTTTAGGAGCATCTGAATCTTGTTTCGATTTAATT-AAATTAATTTGAAAAAATAGGAA
1 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAATTAATTTGAAAAAATATGAA
* * * *
1049 AAACAATATTAGAAGCGTTAAAAACCCTTCAATCTTTATGATGTTGAATTATATATTTTTTATGA
66 AAACGATATTAAAAGCGTGAAAAACCCTTCAATCTTT-TGACGTTGAATTATATATTTTTTATGA
* * * *
1114 GTATTTTAGGCAAAAATTGAGGAAATATCTTTTGGCTCAATTTTTGCAAAATTTTAGTCGAAATC
130 GTATTTT-GGCAAAAATTGAGGAAAAATCTTTTGGATCAATTTTTACAAAATTTTAGCCGAAATC
* * * **
1179 GTGCACTAACCATAACGGTTTTTGGCTAAGAA-CGCGTTCTAGGGCCACAAATATGTTTTGCATA
194 ATGTACTAACCATCACGGTTTTTGGCTAA-AACCGCGTTCCGGGGCC-C-AATA-GTTTTGCATA
* * * * * *
1243 ATTTTTGACACCGAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAGACACATTGGAT
255 ATTTTTGGCACCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAGAT
1308 TTAAGG
320 TTAAGG
* * * * *
1314 ATTTGTTTTCATGTGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAA-TTCAGAAAAATATG
1 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA-AAATTAATTTGA-AAAAATATG
* ** * *
1378 AAAAATGATATTAAAAGCGTGAAAAGTCC-TCTAATCCTTTT-AGCGTTGAATTATATATATTGT
64 AAAAACGATATTAAAAGCGTGAAAAACCCTTC-AAT-CTTTTGA-CGTTGAATTATATATTTTTT
* *
1441 ATGAGTATTTTGCCAAAAATTGCGGAAAAATCTTT
126 ATGAGTATTTTGGCAAAAATTGAGGAAAAATCTTT
1476 CGGGTCATTT
Statistics
Matches: 955, Mismatches: 141, Indels: 99
0.80 0.12 0.08
Matches are distributed among these distances:
324 3 0.00
325 65 0.07
326 244 0.26
327 109 0.11
328 49 0.05
329 206 0.22
330 132 0.14
331 110 0.12
332 37 0.04
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (325 bp):
ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAATTAATTTGAAAAAATATGAA
AAACGATATTAAAAGCGTGAAAAACCCTTCAATCTTTTGACGTTGAATTATATATTTTTTATGAG
TATTTTGGCAAAAATTGAGGAAAAATCTTTTGGATCAATTTTTACAAAATTTTAGCCGAAATCAT
GTACTAACCATCACGGTTTTTGGCTAAAACCGCGTTCCGGGGCCCAATAGTTTTGCATAATTTTT
GGCACCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAGATTTAAGG
Found at i:2158 original size:18 final size:18
Alignment explanation
Indices: 2123--2178 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
2113 GAATTATTTT
**
2123 TAAAAACTACAAGGTTTGG
1 TAAAAACT-CAATATTTGG
2142 TAAAAACTCAATATTTGG
1 TAAAAACTCAATATTTGG
* *
2160 TACCAAACCCAATATTTGG
1 TA-AAAACTCAATATTTGG
2179 CAACAAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 10 0.31
19 22 0.69
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (18 bp):
TAAAAACTCAATATTTGG
Found at i:9214 original size:8 final size:8
Alignment explanation
Indices: 9200--9297 Score: 107
Period size: 8 Copynumber: 12.4 Consensus size: 8
9190 AATCACTATA
9200 TATCTTAC
1 TATCTTAC
*
9208 CATCTTAC
1 TATCTTAC
9216 TATCTTAC
1 TATCTTAC
9224 TATC-T--
1 TATCTTAC
9229 TATCTTAGC
1 TATCTTA-C
9238 TTATCTTAC
1 -TATCTTAC
*
9247 TATTTTAC
1 TATCTTAC
9255 TATCTTAC
1 TATCTTAC
9263 TATCTTAC
1 TATCTTAC
9271 TA-C-TATC
1 TATCTTA-C
9278 TTATCTTAC
1 -TATCTTAC
9287 TATCTTAC
1 TATCTTAC
9295 TAT
1 TAT
9298 TATATAAAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.05
6 3 0.04
7 3 0.04
8 55 0.71
9 3 0.04
10 9 0.12
ACGTcount: A:0.24, C:0.23, G:0.01, T:0.51
Consensus pattern (8 bp):
TATCTTAC
Found at i:9246 original size:31 final size:29
Alignment explanation
Indices: 9209--9296 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 29
9199 ATATCTTACC
9209 ATCTTACTATCTTACTATCTTATCTTAGCTT
1 ATCTTACTATCTTACTATCTTA-C-TAGCTT
* *
9240 ATCTTACTATTTTACTATCTTACTATCTT
1 ATCTTACTATCTTACTATCTTACTAGCTT
9269 A-CTACTATCTTATCTTACTATCTTACTA
1 ATCT--TA-C-TATCTTACTATCTTACTA
9297 TTATATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 2 0.04
29 6 0.12
30 3 0.06
31 22 0.44
32 17 0.34
ACGTcount: A:0.25, C:0.23, G:0.01, T:0.51
Consensus pattern (29 bp):
ATCTTACTATCTTACTATCTTACTAGCTT
Found at i:9310 original size:24 final size:24
Alignment explanation
Indices: 9259--9310 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
9249 TTTTACTATC
* * **
9259 TTACTATCTTACTACTATCTTATC
1 TTACTATCTTACTACTATATAAAA
*
9283 TTACTATCTTACTATTATATAAAA
1 TTACTATCTTACTACTATATAAAA
9307 TTAC
1 TTAC
9311 GAACTCAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (24 bp):
TTACTATCTTACTACTATATAAAA
Found at i:9579 original size:15 final size:16
Alignment explanation
Indices: 9554--9583 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9544 AATAATTATT
9554 TTTAGATTATAATATA
1 TTTAGATTATAATATA
9570 TTTA-ATTATAATAT
1 TTTAGATTATAATAT
9584 TATTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGATTATAATATA
Found at i:11968 original size:332 final size:331
Alignment explanation
Indices: 9946--15057 Score: 3746
Period size: 332 Copynumber: 15.6 Consensus size: 331
9936 ATAATTTACA
* * * * * *
9946 TCATCTAACCAAATCTCAGCAACATTGGATTTAAGAATTTGTTATTATGAGCATCTGAATCTTAT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *** * * * *
10011 TTCGTTTTAATTAGAAATTATTTTTTAAAAAATAAGAAATAGGATATTAAAAGCGTAAAAAGCCC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * *
10076 TCCAATCTTTTTGGCGTTGAATTATATA-TTTTTATGAGTATTTTAGCCAAAAATTGA-GAAGAA
131 TTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATTTAGCAAAAAATTGAGGAA-AA
* ** *
10139 ATCTTT-CGTGTCAATTTTTGTAAAATTTTAGTTG-AATCGTGTACTAACAAACCATCACGGTTT
195 ATCTTTCCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTG---TAA-TAACCATCACGGTTT
* * * * * ** *
10202 TTGGCTAAAAACGCGTTCCGGGGACCCAGCTCAATTTTGCTTGATTTTTGGCTCCGAGACTACTT
255 TTGGCTAAAAACGCGTTCC-GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTT
10267 GAAATATCTATAT
319 GAAATATCTATAT
* ** *
10280 TCATCTAATCAAATCTCACCCACCA-TAAATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTG
1 TCATCTAATCAAATCTCAGCCA-CATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * * * * *
10344 TTTTGATTTAATTGGAAATTAATTTGG-AAAATTTGGAAAAACGATATTAAAAACGTCAAAAGCC
65 TTTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCC
* * * * *
10408 CTTTAATCTTTTTGGCGTTGAGTTATATATTTTTTATGAGTATTTTACCCAAAAATTGATGG-AA
130 CTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATTTAGCAAAAAATTGA-GGAAA
* ** * * *
10472 TATCTTT-CGGATCAATTTTTATAAAATTTTAGCCGAAATCGTGTATTAACCATCACAGTTTTTA
194 AATCTTTCCGG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTG
* * * * *
10536 GATAAAAA-ACG-TCCTAGGGCCCAGGCTCAGTTTTGCATCATTTTTGGCGCCAAGACTCCTTGA
258 GCTAAAAACGCGTTCC--GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTGA
*
10599 GATATCTATAT
321 AATATCTATAT
* * * ** * * * *
10610 CCATCTAATTAAATCCCAGCCACATTGGATTTAAAAATTTGCTTTTACAAGCATCTAAATCTTTT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * *
10675 TTTGATTTAATTGGAAATTAATAT-AG-AAAAATATGAAAAAACGATAATAAAAGCGTGAAAAGT
66 TTCGATTTAATTAGAAATTAAT-TCGGAAAAAATA-GGAAAAACGATATTAAAAGCGTGAAAAGC
* * * * * *
10738 CCTCCAATATTTTTGCCGTTAAATTATATATATATTTTATGAGTATTTTATTC-AAAAATTGAGG
129 CCTTCAATCTTTTTGGCGTTGAATTATATAT-T-TTTTATGAGTAATTTA-GCAAAAAATTGAGG
* * * *
10802 CAAAAT-TTTTCGAGTCATTTTTTGCAAAATTTT-------A----G------CCATCACGATTT
191 AAAAATCTTTCCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTT
* * * * * * ** *
10849 TTGGCTAAAAACGCATTTCAGGGCACCAGCTCAGTTTTACAAGATTTTTGGCGCCGACACTCCTT
255 TTGGCTAAAAACGC-GTTCCGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTT
*
10914 GAAATAACTATAT
319 GAAATATCTATAT
* * * * * *
10927 TCATCTAATAAAATCTTAGCCACATTGCATTT-A--ATTTTTTTTTACGAGCATCTGAATCATGC
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
10989 TTCGATTTATTTAGAAATTAATTC---------A-GAAAAA--ATATTAAAAGCGTCAAAAGACC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * * * ***
11042 TTCAATATTTTTGACGTTGAATTATATATTTTTTATGAGT-ATTATGGCTAAAAATTGAGGATTT
131 TTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATT-TAGCAAAAAATTGAGGAAAA
** * * * *
11106 ATCTTTCAAGTCAATTTTTGCAAAATTTTAGCCAAAATCGTATAATAATCATCACAGTTTTTGGC
195 ATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGC
* * * * *** * * * * **
11171 AAATAAAGGCGTTTCGGGGCCCATTTCATTTTTGAATAATTTTTGGCACCGAGACTCCTTGAAAT
260 TAA-AAACGCGTTCCGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTGAAAT
11236 ATCTATAT
324 ATCTATAT
* * * *
11244 TCATCTAACCAAAT-TCCAACCA-A-T-G--TT-----TTTG--TATA--AGCATCTGAATCATG
1 TCATCTAATCAAATCT-CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* *
11294 TTTCGTTTTAATTAGAAATTAATTCGGAAAAAAATAGGAAAAACAATATTAGAAA-CGTGAAAAG
65 TTTCGATTTAATTAGAAATTAATTCGG-AAAAAATAGGAAAAACGATATTA-AAAGCGTGAAAAG
* * * * * *
11358 CCCTTCAATCTTTTTGGCGTTAAATTATTTATTTCTTATGA-TTATTGTGGCTAAAAA-TGAGG-
128 CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATT-TAGCAAAAAATTGAGGA
* * * * * ****
11420 AAAATATTT-CGAGTCATTTTTTGCAAAATATTAGCCGAAATCGTGTAACTTCACGAATTTTTTT
192 AAAATCTTTCCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAA--TAAC-CA--TCACG
* * * * * *
11484 TTTTTTAGGCTAAAAATGTGTTCCGGTACCCCGGATCAGTATTGCATGA-TTTTGGCG-TCAAGA
251 GTTTTT-GGCTAAAAACGCGTTCCGG-GCCCCGGCTCAGTTTTGCATGATTTTTGGCGCT-AAGA
11547 CTCCTT-AAACTATCTATAT
313 CTCCTTGAAA-TATCTATAT
* * * * *
11566 TCATTTAATCAAATCTCGGTCGCATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
11631 TTCGATTTAATTAGAAATTAATTCGGAAAAAGTAGGAAAAACGATATTAGAAGAGTAAAAAACCC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * *
11696 TTCAATATTTTTGGCGTAGAATTATATTTTTTTTTCATGA-TAATTTAGCAAAAAATTGAGGAAA
131 TTCAATCTTTTTGGCGTTGAATTATA-TATTTTTT-ATGAGTAATTTAGCAAAAAATTGAGGAAA
* * * * *
11760 TATCTTTCCGCTCAATTTTTGCAAAATGTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTGA
194 AATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGG
* * * * * *
11825 CTAAAAATGCGTTCCAGGGCCCCGGGTTAGTTTTGCATTATTTTTGGCGCTAAGACTACTTGAGA
259 CTAAAAACGCGTTCC-GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTGAAA
*
11890 TATCCATAT
323 TATCTATAT
* * * * * * *
11899 TCATCTAATCAAATCTCAGTCAAAATGCATTTGAGGATTT-TTTTTACGAGCATCTAAATCTTAT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
11963 TTCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATGAAAAGCGTGAAAAGTCC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * * * * *
12028 TCCAATCATTTTGGCGTTAAATTATATATATATTTCATGAGTATTTTAGCCAAAAATTGAGGAAA
131 TTCAATCTTTTTGGCGTTGAATTATATAT-T-TTTTATGAGTAATTTAGCAAAAAATTGAGG-AA
* * * * * *
12093 AAAT-ATTCTGGTCAGTTTTTTGTAAAATTTTAGGCGAAATCGTGTACTAACCATCACAGTTTTT
193 AAATCTTTCCGGTCA-ATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCAC-G-----
* * * ** * * * *
12157 TTTTTTTTGCTAAAAACGCGTTACGAGGCATCGACTCAGTTTTGTATGATTTTTGTCG-TCGAGA
251 -GTTTTTGGCTAAAAACGCGTTCCG-GGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCT-AAGA
12221 CTCCTTGATATATATAC-ATAT
313 CTCCTTGA-A-ATAT-CTATAT
* * * *
12242 TCATCTAATCAAATCTCAACCACATTGCATTTAAAGACTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * ** * **
12307 TTCGATTTGATTAGAAATTAATTC-AAAAAAATATTAAAATCGATATTAAAAGCGTGAAAAGTAC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * * * * * *
12371 -TCTAATATTTTTTGAGTTGAATTATAAATATTTTATGAGTAATTTAG-ATAGAAGTTGAGGAAA
131 TTC-AATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATTTAGCA-AAAAATTGAGGAAA
* * * * * *
12434 ACTATTTCTGGTCAATTTTTGTAAAATATTA---G---TC--G----AA--ATCACGGTTTTCTT
194 AATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTT-TG
** * * * * **
12485 GCTAAAAACGCGTTATGAGGCCCCGGTTCAATGTTGCATGATTTTTTGCGCCGAGACTCCTTGAA
258 GCTAAAAACGCGTTCCG-GGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTGAA
12550 ATATCTATAT
322 ATATCTATAT
* * * * *** * *
12560 TAATCTAACCAAATCTCATCCACAATGGATTTAAGGATTTG-TAAAACAAGCATCTAAAT-TATG
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT-TG
* * *
12623 TTTCGATTTAATTAGAAATTAA----GAAAATAATAGGAAAAACAATATTAGAAGCATGAAAAGC
65 TTTCGATTTAATTAGAAATTAATTCGGAAAA-AATAGGAAAAACGATATTAAAAGCGTGAAAAGC
* * * * * *
12684 CCTTCAATCTTGTTGGCGTTGATTTATATAATTTTCATGAGT-ATTGTGGCTAAAAATTGAGGAA
129 CCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATT-TAGCAAAAAATTGAGGAA
* * *
12748 ATAA-CTTT-CGAGTCAATTTTTACAAAATTTTAGCCGAAATCATGTAATAATCATCACGGTTTT
193 A-AATCTTTCCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTT
* * *
12811 TGGCTAAAAACGCGTTCCGAGGCCGCGGCTAAGTTTTGCATGATTTTTGGCG-TCAAGACTCTTT
256 TGGCTAAAAACGCGTTCCG-GGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCT-AAGACTCCTT
* *
12875 GAGATATCCATAT
319 GAAATATCTATAT
* * * * *
12888 TCATCTAACCAAATCTCAACTACATTGGATTTAAGAATTTGTTTTTA--TGC-TCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * *
12950 TTCGATTTAATTAGAAATTAATTC-AAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAG-TC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * * * * * * * *
13013 TTCCAATCTTCTTAGCATTAAATTATATATATTTTATAAGTATTTTATCCAAAAATTGATGGAAA
131 TT-CAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATTTAGCAAAAAATTGA-GGAAA
* ** * * * * *
13078 AATTTTTTGGGTCATTTTTTACAAAATTTTAGCCGAAATCATGTACTAACCATCACAGTTTTTGG
194 AATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGG
* * * ** * * * * * *
13143 CTAAAAATGCGTTTCGAGACCCCAACTTAGTTTTACTTGATTTTTGACGCTGAGACT-CTGTGGA
259 CTAAAAACGCGTTCCG-GGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCT-TGAA
13207 ATATCTATAT
322 ATATCTATAT
* * * * * *
13217 TCATCTAATCAAATCTCAGGCACATTGAATTTAAGGATATGTTTTTACGAGTATCTAAATCTTAT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
13282 TTCGATTTAATTAGAAGTTAATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAGAGTCC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * * * *
13346 TCCAAT-TTTCTTGGCTTTTAATTATATATATTCTATGAGT-ATTGT-GACAAAAAATTGAGGAA
131 TTCAATCTTT-TTGGCGTTGAATTATATATTTTTTATGAGTAATT-TAG-CAAAAAATTGAGG-A
* * * * * * *
13408 AAAATTTTTCGGGTCAGTTTTTGCAAAACTTTAGCCGAAATCGTATACTAACCATCACAGTTTTT
192 AAAATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTT
* ** ** *
13473 GGCTAAAAATGCGTTTAGGGACCCTAGCTCAGTTTTGCATGATTTTTGGCTG-AAAGACTCCTTG
257 GGCTAAAAACGCGTTCCGGG-CCCCGGCTCAGTTTTGCATGATTTTTGGC-GCTAAGACTCCTTG
13537 AAATAT-TGATAT
320 AAATATCT-ATAT
* * * * *
13549 TCATCTAACCAAATGTAAGCCACAATT-GATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTA
1 TCATCTAATCAAATCTCAGCCAC-ATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * *
13613 TTTCGATTTAATTATAAA-TAATGACGGAAAAAA-ATGAAAAACGATATTAGAAGCGTGAAAA-C
65 TTTCGATTTAATTAGAAATTAAT-TCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGC
* * * * * **
13675 CCATCAA-CTTTTTTTGCGTTGAATTATATATTTTTTCTGAGT-ATTGTGGCAAAGAATTGAATA
129 CCTTCAATC-TTTTTGGCGTTGAATTATATATTTTTTATGAGTAATT-TAGCAAAAAATTG-AGG
* * * *
13738 AAAAATTTTTCGGGTTAGTTTTTGCAAAATTTTAGCCGAAATCGT-T--T-ACTCATCACGGTTT
191 AAAAATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAAC-CATCACGGTTT
* * * *
13799 TTGGCTAAAAACGCGTTCTGAGGCCCCTGTTCAGTTTTGCATGATTTTTGGTG-TAAGGACTCCT
255 TTGGCTAAAAACGCGTTCCG-GGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAA-GACTCCT
* *
13863 TGAAATACCAATAT
318 TGAAATATCTATAT
* * * * * * * *
13877 ACATCGAATCAAATCCCAGTCACATTCGATATAACGATTTGTTTTTTACAAGCATGCATATGAAT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTG-TTTTTAC--G-A-GCATCTGAAT
* * * *
13942 CTTATATCGATTTAATTAGAAATTAATTCGGAAAAAA-ATGGAAAAACAATATTAGAAGCGTGAA
61 CTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATA-GGAAAAACGATATTAAAAGCGTGAA
* * * * * * *
14006 AAACTCTTCAATC-TCTTGGACATTGAATTATATATTTTTTATGTGTATTTTGGCAAAAAATTGA
125 AAGCCCTTCAATCTTTTTGG-CGTTGAATTATATATTTTTTATGAGTAATTTAGCAAAAAATTGA
* * * *
14070 GAAAAAAAT-TTT-CGG---A--TCTG----TTTTTAGCCGAAATCGTGTACTAACCATCACGGT
189 G-GAAAAATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGT
* *** ** * * *
14124 TTTTGGCTAAAAACGCGTTTCAGGGTTTCAACTCAGTTTTGCATGGTTTTTGAC-ATGAAGACTC
253 TTTTGGCTAAAAACGCG-TTCCGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCT-AAGACTC
14188 CTTGAAATATCTATAT
316 CTTGAAATATCTATAT
*
14204 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG-
* * * * *
14269 TTTC-ATTTAATTAGAAATAAAATCGGGAAAAAAATATGAAAAACGATATTAGAAGCGTGAAAAA
65 TTTCGATTTAATTAGAAATTAATTC-GG-AAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAG
** * * *
14333 TGCTTCAAT-TTTTCTGGCATTGAATTATATATATATATTT-T-A-TTATTGTGGCAAAAAATTG
128 CCCTTCAATCTTTT-TGGCGTTGAATTATATAT-T-T-TTTATGAGTAATT-TAGCAAAAAATTG
* * * * * **
14394 TGGAAAAA-CTTTTCTGGTCAGTTTTTGCAAAATTTTAGCCAAAATCATGTGCT-A--ATCACGG
188 AGGAAAAATC-TTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGG
** * * * * * * * *
14455 TTTTTGATTAAAAACGTGCT-CGGAACCCCGACTCAATTTTGCATGATTTTTGGTGCAAAAACTC
252 TTTTTGGCTAAAAACGCGTTCCGG-GCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTC
14519 CTTGAAATATCTATAT
316 CTTGAAATATCTATAT
* * * * * *
14535 TCATCGAACCAAATCTCAGGCACATTGGATATAAGGATTTGTTTTTACGGGCAGCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
14600 TTCTATTTTATTAGAAATTAATTC-GAGAAAAAT--GAAAAACGATATTATAAGCGTGAAAAGCC
66 TTCGATTTAATTAGAAATTAATTCGGA-AAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCC
* * * * *
14662 CGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGT-ATAGTGGTAAAAAATTGA-GAAA
130 CTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAAT-TTAGCAAAAAATTGAGGAAA
* * ** * ***
14725 AAACTTTTCGG---A----T--AAGTTTTTAGCTGAAATCGTG-AACTAACCATCATTTTTTTTT
194 AATCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAA-TAACCATCA-CGGTTTTT
** * * * ** * * **
14780 TACTAAGAACGCGTTCCGGGGCCACTGCTTTGTTTTGCATGATTTTTGACACCGAGACTCCTTGA
257 GGCTAAAAACGCGTTCC-GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTGA
*
14845 AATATCTTTAT
321 AATATCTATAT
* * * * *
14856 TCATCTAATCAAATATCAGTCACATT-G-----A--ATTTGTTTTAACGTGCATCTGAATCTCGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
14913 TTCGATTTAATTAGAAATTAATTCAGAAAAAATACGAAAAATGATATTAAAAGCTTGAAAAGTCC
66 TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
* * * ** * * *
14978 TTCAATCCTTTTGGCATTGAATGATATATAATTTATGAGTATTTTTGCCAAAAATTGAGGAAAAA
131 TTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATTTAGCAAAAAATTGAGGAAAAA
*
15043 TCTTTTCCGGCCAAT
196 TC-TTTCCGGTCAAT
15058 AATTTTTCCA
Statistics
Matches: 3833, Mismatches: 702, Indels: 499
0.76 0.14 0.10
Matches are distributed among these distances:
299 3 0.00
300 43 0.01
301 4 0.00
302 45 0.01
304 5 0.00
306 38 0.01
307 1 0.00
308 3 0.00
310 3 0.00
312 2 0.00
313 54 0.01
314 51 0.01
315 162 0.04
316 52 0.01
317 243 0.06
318 55 0.01
319 75 0.02
320 75 0.02
321 70 0.02
322 88 0.02
323 27 0.01
324 85 0.02
325 38 0.01
326 64 0.02
327 172 0.04
328 285 0.07
329 194 0.05
330 138 0.04
331 296 0.08
332 494 0.13
333 253 0.07
334 221 0.06
335 130 0.03
336 59 0.02
337 14 0.00
338 40 0.01
339 2 0.00
340 22 0.01
341 85 0.02
342 1 0.00
343 95 0.02
344 46 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (331 bp):
TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
TTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGCCC
TTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAATTTAGCAAAAAATTGAGGAAAAA
TCTTTCCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCT
AAAAACGCGTTCCGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTGAAATAT
CTATAT
Found at i:12768 original size:989 final size:968
Alignment explanation
Indices: 9946--15042 Score: 3541
Period size: 989 Copynumber: 5.2 Consensus size: 968
9936 ATAATTTACA
* * * * * *
9946 TCATCTAACCAAATCTCAG-CAACATTGGATTTAAGAATTTGTTATTATGAGCATCTGAATCTTA
1 TCATCTAATCAAATCTCAGTCAA-A-TGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTA
* * *** * * * * *
10010 TTTCGTTTTAATTAGAAATTATTTTTTAAAAAATAAGAAATAGGATATTAAAAGCGTAAAAAGCC
64 TTTCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTC
* * *
10075 CTCCAATCTTTTTGGCGTTGAATTATATAT-TTTTATGAGTATTTTAGCCAAAAATTGA-GAAGA
129 CTCCAATC-TTTTGGCATTAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAA
* * ** *
10138 AATCTTTCGTGTCA-ATTTTTGTAAAATTTTAGTTG-AATCGTGTACTAACAAACCATCACGGTT
193 AATATTT-G-GTCAGTTTTTTGTAAAATTTTAGCCGAAATCGTGTACT----AACCATCACAGTT
* * * * * *
10201 TTTGGCTAAAAACGCGTTCCG-GGGACCCAGCTCAATTTTGCT-TGATTTTTGGC-TCCGAGACT
252 TTTGGCTAAAAACGCGTTTCGAGGCA-TCAACTCAGTTTTG-TATGATTTTTGACGT-CGAGACT
* * *
10263 ACTTGAAATATCTATATTCATCTAATCAAATCTCACCCACCA-TAAATTTAAGGATTTGTTTTTA
314 CCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCA-CATTGAATTTAAGGA-TTGTTTTTA
* * * *** *
10327 CGAGCATCTAAATCTTGTTTTGATTTAATTGGAAATTAATT-TGGAAAATTTGGAAAAACGATAT
377 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATAT-GAAAAACGATAT
* * ** * * * * * *
10391 TAAAAACGTCAAAAGCCCTTTAATCTTTTTGGCGTTGAGTTATATATTTTTTATGAGTATT-TTA
441 TAAAAGCGTGAAAAGTACTCTAATTTTTTTGGC-TTGAATTATAAATATTTTATGAGTATTGTGA
* * * **
10455 CCCAAAAATTGATGGAATATC-TTTC-GGATCAATTTTTATAAAATTTTAGCCGAAATCGTGTAT
505 ---AAAAATTGA-GGAAAAACTTTTCTGG-TCAGTTTTTGCAAAA-TTTA---G---TC--G---
* * * * * * * *
10518 TAACCATCACAGTTTTTAGATAAAAA-ACGTCCT-AGGGCCCAGGCTCAGTTTTGCATCATTTTT
553 -AA--ATCACGGTTTTTTGCTAAAAACGCGT-TTGA-GGCCCCGGCTCAATTTTGCATGA-TTTT
* * ** * * **
10581 GGCGCCAAGACTCCTTGAGATATCTATATCCATCTAATTAAATCCCAGCCACATTGGATTTAAAA
612 GGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGG
* * * * * *
10646 ATTTGCTTTTACAAGCATCTAAATCTTTTTTTGATTTAATTGGAAATTAATATAGAAAAATATGA
677 ATTTGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAAT-GAGAAAAATA-GG
* * * * * * * *
10711 AAAAACGATAATAAAAGCGTGAAAAGTCCTCCAATATTTTTGCCGTTAAATTATATATATATTTT
740 AAAAACGATATTAGAAGCATGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATAT-T-TTTT
* *** * ** *
10776 ATGAGTATT-TTATTCAAAAATTGAGGCAAAATTTTTCGAGTCATTTTTTGCAAAATTTTA---G
803 CTGAGTATTGTGGCT-AAAAATTGAGGAAAAAACTTTCG-GTCAATTTTTGCAAAATTTTAGCCG
* * * * * * *
10837 ----C----------CATCACGATTTTTGGCTAAAAACGCATTTC-AGGGCACCAGCTCAGTTTT
866 AAATCGTGTAATAATCATCACGGTTTTTGACTAAAAACGCGTTCCGA-GGCCCCGGCTTAGTTTT
* * ** * * *
10887 ACAAGATTTTTGGCGCCGACACTCCTTGAAATAACTATAT
930 GCATGATTTTTGGCG-TAAGACTCCTTGAAATATCCATAT
* * * * * * * **
10927 TCATCTAATAAAATCTTAGCCACATTGCATTT-A--ATTTTTTTTTACGAGCATCTGAATCATGC
1 TCATCTAATCAAATCTCAGTCA-AATGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTAT
* * *
10989 TTCGATTTATTTAGAAATTAATT-C--------A-GAAAAA--ATATTAAAAGCGTCAAAAGACC
65 TTCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTCC
* * * * * * * * * ***
11042 TTCAATATTTTTGACGTTGAATTATATATTTTTTATGAGTATTATGGCTAAAAATTGAGG-ATTT
130 TCCAAT-CTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAA
* * * * * * * *
11106 ATCTTTCAAGTCA-ATTTTTGCAAAATTTTAGCCAAAATCGTATAATAATCATCACAGTTTTTGG
194 ATATTT--GGTCAGTTTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGG
* * * * ** * * * * **
11170 CAAATAAAGGCGTTTCGGGGC-CCATTTCATTTTTGAATAATTTTTGGCACCGAGACTCCTTGAA
257 CTAA-AAACGCGTTTCGAGGCATCAACTCAGTTTTGTATGATTTTTGACGTCGAGACTCCTTGAA
* * *
11234 ATATCTATATTCATCTAACCAAAT-TCCAACCA-A-TG--TTT-----TTG--TATA--AGCATC
321 ATATCTATATTCATCTAATCAAATCT-CAGCCACATTGAATTTAAGGATTGTTTTTACGAGCATC
* * * *
11285 TGAATCATGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAATAGGAAAAACAATATTAGAAA-
385 TGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AAAAAAATATGAAAAACGATATTA-AAAG
** * * ** * *
11349 CGTGAAAAGCCCT-TCAATCTTTTTGGCGTTAAATTATTTAT-TTCTTATGATTATTGTGGCTAA
447 CGTGAAAAGTACTCT-AATTTTTTTGGC-TTGAATTATAAATATT-TTATGAGTATTGT-G-AAA
* *
11412 AAA-TGAGG-AAAA-TATTTC-GAGTCATTTTTTGCAAAATATTAGCCGAAATCGTGTAACTTCA
507 AAATTGAGGAAAAACT-TTTCTG-GTCAGTTTTTGCAAAAT-TTA---G---TC--G-AA-ATCA
* * * * * * * *
11473 CGAATTTTTTTTTTTTTAGGCTAAAAATGTGTTCCG-GTACCCCGGATCAGTATTGCATGATTTT
559 CG--------GTTTTTT--GCTAAAAACGCGTT-TGAG-GCCCCGGCTCAATTTTGCATGATTTT
* * * * * * *
11537 GGCGTCAAGACTCCTT-AAACTATCTATATTCATTTAATCAAATCTCGGTCGCATTGGATTTAAG
612 GGCGCCAAGACTCCTTGAAA-TATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAG
*
11601 GATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCG-GAAAAAGTA
676 GATTTGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAA-T-GAGAAAAA-TA
* * * * *
11665 GGAAAAACGATATTAGAAG-AGTAAAAAACCCTTCAATATTTTTGGCGTAGAATTATATTTTTTT
738 GGAAAAACGATATTAGAAGCA-TGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATA-TATTTT
* * * * * *
11729 TTCATGA-TAATT-TAGCAAAAAATTGAGGAAATATCTTTCCGCTCAATTTTTGCAAAATGTTAG
801 TTC-TGAGT-ATTGTGGCTAAAAATTGAGGAAAAAACTTT-CGGTCAATTTTTGCAAAATTTTAG
* *
11792 CCGAAATCGTGTAATAATCATCACGGTTTTTGACTAAAAATGCGTTCC-AGGGCCCCGGGTTAGT
863 CCGAAATCGTGTAATAATCATCACGGTTTTTGACTAAAAACGCGTTCCGA-GGCCCCGGCTTAGT
* * *
11856 TTTGCATTATTTTTGGCGCTAAGACTACTTGAGATATCCATAT
927 TTTGCATGATTTTTGGCG-TAAGACTCCTTGAAATATCCATAT
*
11899 TCATCTAATCAAATCTCAGTCAAAATGCATTTGAGGATTT-TTTTTACGAGCATCTAAATCTTAT
1 TCATCTAATCAAATCTCAGTC-AAATGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTAT
*
11963 TTCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATGAAAAGCGTGAAAAGTCC
65 TTCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTCC
*
12028 TCCAATCATTTTGGCGTTAAATTATATATATATTTCATGAGTATTTTAGCCAAAAATTGAGGAAA
130 TCCAATC-TTTTGGCATTAAATTATATATAT-TTT-ATGAGTATTTTAGCCAAAAATTGAGGAAA
*
12093 AAATATTCTGGTCAGTTTTTTGTAAAATTTTAGGCGAAATCGTGTACTAACCATCACAGTTTTTT
192 AAATATT-TGGTCAGTTTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCACAG------
* * * *
12158 TTTTTTTGCTAAAAACGCGTTACGAGGCATCGACTCAGTTTTGTATGATTTTTGTCGTCGAGACT
250 -TTTTTGGCTAAAAACGCGTTTCGAGGCATCAACTCAGTTTTGTATGATTTTTGACGTCGAGACT
* * *
12223 CCTTGATATATATAC-ATATTCATCTAATCAAATCTCAACCACATTGCATTTAAAGACTTGTTTT
314 CCTTGA-A-ATAT-CTATATTCATCTAATCAAATCTCAGCCACATTGAATTTAAGGA-TTGTTTT
* * *
12287 TACGAGCATCTGAATCTTGTTTCGATTTGATTAGAAATTAATTCAAAAAAATATTAAAATCGATA
375 TACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATATGAAAAACGATA
12352 TTAAAAGCGTGAAAAGTACTCTAATATTTTTTGAG-TTGAATTATAAATATTTTATGAGTAATT-
440 TTAAAAGCGTGAAAAGTACTCTAAT-TTTTTTG-GCTTGAATTATAAATATTTTATGAGT-ATTG
* * * *
12415 TAGATAGAAGTTGAGG-AAAACTATTTCTGGTCAATTTTTGTAAAATATTAGTCGAAATCACGGT
502 T-GA-AAAAATTGAGGAAAAACT-TTTCTGGTCAGTTTTTGCAAAAT-TTAGTCGAAATCACGGT
* * * *
12479 TTTCTTGCTAAAAACGCGTTATGAGGCCCCGGTTCAATGTTGCATGATTTTTTGCGCCGAGACTC
563 TTT-TTGCTAAAAACGCGTT-TGAGGCCCCGGCTCAATTTTGCATGA-TTTTGGCGCCAAGACTC
* * ***
12544 CTTGAAATATCTATATTAATCTAACCAAATCTCATCCACAATGGATTTAAGGATTTG-TAAAACA
625 CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACA
*
12608 AGCATCTAAAT-TATGTTTCGATTTAATTAGAAATTAA-GA-AAATAATAGGAAAAACAATATTA
690 AGCATCTAAATCT-TGTTTCGATTTAATTAGAAATTAATGAGAAA-AATAGGAAAAACGATATTA
* * *
12670 GAAGCATGAAAAGCCCTTCAATCTTGTTGGCGTTGATTTATATA-ATTTTCATGAGTATTGTGGC
753 GAAGCATGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTC-TGAGTATTGTGGC
* * *
12734 TAAAAATTGAGGAAATAACTTTCGAGTCAATTTTTACAAAATTTTAGCCGAAATCATGTAATAAT
817 TAAAAATTGAGGAAAAAACTTTCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAAT
* * *
12799 CATCACGGTTTTTGGCTAAAAACGCGTTCCGAGGCCGCGGCTAAGTTTTGCATGATTTTTGGCGT
881 CATCACGGTTTTTGACTAAAAACGCGTTCCGAGGCCCCGGCTTAGTTTTGCATGATTTTTGGCGT
* *
12864 CAAGACTCTTTGAGATATCCATAT
946 -AAGACTCCTTGAAATATCCATAT
* * * * * * * *
12888 TCATCTAACCAAATCTCA-ACTACATTGGATTTAAGAATTTGTTTTTA--TGC-TCTGAATCTTG
1 TCATCTAATCAAATCTCAGTC-A-AATGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTA
*
12949 TTTCGATTTAATTAGAAATTAATT-CAAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTC
64 TTTCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTC
* * * *
13013 TTCCAATCTTCTTAGCATTAAATTATATATATTTTATAAGTATTTTATCCAAAAATTGATGGAAA
129 CTCCAATCTT-TTGGCATTAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGA-GGAAA
* * ** *
13078 AATTTTTTGGGTCA-TTTTTTACAAAATTTTAGCCGAAATCATGTACTAACCATCACAGTTTTTG
192 AAATATTT-GGTCAGTTTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTG
* * ** * *
13142 GCTAAAAATGCGTTTCGAGACCCCAACTTAGTTTTACT-TGATTTTTGACG-CTGAGACT-CTGT
256 GCTAAAAACGCGTTTCGAGGCATCAACTCAGTTTT-GTATGATTTTTGACGTC-GAGACTCCT-T
* * *
13204 GGAATATCTATATTCATCTAATCAAATCTCAGGCACATTGAATTTAAGGATATGTTTTTACGAGT
318 GAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGAATTTAAGGAT-TGTTTTTACGAGC
* * * *
13269 ATCTAAATCTTATTTCGATTTAATTAGAAGTTAATTCAGAAAAATATGAAAAACGATATTAAAAG
382 ATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAG
* * * * * * *
13334 CGTGAAGAGTCCTCCAATTTTCTTGGCTTTTAATTATATATATTCTATGAGTATTGTGACAAAAA
447 CGTGAAAAGTACTCTAATTTTTTTGGC-TTGAATTATAAATATTTTATGAGTATTGTG--AAAAA
* *
13399 ATTGAGGAAAAAATTTTTCGGGTCAGTTTTTGCAAAACTTTAGCCGAAATCGTATACTAACCATC
509 ATTGAGG-AAAAACTTTTCTGGTCAGTTTTTGCAAAA-TTTA---G---TCG------AA--ATC
* * * ** * *
13464 ACAGTTTTTGGCTAAAAATGCGTTT-AGGGACCCTAGCTCAGTTTTGCATGATTTTTGGCTG-AA
558 ACGGTTTTTTGCTAAAAACGCGTTTGA-GG-CCCCGGCTCAATTTTGCATGA-TTTTGGC-GCCA
* * *
13527 AGACTCCTTGAAATAT-TGATATTCATCTAACCAAATGTAAGCCACAATTGATTTAAGGATTTGT
619 AGACTCCTTGAAATATCT-ATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGT
* * * * *
13591 TTTTACAAGCATCTGAATCTTATTTCGATTTAATTATAAA-TAATGACGGAAAAAAATGAAAAAC
683 TTTTACAAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATGA--GAAAAATAGGAAAAAC
* * *
13655 GATATTAGAAGCGTGAAAA-CCCATCAA-CTTTTTTTGCGTTGAATTATATATTTTTTCTGAGTA
746 GATATTAGAAGCATGAAAAGCCCTTCAATC-TTTTTGGCGTTGAATTATATATTTTTTCTGAGTA
** * * *
13718 TTGTGGC-AAAGAATTGAATAAAAAATTTTTCGGGTTAGTTTTTGCAAAATTTTAGCCGAAATCG
810 TTGTGGCTAAA-AATTGAGGAAAAAA-CTTTC-GGTCAATTTTTGCAAAATTTTAGCCGAAATCG
* * * *
13782 T-T--TACTCATCACGGTTTTTGGCTAAAAACGCGTTCTGAGGCCCCTG-TTCAGTTTTGCATGA
872 TGTAATAATCATCACGGTTTTTGACTAAAAACGCGTTCCGAGGCCCCGGCTT-AGTTTTGCATGA
*
13843 TTTTTGGTGTAAGGACTCCTTGAAATA-CCAATAT
936 TTTTTGGCGTAA-GACTCCTTGAAATATCC-ATAT
* * * * * * * *
13877 ACATCGAATCAAATCCCAGTCACATTCGATATAACGATTTGTTTTTTACAAGCATGCATATGAAT
1 TCATCTAATCAAATCTCAGTCAAATGC-ATTTAAGGATTTG-TTTTTACGAGCAT-C-TA--AAT
* * ** *
13942 CTTATATCGATTTAATTAGAAATTAATTCGGAAAAAA-ATGGAAAAACAATATTAGAAGCGTGAA
60 CTTATTTCGATTTAATTAGAAATTAATTCCGAAAAAATAT-GAAAAATGATATTAAAAGCGTGAA
* * * * * * * *
14006 AA-ACTCTTCAATCTCTTGGACATTGAATTATATATTTTTTATGTGTATTTTGGCAAAAAATTGA
124 AAGTC-CTCCAATCTTTTGG-CATTAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGA
** * *
14070 -GAAAAAA-ATTT--TC-G-GATCTGT----TTTTAGCCGAAATCGTGTACTAACCATCACGGTT
187 GGAAAAAATATTTGGTCAGTTTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTT
** * * *
14125 TTTGGCTAAAAACGCGTTTC-AGGGTTTCAACTCAGTTTTGCATGGTTTTTGACAT-GAAGACTC
252 TTTGGCTAAAAACGCGTTTCGA-GGCATCAACTCAGTTTTGTATGATTTTTGACGTCG-AGACTC
* *
14188 CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACG
315 CTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGAATTTAAGGA-TTGTTTTTACG
* *
14253 AGCATCTGAATCTTGTTTTC-ATTTAATTAGAAATAAAATCGGGAAAAAAATATGAAAAACGATA
379 AGCATCTGAATCTTG-TTTCGATTTAATTAGAAATTAATTC---AAAAAAATATGAAAAACGATA
* * * * *
14317 TTAGAAGCGTGAAAAATGCT-TCAATTTTTCTGGCATTGAATTATATATATATATTT-T-ATTAT
440 TTAAAAGCGTGAAAAGTACTCT-AATTTTTTTGGC-TTGAATTATA-A-ATAT-TTTATGAGTAT
*
14379 TGTGGCAAAAAATTGTGGAAAAACTTTTCTGGTCAGTTTTTGCAAAATTTTAGCCAAAATCATGT
500 TGT-G-AAAAAATTGAGGAAAAACTTTTCTGGTCAGTTTTTGCAAAA-TTTAG------TC----
* * * * * * *
14444 GCTAATCACGG-TTTTTGATTAAAAACGTGCTCG-GAACCCCGACTCAATTTTGCATGATTTTTG
552 G-AAATCACGGTTTTTTG-CTAAAAACGCGTTTGAG-GCCCCGGCTCAATTTTGCATGA-TTTTG
* * * * * * *
14507 GTGCAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGGCACATTGGATATAAGGA
613 GCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGA
** * * * *
14572 TTTGTTTTTACGGGCAGCTGAATCTTGTTTCTATTTTATTAGAAATTAATTCGAGAAAAAT--GA
678 TTTGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAA-T-GAGAAAAATAGGA
* * *
14635 AAAACGATATTATAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTG
741 AAAACGATATTAGAAGCATGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTG
* ** *
14700 AGTATAGTGG-TAAAAAATTGA-GAAAAAACTTTTCGG---A----T--AAGTTTTTAGCTGAAA
806 AGTATTGTGGCT-AAAAATTGAGGAAAAAAC-TTTCGGTCAATTTTTGCAAAATTTTAGCCGAAA
* *** * * * * * *
14754 TCGTG-AACTAACCATCATTTTTTTTTTACTAAGAACGCGTTCCGGGGCCACTGCTTTGTTTTGC
869 TCGTGTAA-TAATCATCA-CGGTTTTTGACTAAAAACGCGTTCCGAGGCCCCGGCTTAGTTTTGC
* *** **
14818 ATGATTTTTGACACCGAGACTCCTTGAAATATCTTTAT
932 ATGATTTTTGGC-GTAAGACTCCTTGAAATATCCATAT
* * * * * **
14856 TCATCTAATCAAATATCAGTC--A--CA-TT--GAATTTGTTTTAACGTGCATCTGAATCTCGTT
1 TCATCTAATCAAATCTCAGTCAAATGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTATT
* * *
14914 TCGATTTAATTAGAAATTAATTCAGAAAAAATACGAAAAATGATATTAAAAGCTTGAAAAGTCCT
66 TCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTCCT
* * * * *
14979 TCAATCCTTTTGGCATTGAATGATATATAATTTATGAGTATTTTTGCCAAAAATTGAGGAAAAA
131 CCAAT-CTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAA
15043 TCTTTTCCGG
Statistics
Matches: 3329, Mismatches: 540, Indels: 508
0.76 0.12 0.12
Matches are distributed among these distances:
946 5 0.00
947 3 0.00
949 3 0.00
950 68 0.02
951 7 0.00
952 66 0.02
953 9 0.00
954 8 0.00
955 43 0.01
956 169 0.05
957 24 0.01
958 1 0.00
960 3 0.00
962 3 0.00
963 1 0.00
964 81 0.02
965 10 0.00
966 150 0.05
967 67 0.02
968 16 0.00
969 2 0.00
970 10 0.00
971 5 0.00
972 96 0.03
973 4 0.00
974 55 0.02
975 180 0.05
976 27 0.01
977 60 0.02
978 51 0.02
979 78 0.02
980 5 0.00
981 22 0.01
982 5 0.00
983 2 0.00
984 71 0.02
985 56 0.02
986 280 0.08
987 231 0.07
988 66 0.02
989 411 0.12
990 209 0.06
991 75 0.02
992 75 0.02
993 76 0.02
994 66 0.02
995 22 0.01
996 47 0.01
997 36 0.01
998 100 0.03
999 3 0.00
1000 2 0.00
1002 8 0.00
1003 2 0.00
1004 1 0.00
1006 2 0.00
1008 3 0.00
1009 4 0.00
1010 59 0.02
1011 21 0.01
1012 63 0.02
1013 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (968 bp):
TCATCTAATCAAATCTCAGTCAAATGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTATT
TCGATTTAATTAGAAATTAATTCCGAAAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTCCT
CCAATCTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAAAT
ATTTGGTCAGTTTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAA
AAACGCGTTTCGAGGCATCAACTCAGTTTTGTATGATTTTTGACGTCGAGACTCCTTGAAATATC
TATATTCATCTAATCAAATCTCAGCCACATTGAATTTAAGGATTGTTTTTACGAGCATCTGAATC
TTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAG
TACTCTAATTTTTTTGGCTTGAATTATAAATATTTTATGAGTATTGTGAAAAAATTGAGGAAAAA
CTTTTCTGGTCAGTTTTTGCAAAATTTAGTCGAAATCACGGTTTTTTGCTAAAAACGCGTTTGAG
GCCCCGGCTCAATTTTGCATGATTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACC
AAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAA
TTAGAAATTAATGAGAAAAATAGGAAAAACGATATTAGAAGCATGAAAAGCCCTTCAATCTTTTT
GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCTAAAAATTGAGGAAAAAACTTTCGGTCAA
TTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTGACTAAAAACGCGTTCC
GAGGCCCCGGCTTAGTTTTGCATGATTTTTGGCGTAAGACTCCTTGAAATATCCATAT
Found at i:17411 original size:22 final size:20
Alignment explanation
Indices: 17377--17425 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
17367 AGAGACAAGA
17377 AAAAGAGCCAAAGAACTTGGTG
1 AAAA-AGCCAAAGAAC-TGGTG
* *
17399 AAAAAGCCAAAAGAGCTGTTG
1 AAAAAGCC-AAAGAACTGGTG
17420 AAAAAG
1 AAAAAG
17426 GAGGTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.51, C:0.12, G:0.24, T:0.12
Consensus pattern (20 bp):
AAAAAGCCAAAGAACTGGTG
Found at i:18838 original size:31 final size:30
Alignment explanation
Indices: 18768--18850 Score: 105
Period size: 31 Copynumber: 2.8 Consensus size: 30
18758 TTCTTGTTGC
* * *
18768 TTAGGGGGCAAAACGTTCAAAA-TTAAAGT
1 TTAGGGGGCAAAACATCCAAAACATAAAGT
* *
18797 TCAGGAGGCAAAACATCCAAAACATACAAGT
1 TTAGGGGGCAAAACATCCAAAACATA-AAGT
18828 TTAGGGGGCAAAACATCCAAAAC
1 TTAGGGGGCAAAACATCCAAAAC
18851 TCCGTCTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 18 0.40
30 2 0.04
31 25 0.56
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (30 bp):
TTAGGGGGCAAAACATCCAAAACATAAAGT
Found at i:18961 original size:30 final size:30
Alignment explanation
Indices: 18927--19001 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
18917 AAGGGGGTTC
** *
18927 AAATTGAGAGTTCATTGGCCAAAATGTCCA
1 AAATTGAGAGTTCAGGGGCCAAAATGTCAA
* *
18957 AAATTGAGAGTTCAGGGGGCAAAATGTTAA
1 AAATTGAGAGTTCAGGGGCCAAAATGTCAA
*
18987 AAATTGA-AATTCAGG
1 AAATTGAGAGTTCAGG
19002 AGACAAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 7 0.18
30 32 0.82
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (30 bp):
AAATTGAGAGTTCAGGGGCCAAAATGTCAA
Found at i:19008 original size:29 final size:30
Alignment explanation
Indices: 18946--19009 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
18936 GTTCATTGGC
* * * *
18946 CAAAATGTCCAAAATTGAGAGTTCAGGGGG
1 CAAAATGTCAAAAATTGAGAATTCAGGAGA
*
18976 CAAAATGTTAAAAATTGA-AATTCAGGAGA
1 CAAAATGTCAAAAATTGAGAATTCAGGAGA
19005 CAAAA
1 CAAAA
19010 CATCCAAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (30 bp):
CAAAATGTCAAAAATTGAGAATTCAGGAGA
Found at i:20080 original size:28 final size:30
Alignment explanation
Indices: 20037--20117 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 30
20027 ATTCTTGTTG
*
20037 TTTAGGGTACAAAACGTCCAAAA-TTAAAC
1 TTTAGGGTGCAAAACGTCCAAAATTTAAAC
*
20066 TTTAGGG-GCAAAACGTCCAAAATTTAAAG
1 TTTAGGGTGCAAAACGTCCAAAATTTAAAC
* *
20095 TTCAGGGTGCAAAACATCCAAAA
1 TTTAGGGTGCAAAACGTCCAAAA
20118 CGTACAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 14 0.30
29 18 0.39
30 14 0.30
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (30 bp):
TTTAGGGTGCAAAACGTCCAAAATTTAAAC
Found at i:20109 original size:30 final size:28
Alignment explanation
Indices: 20046--20148 Score: 116
Period size: 31 Copynumber: 3.5 Consensus size: 28
20036 GTTTAGGGTA
* * *
20046 CAAAACGTCCAAAATTAAACTTTAGGGG
1 CAAAACATCCAAAATTAAAGTTCAGGGG
*
20074 CAAAACGTCCAAAATTTAAAGTTCAGGGTG
1 CAAAACATCCAAAA-TTAAAGTTCAGGG-G
*
20104 CAAAACATCCAAAACGTACAAGTTCAGAGGG
1 CAAAACATCCAAAA-TTA-AAGTTCAG-GGG
20135 CAAAACATCCAAAA
1 CAAAACATCCAAAA
20149 CTCCATCTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.21
29 11 0.17
30 16 0.24
31 23 0.35
32 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (28 bp):
CAAAACATCCAAAATTAAAGTTCAGGGG
Found at i:21284 original size:60 final size:60
Alignment explanation
Indices: 21173--21300 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 60
21163 TGTTAGGAGT
* * * * *
21173 CTATTTGACCAAATTAAACGTATGAAGCCTAAATTGAGCACTTTTGCATAGG-TAAGGGCC
1 CTATTTGACCAAATTAAACGCATGAAGCCTAAATTGAACACTTTCGAATAGGAT-AGGACC
*
21233 CTATTTGACCAAATTAAGA-GCATGAGGCCTAAATTGAACA-TTTCCGAATAGGATAGGACC
1 CTATTTGACCAAATTAA-ACGCATGAAGCCTAAATTGAACACTTT-CGAATAGGATAGGACC
21293 CTATTTGA
1 CTATTTGA
21301 ACAATTAGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
59 3 0.05
60 54 0.92
61 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (60 bp):
CTATTTGACCAAATTAAACGCATGAAGCCTAAATTGAACACTTTCGAATAGGATAGGACC
Found at i:26549 original size:13 final size:13
Alignment explanation
Indices: 26533--26557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26523 TTTAACAAGT
26533 TAAACTCACCATC
1 TAAACTCACCATC
26546 TAAACTCACCAT
1 TAAACTCACCAT
26558 ATTTTTAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAACTCACCATC
Found at i:28983 original size:5 final size:5
Alignment explanation
Indices: 28968--29004 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
28958 ACATTACACA
28968 TTTCTT TTTCT TTTCT TTTCT TTT-T TTTCT TTT-T TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
29005 TAAATGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.27
5 18 0.60
6 4 0.13
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTCT
Found at i:28988 original size:10 final size:9
Alignment explanation
Indices: 28972--29004 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
28962 TACACATTTC
28972 TTTTTCTTT
1 TTTTTCTTT
28981 TCTTTTCTTT
1 T-TTTTCTTT
28991 TTTTTCTTT
1 TTTTTCTTT
29000 TTTTT
1 TTTTT
29005 TAAATGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:29513 original size:13 final size:13
Alignment explanation
Indices: 29495--29519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29485 ACCTTACTAT
29495 TGGTATTGGTAGA
1 TGGTATTGGTAGA
29508 TGGTATTGGTAG
1 TGGTATTGGTAG
29520 CCATGCTAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
TGGTATTGGTAGA
Found at i:29773 original size:55 final size:55
Alignment explanation
Indices: 29666--29773 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 55
29656 CGCAGGCCCG
* ** * * *
29666 AAACACGACAACGCCACACACTCATGAAGTGTCACGCTTCGAACTTGCAGGCCTA
1 AAACACGACAACACCACACACTCATGAAGTGAAACGCATCGAACATGAAGGCCTA
* *
29721 AAACACGACAACACCACACACTCATGAAGTGAAACTCAT-GAGCATGTAAGGCC
1 AAACACGACAACACCACACACTCATGAAGTGAAACGCATCGAACATG-AAGGCC
29774 AACAAACATT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 5 0.11
55 39 0.89
ACGTcount: A:0.37, C:0.31, G:0.18, T:0.15
Consensus pattern (55 bp):
AAACACGACAACACCACACACTCATGAAGTGAAACGCATCGAACATGAAGGCCTA
Found at i:30293 original size:20 final size:20
Alignment explanation
Indices: 30268--30312 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
30258 TCCCCAAAAC
30268 CAATTTTCACAA-TCTCAAAT
1 CAATTTTCACAATTC-CAAAT
30288 CAA-TTTCACAATTCCAAAT
1 CAATTTTCACAATTCCAAAT
30307 C-ATTTT
1 CAATTTT
30313 ACCTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (20 bp):
CAATTTTCACAATTCCAAAT
Found at i:34116 original size:328 final size:330
Alignment explanation
Indices: 32525--35782 Score: 2447
Period size: 328 Copynumber: 9.9 Consensus size: 330
32515 CCATGATGGT
* * * *
32525 AAAAA-TGACCCGAAATATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAATATATATAATTC
1 AAAAATTGACCCGAAATATTTTTCCTCAATTTTT-ACCACAATACTCATAAAAAATATATAATTC
* * * * * * * * *
32589 AATGCCAAAAACATTGGAGGACTTTTCACACTTTTAATATCGTTTTTTCATATTTTTTCTGAATT
65 AACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATTGTTTTTCCATA-TTTTTCTGAATT
* * *
32654 AAATTCTAATTAAATCGAAACAAGATTCAGATGCACGTAAAAACAAAT-CTTAAATCTAATGTGG
129 AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * ****
32718 CTGAGATTTGATTAGATGAATAAAGATATTTCAAGGAGTCTCGGTGTCC-AAAATCATGCAAAAC
194 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTACG-CCAAAAATCATGCAAAAC
* ** * * * ** *
32782 AG-AGCCATGGCTCCGGAACGCGTTTTTAGTCAAAAATTATAATAGT--TAGTACACGATTTCGG
258 TGAAG-CGGGGCCCCGAAACGCGTTTTTAG-CAAAAA--AAAACCGTGATGGTACACGATTTCGG
*
32844 CTAAAATTTTGT
319 CTAAAATTTTGC
* * * * * * *
32856 AAAAATTAACCCAAAAGATATTTCCTCAATTTTTGGGCTAAAATACTCATAAAAAATATATAATT
1 AAAAATTGACCCGAAATATTTTTCCTCAATTTTT--ACCACAATACTCATAAAAAATATATAATT
* * * * * *
32921 CGAC-ATCAAAAAGATTTAAGGGCTCTTAATGCTTCTAATATTGTTTTTCCTATTTTTTTCTGAA
64 CAACGA-CAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATTGTTTTTCC-ATATTTTTCTGAA
* * * *
32985 TTAATTTCTAATGAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCTAATTT
127 TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGT
** *
33050 GGCTGAGATTTATTTAGATGAATATAGATATTTCAAGGAGTCTTGGTA--CTAAAAATCATGCAA
192 GGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTT--TACGCCAAAAATCATGCAA
* * * ** *
33113 AACTGAAGC-GGGCCCTGGAACGCATTTTTAGC---CGAAAATCGTGATGGTTATTACACGATTT
255 AACTGAAGCGGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGATGG----TACACGATTT
33174 CGGCT-AAATTTTGC
316 CGGCTAAAATTTTGC
* * * * * * * *
33188 AAAAATTGACCCGAAAGATTTTTCCTCTATTTCTAGCGAAAATACTCATAAGAATTATATAATTT
1 AAAAATTGACCCGAAATATTTTTCCTCAATTTTTA-CCACAATACTCATAAAAAATATATAATTC
* * * * * * **
33253 GACGACAAAAA-ACTGAAAGCCTTTTTCACACTTCTAATATTGTTTTTCCTATTTTATTTCCAAA
65 AACGACAAAAAGATTGAAGGGC-TTTTCACGCTTCTAATATTGTTTTTCC-ATATT-TTTCTGAA
* * * * ** * *
33317 TTAATTTCTGATTAAATTGAAACAATATTTAGAAACTCGTAAAAATAAATCCTTAAATACAATGT
127 TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGT
* * ** * **
33382 GGCTGAGATTTGGTTAGATGAATATAGATATATTTTAAAGAGTCTTGGCACCAAAAATCATTTAA
192 GGCTGAGATTTGGTTAGATGAATATAG--ATATTTCAAGGAGTCTTTACGCCAAAAATCATGCAA
* * *
33447 AACTG-ACCTAGGGCCCCGAAACGCGTTTTTAGCCAAAAAAAA-----ATGGTACACGATTTCGG
255 AACTGAAGC-GGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGATGGTACACGATTTCGG
33506 CTAAAATTTTGC
319 CTAAAATTTTGC
** * *
33518 AAAAATTGATACAAAATATTTTT-CTCAATTTTCAGCCACAATACTCATAAAAAAATATATAATT
1 AAAAATTGACCCGAAATATTTTTCCTCAATTTTTA-CCACAATACTCAT-AAAAAATATATAATT
* * * * *
33582 CAACG-CAAAAAAGGTTGAAGGGCTTCTCATGCTTCTAATATTGTTTTTCC-TATTTTTTTCAAA
64 CAACGAC-AAAAAGATTGAAGGGCTTTTCACGCTTCTAATATTGTTTTTCCATATTTTTCT-GAA
* * * *
33645 TTAATTTCTATTTAAATAAATCGAAACATGATTCAAATGCTTGTAAAAACAAATCCTTAAATCCA
127 TTAATTTC----TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCA
* ** * *
33710 ATGCGGCAAAGATTTGGTT--A-GAATATAGATACTTCAAGGAGT-TTTACCACCAAAAATCATG
188 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTA-CGCCAAAAATCATG
** *
33771 CAAAACTGACTCGGGGCCCCGGAACGCGTTTTTAGCAAAAAAAAACCGTGATGGTACACGATTTC
252 CAAAACTGAAGCGGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGATGGTACACGATTTC
** * *
33836 GGCTGCAACTATGC
317 GGCTAAAATTTTGC
* * * * *
33850 AAAAATTGACCTGAAATATTTTTCCTCAATTTTTCACCACAATACTCATAGAATATATACAATTA
1 AAAAATTGACCCGAAATATTTTTCCTCAATTTTT-ACCACAATACTCATAAAAAATATATAATTC
* ** ** **
33915 AACGACAAAAAGATTGGAGGAATTTTCACGCTT-TGAATATCCTTTTT-CATATCCTTCTGAATT
65 AACGACAAAAAGATTGAAGGGCTTTTCACGCTTCT-AATATTGTTTTTCCATATTTTTCTGAATT
* * * *
33978 AGTTTCTAATTAAACCGAAAC-A-ATTCAGATGCTCGTAAAAATAAATCCTTAAATACAATGTGG
129 AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * * * *
34041 TTGGGATTTGGTTTGATTAATATAGATATTTCAAGAAGTCTTTACGCCAAAAATCATGCAAAACT
194 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTACGCCAAAAATCATGCAAAACT
* * * ** * * *
34106 GAAACGGGGCCCAGAAACGTGTTTTTAG--TGAACAAACCGTGA-CGTACACGATTTCGGTTAAA
259 GAAGCGGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGATGGTACACGATTTCGGCTAAA
*
34168 ATTTTAC
324 ATTTTGC
* * *
34175 AAAAATTGACCCGAAA-AGTTTTTCCTCAATTTTTAGCCATAATACTCAGAAAAAAAAATATAAT
1 AAAAATTGACCCGAAATA-TTTTTCCTCAATTTTTA-CCACAATACTCA-TAAAAAATATATAAT
* * * * * * ** * *
34239 TCAACGCCAAAAAAATCGAATGG-TTTCTCACGCTTATTATATCATTTTTCCAT-TTTTTCCGAC
63 TCAACGACAAAAAGATTGAAGGGCTTT-TCACGCTTCTAATATTGTTTTTCCATATTTTTCTGAA
* * *
34302 TTTATTTCTAATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAATCCTTAAATCCAATGT
127 TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGT
* * * *
34367 GGCTGAGATTTCGTTAGATGAATATAGATATTTCAAGGTGACTTTATGCCAAAAATCATGCAAAA
192 GGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTACGCCAAAAATCATGCAAAA
* * ** * *
34432 CTG-AGACGAGGCCCCGAAACGTGTTTTT---AACCAAAAACTGTGATGGTTGGTATACGATTTC
257 CTGAAG-CGGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGA----TGGTACACGATTTC
34493 GGC--------T--
317 GGCTAAAATTTTGC
* * *
34497 AAAAACTGACCCG-AATAATTTTT-TTACAATTTTTTGCCACAATACTCATAAAAAAATATATAA
1 AAAAATTGACCCGAAAT-ATTTTTCCT-CAA-TTTTTACCACAATACTCAT-AAAAAATATATAA
* * * * *
34560 TTCAATGCCAAAAAGATTGAAGGGTTTTTCACACTTCTAATATTGTTTTTCC-TTTTTTTC-GAA
62 TTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATTGTTTTTCCATATTTTTCTGAA
* * * *
34623 TTAATTTCTTATTAAATCGAAACAAGATTCAAATCCAT-GTAAAAACAAATCGTTAAATCCAATG
127 TTAATTTCTAATTAAATCGAAACAAGATTCAGATGC-TCGTAAAAACAAATCCTTAAATCCAATG
* * * *
34687 TGGCTGGGATTTTGTTCGATGAATATAGATATTTCAAGGAGTCTTTTAAGCCAAAAATCATGCAA
191 TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTC-TTTACGCCAAAAATCATGCAA
*** * * * * *
34752 AACT-AAGCTGGGGCCCCGAAAAATGTTTTTAGC---CAAAATCCGTGATGAGTAAAAGTTTTTC
255 AACTGAAGC-GGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGATG-GTACACG-ATTTC
** *
34813 GATTAAAA-TTTGT
317 GGCTAAAATTTTGC
*** * * * * *
34826 AAAAAGAAACCC-AAAAAATTTTCCTCAATTCTTTGCCACAATACTCAGAAAAAATATTTAACTT
1 AAAAATTGACCCGAAATATTTTTCCTCAATT-TTTACCACAATACTCATAAAAAATATATAA-TT
* * * * * *
34890 -AACGTCAAAAATATTGAAGGGTTTTTTACGCTTCTAATATTGTTTTTCCAT-TTTTCCCGAATT
64 CAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATTGTTTTTCCATATTTTTCTGAATT
* * * *
34953 AATTTCTAATTAAATCGAAACAAAATTCAAATGCTCGTAAAAACAAATCCTTAAATCCATTGTGA
129 AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* *
35018 CTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGTC-TTACTGCTAAAAATCATGCAAAAC
194 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTAC-GCCAAAAATCATGCAAAAC
** ** * * * * ** *
35082 T-AAGGCGGGGCCCCGAAACGAATTTTTAG-AGCAAAAAACCATGATGCTAAAAACTACTAAC-C
258 TGAA-GCGGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGATGGT--ACACGA-TTTCGG
* **
35144 CGAAAAGATTTTTTTTTT
319 C-TAAA-A----TTTTGC
* * *** * ** ** * * *
35162 TACAACAAACCTGAAA-AGTTAAAT-CTCAATTTTTTGCAAAATATTCAGGAAAAAATATATAAT
1 AAAAATTGACCCGAAATA-TT-TTTCCTCAATTTTTACCACAATACTCA-TAAAAAATATATAAT
* *** * ** **** * *
35225 TTAATTCCAAAAAGGTT-----G-TTGCCAAAAAAT-AAATATTGTTTTTCCATTTCTTTTTTTC
63 TCAACGACAAAAAGATTGAAGGGCTTTTC-ACGCTTCTAATATTGTTTTTCCA----TATTTTTC
* * * * * *
35283 CGAATTAATTTCTAATTAAATTGAAACAAGATTCAAATGCTCGT--AAAGAAATCCTTATATCTA
123 TGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCA
* * * * *
35346 ATGTGGCTGAGATTTGGTTCGATGAATATAGATACTTAAAGGAGTCTTTGCGGCAAAAATCATGC
188 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTACGCCAAAAATCATGC
* * *
35411 AAAATTG-AGCCGGGGCTCCG----GCGTTTTTAGTC----AAAAACCGTGATGGTTAGTACACA
253 AAAACTGAAG-CGGGGCCCCGAAACGCGTTTTTAG-CAAAAAAAAACCGTGAT-G---GTACACG
35467 ATTTCGGCTAAAATTTTGC
312 ATTTCGGCTAAAATTTTGC
* * * * * *
35486 AAAAACTGACCCGAAAAATTTTTACTCAATTTTTTGCCACAATACTCAGAAAAAATATTTAATTC
1 AAAAATTGACCCGAAATATTTTTCCTCAA-TTTTTACCACAATACTCATAAAAAATATATAATTC
* * * * * *
35551 AATGCCAAAAAAAATTG-AGGG-TTTTCACGTTTCTAATATCGTTTTTCCATTTTTTTTCTGAAT
65 AACGAC-AAAAAGATTGAAGGGCTTTTCACGCTTCTAATATTGTTTTTCCA-TATTTTTCTGAAT
* * *
35614 CT-ATTTCTAATTAAATCGAAACAAGATTCAGATGTTCGTAAAAACAAATCCTTATATCCATTGT
128 -TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGT
* *
35678 GGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGGATTCTTT-CTGCCAAAAATCATGCAAA
192 GGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTAC-GCCAAAAATCATGCAAA
* *
35742 ACT-AAGCCGGGACTCCGAAACGCGTTTTTAGCAAAAAAAAA
256 ACTGAAG-CGGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAA
35783 AAAAAACTGT
Statistics
Matches: 2350, Mismatches: 419, Indels: 312
0.76 0.14 0.10
Matches are distributed among these distances:
318 2 0.00
319 5 0.00
320 5 0.00
321 100 0.04
322 143 0.06
323 10 0.00
324 45 0.02
325 132 0.06
326 132 0.06
327 206 0.09
328 423 0.18
329 97 0.04
330 101 0.04
331 104 0.04
332 329 0.14
333 183 0.08
334 189 0.08
335 31 0.01
336 74 0.03
337 34 0.01
338 5 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (330 bp):
AAAAATTGACCCGAAATATTTTTCCTCAATTTTTACCACAATACTCATAAAAAATATATAATTCA
ACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATTGTTTTTCCATATTTTTCTGAATTAA
TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
GAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTACGCCAAAAATCATGCAAAACTGA
AGCGGGGCCCCGAAACGCGTTTTTAGCAAAAAAAAACCGTGATGGTACACGATTTCGGCTAAAAT
TTTGC
Found at i:46612 original size:332 final size:331
Alignment explanation
Indices: 45862--47438 Score: 1505
Period size: 326 Copynumber: 4.8 Consensus size: 331
45852 TTTAATACTT
* * * * *
45862 TATA-TCATCTAACCAAATCTCAGCAACATTGGATTTAAGAATTT-TTTTTACGAGCATCTCAAT
1 TATATTCATCTAATCAAATCTTAACCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
* * * * * *
45925 CTTATTTCGATTTAATTAGAAATTAATTTAGAAAAAATAAG-AAATACGATACTAAAAGCATAAA
66 CTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAAT-AGTAAAAACGATATTGAAAGCGTGAA
* * * *
45989 AAGCACTTCAATCTTTTTTGCATTGAATTATATA-TTTTTATGAGTATTTTAGCCAAAAATTGAG
130 AAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTAGCCTAAAATTGAG
* * * *
46053 GAGAA-ATCTTT-TGTGTCAATTTTTGTAAAATTTTAGCCAAAATCATGTACTAACCATCACGGT
195 GA-AATATTTTTCTG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * * *
46116 TTTTGGTTAAAAACGCGTTCCGGAGACCGACTCAATTTTGCATGATTTTTTGCTCCAAGACTACT
258 TTTTGGCTAAAAACGCGTTCCGGAGCCCGACTCAATTTTGCATGATTTTTGGCACCAAGACTCCT
46181 TGAAATATC
323 TGAAATATC
** * *
46190 TATATTTGTCTAATCAAATCTCAACCACATTGGATTTAA-AGATTTATTTTTACGAGCATCTGAA
1 TATATTCATCTAATCAAATCTTAACCACATTGGATTTAAGA-ATTTGTTTTTACGAGCATCTGAA
* * * *
46254 TCTTGTTTTGATTTAATTAAAAATTAATTTGGAAAAAATAGTAAAAACGATATTGGAAAG-GTCA
65 TCTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAGTAAAAACGATATT-GAAAGCGTGA
* * *
46318 AAAGCTCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATAAGTATTTTAGCCTAAAATTGA
129 AAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTAGCCTAAAATTGA
* ** * * **
46383 GGAAATATTATTCTAATCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAATT
194 GGAAATATTTTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTT
** * * * *
46448 TTTGGCTAAAAAAACGTTCTGGGGCCCCGAATCAGTTTTGCATGATTTTTGGCACCAAGACTCCT
259 TTTGGCTAAAAACGCGTTCCGGAG-CCCGACTCAATTTTGCATGATTTTTGGCACCAAGACTCCT
*
46513 TGAGATATC
323 TGAAATATC
* * * *
46522 CATATTCATCTAATAAAATCTTAGCCACATTGGATTTAAGAATTTGTTTTTACAAGCATCTGAAT
1 TATATTCATCTAATCAAATCTTAACCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
* * *
46587 CTTGTTTCGATTTTATTAGAAATTAATTCAG-AAAAATA-TGAAAAACGATATTAAAAGCGTGAA
66 CTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAGT-AAAAACGATATTGAAAGCGTGAA
** * * * * * * * *
46650 AAGTTCTCCAATCCTTTTGGTGTTAAATTATATA-----TATGAGTATTTTA-TCAAGAAATAGG
130 AAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTAGCCTA-AAATTGA
* * * * * * *
46709 GGAAA-ACTTTTTCGGGTCATTTTTTTCAAAGTTTTAGACAAAATCGTGTACTAATCATCACGGT
194 GGAAATA-TTTTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
** * * * * * *
46773 TTTTGGCTAAAAACGCGTTTTGGAGCCCCGGCTCAGTTTTACATGATTTTTGGCGCCGACACTCC
258 TTTTGGCTAAAAACGCGTTCCGGAG-CCCGACTCAATTTTGCATGATTTTTGGCACCAAGACTCC
46838 TTGAAATATC
322 TTGAAATATC
* * * *
46848 TATATTCATCTAATAAAATCTTAACCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAAAT
1 TATATTCATCTAATCAAATCTTAACCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
* * *
46913 CATGTTTCGATTTAATTAGAAATTAATTCTA-AAAAAATA-TGAAAAACAATATT-AGAGGCGTG
66 CTTGTTTCGATTTAATTAGAAATTAATT-TAGAAAAAATAGT-AAAAACGATATTGA-AAGCGTG
* * *
46975 AAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATTAT-GACTAAAAATT
128 AAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTAGCCT-AAAATT
* ** * * * * * * * **
47039 GAGAAAATACCTTTCGGGTCAATTTCTGCAATATGTTATCCGAAATCGTGTAATAATCATCATTG
192 GAGGAAATATTTTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG
* * ** * * * *
47104 TTTATGGCTAAAAACGCGTTCCGGGGCCCGGTTCAATTTTGAATGATTTTTGACATCGAGACTCC
257 TTTTTGGCTAAAAACGCGTTCCGGAGCCCGACTCAATTTTGCATGATTTTTGGCACCAAGACTCC
47169 TTGAAATATC
322 TTGAAATATC
* * ** * *
47179 TATATTAATCTAACCAAA---T--CC-C---------AACCA-TTGTTTTTACAAACATCTGAAT
1 TATATTCATCTAATCAAATCTTAACCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
* * *
47228 -TATGTTTC-ATTTTAATTAAAAATTAA-TTCGAAAAAAATAGGAAAAACGATATTAGAAA-CGT
66 CT-TGTTTCGA-TTTAATTAGAAATTAATTTAG-AAAAAATAGTAAAAACGATATT-GAAAGCGT
* * *
47289 GAAAAGCCCTTCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGT-GGCTAAAAAT
127 GAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTAGCCT-AAAAT
* *
47353 TGA-AAGAATATTTTTCTGGTC-ATTTATTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCA
191 TGAGGA-AATATTTTTCTGGTCAATTT-TTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCA
***
47416 CGGTTTTTTATTAAAAACGCGTT
254 CGGTTTTTGGCTAAAAACGCGTT
47439 TTACGACCAT
Statistics
Matches: 1039, Mismatches: 176, Indels: 81
0.80 0.14 0.06
Matches are distributed among these distances:
313 1 0.00
314 8 0.01
315 184 0.18
316 4 0.00
317 1 0.00
325 4 0.00
326 218 0.21
327 57 0.05
328 6 0.01
329 35 0.03
330 104 0.10
331 206 0.20
332 208 0.20
333 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (331 bp):
TATATTCATCTAATCAAATCTTAACCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
CTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAGTAAAAACGATATTGAAAGCGTGAAA
AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTAGCCTAAAATTGAGG
AAATATTTTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTT
TGGCTAAAAACGCGTTCCGGAGCCCGACTCAATTTTGCATGATTTTTGGCACCAAGACTCCTTGA
AATATC
Found at i:48714 original size:331 final size:329
Alignment explanation
Indices: 47827--49477 Score: 1626
Period size: 331 Copynumber: 5.0 Consensus size: 329
47817 AAATAATAGG
* * * ** * ** *
47827 AAAATGATATTAGAAGCATGAAAAACCTTTCAATCTTTTTGGTATTGAATTATATAATTTTTATG
1 AAAACGATATTAAAAGCGTGAAAAGGCATTCAATCTTTTTGGCGTTGAATTATATATTTTTTATG
* * *
47892 AGTATTGTGGA-TAAAAATTGAGGAAATAA-CTTTCGAGTCAATTTTTGCAAAATTCTAGCCGAA
66 AGTATT-T-TACTAAAAATCGAGGAAA-AATCTTTCGAGTCAATTTTTGCAAAATTTTAGCCGAA
* * * **
47955 ATCGTGTAATAATCATCATC-GTTTTTGGCTAAAAACGCGTTCGGGGGCCCCGACTAAGTTTTAA
128 ATCGTGTAATAACCATCA-CGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCAG-CTAAGTTTTGC
** * * * * * *
48019 ATGATTTTTGCCGCCAAGACTCTTTG-AGATATCCATATTCATTTAATCTAATGTCAGCTACATT
191 ATGATTTTTGGTGCCAAGACTCCTTGAAG-TATCTATATTCATCTAATCAAATCTCAGCCACATT
* * * * * *
48083 GGATTGAAGAATTTGTTTTTAATTACGAGCATCTCAATCTTGTTTCGATTTAACTAGAAATTAAC
255 GAATTTAAGGATTTG--TTT--TTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAAT
*
48148 TCAGAAAAACATGA
316 TCAGAAAAATATGA
* * * * * *
48162 AAAACGATATTAAAAGTGTGAAAAGTCCTCCAATCTTTTAGGC-----ATTA-A-A--TTGTAT-
1 AAAACGATATTAAAAGCGTGAAAAGGCATTCAATCTTTTTGGCGTTGAATTATATATTTTTTATG
* * * * **
48217 -GTATTTTA-TGCAAAATTTGACAGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTT-TTCGAA
66 AGTATTTTACT--AAAAATCGA-GGAAAAATCTTTCGAGTCAATTTTTGCAAAATTTTAGCCGAA
* * * * * * *
48279 ATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCATTTCGGGGCCCAACTCAGTTCTGCAT
128 ATCGTGTAATAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCAGCTAAGTTTTGCAT
* * * * * * * * *
48344 GATTTTTTGTGTCGAGACTCCTTGAAATATTTGTATTCATCTTATCAAATCCCATCCACATTGAA
193 GATTTTTGGTGCCAAGACTCCTTGAAGTATCTATATTCATCTAATCAAATCTCAGCCACATTGAA
48409 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAA
258 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAA
48474 AATATGA
323 AATATGA
* * *
48481 AACACGATATTAAAAGCGTGAAAAAGGCATTCAATTTTTTTTGCGTTGAATTATATATTTTTTAT
1 AAAACGATATTAAAAGCGTG-AAAAGGCATTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT
* *
48546 GAGTATTTTCACTAGAAATCGAGGAAAAATCTTTCGAGTCAATTTTTGTAAAATTTTAGCCGAAA
65 GAGTATTTT-ACTAAAAATCGAGGAAAAATCTTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAA
* * * * * * * *
48611 TCATGTACTAACCGTCACGGTTTTCGGCTAAGACCGCGTTCCGGGGCCCAGCTTAGTTTTGTATG
129 TCGTGTAATAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCAGCTAAGTTTTGCATG
* *
48676 ATTTTTGGTTCCAAGACTCCTTGAAGTATCTATATTCATCTAACCAAATCTCAGCCACATT-AGA
194 ATTTTTGGTGCCAAGACTCCTTGAAGTATCTATATTCATCTAATCAAATCTCAGCCACATTGA-A
* * * *
48740 TTTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAAAAATTAATT-TGGAA
258 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAA
*
48804 AATAGGA
323 AATATGA
* * * * * *
48811 AAAACAATATTAGAAA-TGTCAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATTTTTTTTTA
1 AAAACGATATTA-AAAGCGTGAAAAGGCATTCAATCTTTTTGGCGTTGAATTATA-TATTTTTTA
* ** * * * * *
48875 TAAGTATTTTAGCCCAAAATTGAGGAATCAAT-TTTCTAATCAATTTTTACAAAATTTTAGCCGA
64 TGAGTATTTTA-CTAAAAATCGAGGAA-AAATCTTTCGAGTCAATTTTTGCAAAATTTTAGCCGA
* * *** * * * *
48939 AATTGTGTAATAATCATCTTAGTTTTTGGCTAAAAAAGCGTTCTGGGGCCCCCGCAAAGTTTTGC
127 AATCGTGTAATAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGG-CCCAGCTAAGTTTTGC
* *
49004 ATGATTTTTGGTGCCAAGACTCCTTG-AGATAT-TCATATTCATCTAACCAAATCTTAGCCACAT
191 ATGATTTTTGGTGCCAAGACTCCTTGAAG-TATCT-ATATTCATCTAATCAAATCTCAGCCACAT
* * * * * *
49067 TGGATTTAAGAATTT-TTTTTATGTGCATCTGAATTTTGTTTCGATTTAATTACAAATTAATTCA
254 TGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-
*
49131 AAAAAAATATGA
318 AGAAAAATATGA
* *
49143 AAAACGATATTAAAAGCGTGAAAA-GTACTTCAATGC-TTTTGACGTTGAATTATATATTTTTTA
1 AAAACGATATTAAAAGCGTGAAAAGGCA-TTCAAT-CTTTTTGGCGTTGAATTATATATTTTTTA
* * * * *
49206 TGAGTATTTTTGCCAAAAAATCAAGGAAAAGTCTTTCGGGTCAATTTTTGCAAAAATTTTAGCCG
64 TGAGTA-TTTT-ACTAAAAATCGAGGAAAAATCTTTCGAGTCAATTTTTGC-AAAATTTTAGCCG
** * * * * * *
49271 AAATAATGTATTAACCATCACGGTTTTTGACTAAAACCGCATTCCGGGGCCCGGCTCAGTTTTGC
126 AAATCGTGTAATAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCAGCTAAGTTTTGC
* * * * * *
49336 AGGATTTTTTTGTGCCAAAACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGTCACGTT
191 ATGA-TTTTTGGTGCCAAGACTCCTTGAAGTATCTATATTCATCTAATCAAATCTCAGCCACATT
* * *
49401 AAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCAA
255 GAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG
49466 AAAAATATGA
320 AAAAATATGA
49476 AA
1 AA
49478 TGAAATTTTG
Statistics
Matches: 1076, Mismatches: 197, Indels: 88
0.79 0.14 0.06
Matches are distributed among these distances:
319 71 0.07
320 17 0.02
321 3 0.00
322 2 0.00
323 66 0.06
324 62 0.06
325 33 0.03
326 6 0.01
327 1 0.00
328 1 0.00
329 37 0.03
330 194 0.18
331 285 0.26
332 94 0.09
333 126 0.12
334 45 0.04
335 33 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (329 bp):
AAAACGATATTAAAAGCGTGAAAAGGCATTCAATCTTTTTGGCGTTGAATTATATATTTTTTATG
AGTATTTTACTAAAAATCGAGGAAAAATCTTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATC
GTGTAATAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCAGCTAAGTTTTGCATGAT
TTTTGGTGCCAAGACTCCTTGAAGTATCTATATTCATCTAATCAAATCTCAGCCACATTGAATTT
AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAT
ATGA
Found at i:58733 original size:13 final size:13
Alignment explanation
Indices: 58715--58739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58705 AATTTCTTAA
58715 AATTAAAATATTG
1 AATTAAAATATTG
58728 AATTAAAATATT
1 AATTAAAATATT
58740 TATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATTAAAATATTG
Found at i:60555 original size:13 final size:13
Alignment explanation
Indices: 60537--60561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60527 TTTAATGTTC
60537 TAAATATTATTTA
1 TAAATATTATTTA
60550 TAAATATTATTT
1 TAAATATTATTT
60562 GGAATTCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATATTATTTA
Found at i:60739 original size:22 final size:21
Alignment explanation
Indices: 60699--60739 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
60689 TAGATTATAA
*
60699 TTATTTTTAATCATTAAATTT
1 TTATTTTTAATCATAAAATTT
*
60720 TTATTTATTAATTATAAAAT
1 TTATTT-TTAATCATAAAAT
60740 CATTAAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTTAATCATAAAATTT
Found at i:60743 original size:30 final size:30
Alignment explanation
Indices: 60707--60768 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
60697 AATTATTTTT
*
60707 AATCATTAAATTTTTATTTATTAATTATAA
1 AATCATTAAACTTTTATTTATTAATTATAA
60737 AATCATTAAACTTTTATTTATTAATTATAA
1 AATCATTAAACTTTTATTTATTAATTATAA
60767 AA
1 AA
60769 GATATTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (30 bp):
AATCATTAAACTTTTATTTATTAATTATAA
Found at i:64711 original size:12 final size:11
Alignment explanation
Indices: 64694--64749 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
64684 GGTTGAGGAG
64694 AAAAAGAAGAGA
1 AAAAAGAA-AGA
64706 AAAAAGAAA-A
1 AAAAAGAAAGA
*
64716 AAAAGGAAAGA
1 AAAAAGAAAGA
*
64727 AAAAGAAAAAGA
1 AAAA-AGAAAGA
64739 CAAAGAAGAAA
1 -AAA-AAGAAA
64750 ATAGGGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 9 0.25
11 6 0.17
12 13 0.36
13 7 0.19
14 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:64717 original size:9 final size:9
Alignment explanation
Indices: 64692--64736 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
64682 CGGGTTGAGG
*
64692 AGAAAAAGA
1 AGAAAAAAA
*
64701 AGAGAAAAA
1 AGAAAAAAA
64710 AGAAAAAAA
1 AGAAAAAAA
64719 AGGAAAGAAAA
1 A-GAAA-AAAA
64730 AGAAAAA
1 AGAAAAA
64737 GACAAAGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 18 0.58
10 8 0.26
11 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:65793 original size:17 final size:17
Alignment explanation
Indices: 65771--65803 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65761 TACCTTATTT
65771 CTTCTT-TTTGTTTTTTC
1 CTTCTTCTTT-TTTTTTC
65788 CTTCTTCTTTTTTTTT
1 CTTCTTCTTTTTTTTT
65804 TTTTTTGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTCTTCTTTTTTTTTC
Found at i:65806 original size:20 final size:20
Alignment explanation
Indices: 65769--65805 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65759 ATTACCTTAT
65769 TTCTTCTTTTTGTTTTTTCC
1 TTCTTCTTTTTGTTTTTTCC
65789 TTCTTCTTTTT-TTTTTT
1 TTCTTCTTTTTGTTTTTT
65806 TTTTGCAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (20 bp):
TTCTTCTTTTTGTTTTTTCC
Found at i:82683 original size:19 final size:19
Alignment explanation
Indices: 82659--82695 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
82649 GTACAGTACC
82659 TAATCTAATCTATACAGTG
1 TAATCTAATCTATACAGTG
**
82678 TAATCTCGTCTATACAGT
1 TAATCTAATCTATACAGT
82696 TGCTAAACAG
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:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
TAATCTAATCTATACAGTG
Found at i:83023 original size:15 final size:15
Alignment explanation
Indices: 83004--83032 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
82994 ATTCTTTTTT
83004 TTTTTTAAAT-TTAA
1 TTTTTTAAATATTAA
83018 TTTTTTAAATATTAA
1 TTTTTTAAATATTAA
83033 GTAAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTTAAATATTAA
Found at i:92802 original size:3 final size:3
Alignment explanation
Indices: 92794--92827 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
92784 GGCTAGACAT
*
92794 CAC CAC CAC CAC CAC CAC CAC CAC CAT CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC C
92828 GGAGGCGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.65, G:0.00, T:0.03
Consensus pattern (3 bp):
CAC
Found at i:93975 original size:30 final size:30
Alignment explanation
Indices: 93940--94022 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
93930 TTAATACCCT
*
93940 TTTTGCCCCCTGAACTTGTATGATTTT-GAC-
1 TTTTGCCCCTTGAACTTGTA--ATTTTGGACA
*
93970 TTTTGCCCCTTAAACTT-TAATTTTGGACA
1 TTTTGCCCCTTGAACTTGTAATTTTGGACA
* *
93999 TTTTTCCCCTTGAACTTGCAATTT
1 TTTTGCCCCTTGAACTTGTAATTT
94023 GAAGCCATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.11
28 3 0.07
29 17 0.38
30 20 0.44
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.46
Consensus pattern (30 bp):
TTTTGCCCCTTGAACTTGTAATTTTGGACA
Found at i:94023 original size:29 final size:28
Alignment explanation
Indices: 93938--94023 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 28
93928 ACTTAATACC
* *
93938 CTTTTTGCCCCCTGAACTTGTATGATTTTGA
1 CTTTTT-CCCCTTGAACTTGTA--ATTTGGA
* *
93969 CTTTTGCCCCTTAAACTT-TAATTTTGGA
1 CTTTTTCCCCTTGAACTTGTAA-TTTGGA
*
93997 CATTTTTCCCCTTGAACTTGCAATTTG
1 C-TTTTTCCCCTTGAACTTGTAATTTG
94024 AAGCCATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.02
28 6 0.13
29 21 0.47
30 12 0.27
31 5 0.11
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (28 bp):
CTTTTTCCCCTTGAACTTGTAATTTGGA
Found at i:97647 original size:28 final size:28
Alignment explanation
Indices: 97615--97677 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
97605 TTACAATGGT
97615 CCAATAAATACCAAACAAATAATTTCAG
1 CCAATAAATACCAAACAAATAATTTCAG
97643 CCAATAAATACCAAACAAATAATTTCAG
1 CCAATAAATACCAAACAAATAATTTCAG
97671 CCAATAA
1 CCAATAA
97678 TAAGAGCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.21
Consensus pattern (28 bp):
CCAATAAATACCAAACAAATAATTTCAG
Found at i:98902 original size:31 final size:31
Alignment explanation
Indices: 98867--98930 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
98857 AGTTTGTATA
98867 AAACGGTGTAGTATTATTAAGTTGGTAAGCT
1 AAACGGTGTAGTATTATTAAGTTGGTAAGCT
* * *
98898 AAACGGTGTAGTATTGTTAAGTTGTTTAGCT
1 AAACGGTGTAGTATTATTAAGTTGGTAAGCT
98929 AA
1 AA
98931 GGCAGTTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (31 bp):
AAACGGTGTAGTATTATTAAGTTGGTAAGCT
Found at i:100227 original size:21 final size:21
Alignment explanation
Indices: 100203--100248 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
100193 TTTCAAACAC
* *
100203 CTGCCTATGCACCTTCAGTTG
1 CTGCCTATACACCTCCAGTTG
100224 CTGCCTATACACCTCCAGTTG
1 CTGCCTATACACCTCCAGTTG
100245 CTGC
1 CTGC
100249 ATACCAGTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.37, G:0.17, T:0.30
Consensus pattern (21 bp):
CTGCCTATACACCTCCAGTTG
Found at i:103853 original size:31 final size:31
Alignment explanation
Indices: 103817--103880 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
103807 AGTTTGTATA
103817 AAACGGTGTAGTATTATTAAGTTGGTAAGCT
1 AAACGGTGTAGTATTATTAAGTTGGTAAGCT
* * *
103848 AAACGGTGTAGTATTGTTAAGTTGTTTAGCT
1 AAACGGTGTAGTATTATTAAGTTGGTAAGCT
103879 AA
1 AA
103881 GGCAATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (31 bp):
AAACGGTGTAGTATTATTAAGTTGGTAAGCT
Found at i:113681 original size:171 final size:168
Alignment explanation
Indices: 113377--113718 Score: 612
Period size: 171 Copynumber: 2.0 Consensus size: 168
113367 AAATTGAAGA
* *
113377 AATGAATATGAAGAAGGGGTTTGCAAACCATTCAACCAAAGTCATATATCCTAATTGTTAGATTA
1 AATGAAGATGAAGAAGGGGTTGGCAAACCATTCAACCAAAGTCATATATCCTAATTGTTAGATTA
113442 GATCATTAGGAGTGGTGTTAACTTAGAATTAGCGGTAGTTTGATCTCTCTTGTCTCTTAAGTCCC
66 GATCATTAGGAGTGGTGTTAACTTAGAATTAGCGGTAGTTTGATCTCTCTTGTCTCTTAAGTCCC
113507 TTCCTTTGTAATATATTTCCTAAGCTTGTCTCGGTTAT
131 TTCCTTTGTAATATATTTCCTAAGCTTGTCTCGGTTAT
113545 AATGAAGATGAAGAAGGGGTTGGCAAACCATTCAACCAAAGTCATATATCCTAATTGTTAGATTA
1 AATGAAGATGAAGAAGGGGTTGGCAAACCATTCAACCAAAGTCATATATCCTAATTGTTAGATTA
* *
113610 GATCATAATTAGGAGTGGTGTTAACTTAGAATTAGTGGTAGTTTGATCTCTCTTGTTTCTTAAGT
66 GATC---ATTAGGAGTGGTGTTAACTTAGAATTAGCGGTAGTTTGATCTCTCTTGTCTCTTAAGT
*
113675 CCCTTCCTTTGTAATATATTTCCTAAGCTTGTCTCGGTTGT
128 CCCTTCCTTTGTAATATATTTCCTAAGCTTGTCTCGGTTAT
113716 AAT
1 AAT
113719 CAGGGTTCAA
Statistics
Matches: 166, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
168 67 0.40
171 99 0.60
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (168 bp):
AATGAAGATGAAGAAGGGGTTGGCAAACCATTCAACCAAAGTCATATATCCTAATTGTTAGATTA
GATCATTAGGAGTGGTGTTAACTTAGAATTAGCGGTAGTTTGATCTCTCTTGTCTCTTAAGTCCC
TTCCTTTGTAATATATTTCCTAAGCTTGTCTCGGTTAT
Found at i:117779 original size:15 final size:16
Alignment explanation
Indices: 117754--117783 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
117744 AATAATTATT
117754 TTTAGATTATAATATA
1 TTTAGATTATAATATA
117770 TTTA-ATTATAATAT
1 TTTAGATTATAATAT
117784 TATTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGATTATAATATA
Found at i:118819 original size:330 final size:329
Alignment explanation
Indices: 118147--122852 Score: 3202
Period size: 330 Copynumber: 14.4 Consensus size: 329
118137 ATACTTTACA
* * * * **
118147 TCATCTAACCAAATCTCAGCAACATTAGATTTAATAATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
118212 TTCGATTTAATTAGAAATTAATTTAGAAAAAAAAATAAGAAATACGATATTAAAAGCGTAAAAAA
66 TTCGATTTAATTAGAAATTAA-TT-G--GAAAAAATAGGAAAAACGATATTAAAA-CGTGAAAAG
*
118277 CCC-TCTAAACTTTTTGGCGTTGAATTATATAT-TTTTATGAGTA--TTAGCCAAAAATTGA-GA
126 CCCTTC-AATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCC-AAAATTGAGGA
** * * * *
118337 AAAA--AATC---T---TTTGTGTC--AATTTTAGCTGAAATCGTGTAATAACAAACCACCACGG
189 AAAATCTTTCGGGTCAATTTTTG-CAAAATTTTAGCCGAAATCGTGTAAT----AACCATCACGT
* *** * * * * * *
118392 TTTTTGGCTAAAAACGCGTTCCAGATACCCGGCTCAATTTTGCATGATTTCTGCCTCCGAGACTA
249 TTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTC
118457 CTTGAAATATCTATAT
314 CTTGAAATATCTATAT
* * * * * *
118473 TCATTTAATCAAATCTCACCCACAATAGATTTAAGGATTTGTTTTTACAAGCATATAAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
118538 TTCGATTTAATTAGAAATTAAGTTGGAAAAAATAGGAAAAATGATATTAGAAACTTCAAAAGCCC
66 TTCGATTTAATTAGAAATTAA-TTGGAAAAAATAGGAAAAACGATATTA-AAACGTGAAAAGCCC
* * *
118603 TTCAATCTTTTTGGCATTGAGTTATATAT-TTTTATGAGTATTTTAGCCAAAATTGAGGAAATAT
129 TTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCAAAATTGAGGAAAAAT
* * * *
118667 CTTTTGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACATTTTTTGGATA
194 CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGTTTTTTGGCTA
* * * * * *
118732 AAAAAGCGTTCCGGGGCCCCGGCTCAATTTTTCATGATTTTTGGAGCCAAGACTCATTGAGATAT
259 AAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATAT
118797 CTATAT
324 CTATAT
* * ** ** * *
118803 TCATCTAATCAAATCTCAGCTACATTGGATTTAAAAATTTGTTTTTATAAGCATCTAAATTTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * ** * * *
118868 TTCGATTCAATTAGAAAATAA-TACAGAAAAATATGAAAAATGATATTAAAAAACGTGAAAAGTC
66 TTCGATTTAATTAGAAATTAATTGGA-AAAAATAGGAAAAACGATATT--AAAACGTGAAAAGCC
* * * * * * * * *
118932 CTCCAACCTTTTTGCCATTAAATTATATATATTTCATGTGTATTTTATCCAAAAATTAAGGAAAA
128 CTTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCC-AAAATTGAGGAAAA
* * * * * * * ** *
118997 TTTTTTTGGATCATTTTTTGCAAAATTTTAGCCAAAATC-T-T-TTGGGCCATCACGATTTTTGG
192 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAAT-AACCATCACGTTTTTTGG
* * ** ** * * *
119059 CTAAAAACACGTTTCGGGGCAACAACTCAGTTTTGCATGATTTTTAGCGCCGACACTCCTTGAAA
256 CTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAA
*
119124 TAACTATAT
321 TATCTATAT
* * * * * * * * * *
119133 TCATCTAATAAAATCTTAGCGACATTGCATTTAA-AATTT-CTTTTACGAGCATTTGAGTCATGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * ** ** * *
119196 TTCAATTTAATTAGAAATCAATCCAGAAAAAATATTTAAAAA-GATATTAAAAGCGTCAAAATCC
66 TTCGATTTAATTAGAAATTAAT-TGGAAAAAATA-GGAAAAACGATATTAAAA-CGTGAAAAGCC
* * * * * * * *
119260 TTTCAATCTTTTTGGTGTTGAATTATATACT-TTTTACGCGTATTATGGCTAAAAAATGAGGAAA
128 CTTCAATCTTTTTGGCGTTGAATTATATA-TATTTTATGAGTATTTTAGC-CAAAATTGAGGAAA
* * * * * *
119324 TATCTTCCGGGTCAATTTTTTCAAAATTTTAGCCGAAATCGTGTAACAATCATCACGGTTTTTGG
191 AATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGTTTTTTGG
*** * *
119389 CTAAAAACGCGTTCCGGGG-CCCATTTCAATTTTGAATGATTTTTGGCG-CAGAGACTCCTTGAA
256 CTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCA-AGACTCCTTGAA
119452 ATATCTATAT
320 ATATCTATAT
* * * * *
119462 TCATCTAACCAAATCCCAG-C-C-----A-TT---G--TT-TTTATA--AGAATCTGAATCATGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * * *
119511 TTCGTTTTAACTAGAAATTAGTTCGGAAAAAAATAGGAAAAATGGTATTATAAGCGTGACAAGCC
66 TTCGATTTAATTAGAAATTAATT-GG-AAAAAATAGGAAAAACGATATTA-AAACGTGAAAAGCC
* *
119576 CTTCAATCTTTTTGGCGTTG--------A-A---TATGAGTATTGTGGCCAAAAATTGAGGAAAA
128 CTTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCC-AAAATTGAGGAAAA
* ** * * * * ****
119629 ATATTTCGGGTCTTTTTTTGCAAAGTATTAGCCGAAATCGTGTAACATCACGATTTTTTTTTATT
192 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGT-A-ATAACCATCACGTTTT-TT
* * * * * * * * *
119694 TGCTAAAAACACGTTCCGGGACCCGGGGTGAGTATTGCATGACTTTTGGCACCAAGACT-CTTGA
254 GGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGA
*
119758 ACTATCTATAT
319 AATATCTATAT
* * *
119769 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTGCGAGCATCTAAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * * *
119834 TTCGATTTAATTAGAGATTAATTCAGAAAAAGTAGG-AAAATGATATTAGAAGCGTAAAAAACCC
66 TTCGATTTAATTAGAAATTAATT-GGAAAAAATAGGAAAAACGATATTA-AAACGTGAAAAGCCC
* * * * ** * * *
119898 TTCAATATTTTTGGCGTAGAATTATATTTCTTTTATGA-TAAATTAGCAAAAATTTGAAGAAATA
129 TTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCAAAA-TTGAGGAAAAA
* * ** * * *
119962 TCTTTCCGGTCAATTTTTGCAAAATTTTAACTAAAATCGTGTAATAATCATCACAG-TTCTTAGC
193 TCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCAC-GTTTTTTGGC
* * * * * * *
120026 TAAAAATGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGCTAAGACTACTTGAGAT
257 TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAAT
*
120091 ATCCATAT
322 ATCTATAT
** *
120099 TCATCTAATCAAATCTCAGCCACAATACATTTAA-GCTTT-TTTTTACGAGCATCT-AA------
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
120155 ----A-TTAATTCAG-----AA-T-----AAATATGAAAAACGATATGAAAAGCGTGAAAAGTCC
66 TTCGATTTAATT-AGAAATTAATTGGAAAAAATAGGAAAAACGATATTAAAA-CGTGAAAAGCCC
* * * * **
120204 TCCAATCTTTTTTGCGTTAAATTATATATATTTCATGAGTATTTTAGTAAAAAATTGAGGAAAAA
129 TTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAG-CCAAAATTGAGGAAAAA
* ** * * * * *
120269 TTTTTTTGGTCATTTTTTGCAAAATTTTAGGCGAAATCGT-AAACCAACCATCACAGTTTTTTTT
193 TCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAA-TAACCATCAC-G-TTTTTTG
* * * * * *
120333 GCTAAAAACGCTTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTAGCGTCGAGACTCCTTGAA
255 GCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAA
*
120398 ATATATATAT
320 ATATCTATAT
* ** * * * *
120408 TCTTCTAATCAAATCTCAATCACATTGCATTTAAAGATTTGCTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* ** * * ** *
120473 TTCAATTTAATTAGATTTTAATT-CAAAAACATATGAAAAACGATATTAACAGTGTGAAAAGTCC
66 TTCGATTTAATTAGAAATTAATTGGAAAAA-ATAGGAAAAACGATATTAA-AACGTGAAAAGCCC
** * * * *
120537 -TCTAATAGTTTTGGAGTCGAATTATGTATATTTTATGAGTATTTTAGACAAAAATTGAGGAAAA
129 TTC-AATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAG-CCAAAATTGAGGAAAA
* * * * * * * * * *
120601 CTATATCTGATCAATTTTTGCAAAATATTAGCCGAAATTGTGTATGTTAGTCGAAATCACGGTTT
192 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA--ATA-AC--CATCAC-GTTT
* * * * * *
120666 TTT-GCTAAAAACGCGTTCC-AGGCCTCGGTTCAGTGTTGAATGATTTTTTGG-GCCGAGACTCC
251 TTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGA-TTTTTGGCGCCAAGACTCC
*
120728 TTGAAACATCTATAT
315 TTGAAATATCTATAT
* * * *** * * *
120743 TAATCTAACCAAATCTCATCCACAATGGATTTAAGGATTTG-TAAAACAAGCATCTTAATCATGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
120807 TTTGATTTAATTAAAAATTAATTTGGAAAATAATAGGAAAAATGATATTAGAAGCATGAAAAGCC
66 TTCGATTTAATTAGAAATTAA-TTGGAAAA-AATAGGAAAAACGATATTA-AAACGTGAAAAGCC
* * *
120872 CTTCAATCTTTTTGGCGTTGAATTATATA-ATTTTTATGAGTATTGT-GTCTTAAAATGGAGGAA
128 CTTCAATCTTTTTGGCGTTGAATTATATATA-TTTTATGAGTATTTTAG-C-CAAAATTGAGGAA
* * * * * * *
120935 ATAA-CTTTCGAGTTAATTTTTGCAAAATTCTAGCCGAAATCGTTTAGTAATCATCACGGTTTTT
190 A-AATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGTTTTTT
* * * * * * * *
120999 GACTAAAAACGCATTCCGGGGCCCCGTCTAAGTTTTGTATGATTTTTTGTGCCAAGAC-ACTTCG
254 GGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTT-G
*
121063 -AATATCCATAT
318 AAATATCTATAT
* * * ** *
121074 TCATCTAATCAAATCTCAGCTACATTGGATTTGA-GAAAT-TTTTTACGAGCATCTTAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * **
121137 TTCAATTTAATTAGAAATTAATT-CAGAAAATATGATAAAACGATTTTAAAAGCGTGAAAAGTTC
66 TTCGATTTAATTAGAAATTAATTGGAAAAAATAGGA-AAAACGATATTAAAA-CGTGAAAAGCCC
* * * * *
121201 TCCAATCCTTTCGGCGTTAAATTATATATGTTTTATGAGTA-TTTATGCCAGAAATTGACGGAAA
129 TTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTA-GCCA-AAATTGA-GGAAA
* * * * *
121265 AATTTTTCGGATCATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA-CATCACGGTTTTTGG
191 AATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGTTTTTTGG
* * * * * * *
121329 CTAAAAACGCATTTCGGGACCCCGCCTTAGTTTTTCATGATTTTTGGCGCCGAGACTCCTTGAAA
256 CTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAA
121394 TATCTATAT
321 TATCTATAT
* * * * *
121403 TCATCTAATCAAATCTTAGCCATATTGAATTTAAGGATTTGTTTTTATGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * *
121468 TTCGATTTAATATA-AAATTAATT-CAGAAAAATATGAAAAATGATATTAAAAGTGTGAAGAGTC
66 TTCGATTTAAT-TAGAAATTAATTGGA-AAAAATAGGAAAAACGATATTAAAA-CGTGAAAAGCC
* * * * ** * * *
121531 CTCCAATCTTTTAGGCTTTTAATTATATATATTCAATGAGTATTGTGGCTAAAAATTGAGGAAAA
128 CTTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGC-CAAAATTGAGG--AA
** * * **
121596 AAAAGTTT-GGGTCAATTTTTGCAGAATTTTAGCCGAAATCGTGTACCATCAA-GATTTC-TTTT
190 AAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA--AT-AACCATCACGTTTT
* ** * * ** * * * * * *
121658 TGGGGCGGAAAACGCGTT-TGAGGCCCCGAATCAGTTTTCCATGATTTTTAGTGGCAACATTCCT
252 T-TGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCT
121722 TGAAATATCTATAT
316 TGAAATATCTATAT
* * * * * *
121736 TCATCTAACCAAATCTTAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCATGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
121801 TTCAATTTAATTAGAAATTAATTTGAAAAAAAATAGGAAAAACGATATTAGAAGCGTGAGAAA-C
66 TTCGATTTAATTAGAAATTAA-TTG-GAAAAAATAGGAAAAACGATATTA-AAACGTGA-AAAGC
* * * **
121865 CCTTCAATCTTTTTTGCGTTGAATTATATATATTTTATGAGTATTGTGGTTAAAGATTGA-GAAA
127 CCTTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCAAA-ATTGAGGAAA
* * * * * * *
121929 AATATTCCAGGTCAATTTTTTGTAAAATTTTAGCCGAAATCATG----CACCATCATGGTTTTTT
191 AATCTTTCGGGTCAA-TTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCA-CG-TTTTT
* * * *
121990 TGGCTAAAAACGTGTTCCGGGGCCCTAGG-TCAGTTTTACATGATTTTTAGCAG-CAAGACTCCT
253 TGGCTAAAAACGCGTTCCGGGGCCC-CGGCTCAGTTTTGCATGATTTTTGGC-GCCAAGACTCC-
* *
122053 TAATATATATATAATATATATATAT
315 -------T-T-GAA-ATATCTATAT
* * * * * * ** *
122078 ATATATATATATTACCAAATCTCAGCCACATTGTATTTAAGGATTTATTTGTACGAGTTTCTAAA
1 -T-CATCTA-A-T--CAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
* * * * *
122143 TCCTATTTCGATTTAATCT---AATT--TTGAAATAAAATAGGCAAAACGATATTAGAAGCGTGA
60 TCTTGTTTCGATTTAAT-TAGAAATTAATTGGAA-AAAATAGGAAAAACGATATTA-AAACGTG-
* * * ** ** * * * *
122203 AAAAGGCTTTC--TGTTTTT----TTG--GCA-A-A-A--CGA-GATTATTTTCGCTAGAAATCG
121 AAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCA-AAATTG
*
122254 AGGAAAAATCTTTCGGG-CAATTTTTGCAAAA-TTTAGCCGAAATCGTG---T-A-CGTCACGGT
185 AGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCAC-GT
* * * * *
122312 TTTTTTGCTAAAAACGCGTTCTGGGG-CCCGACTCAGTTTTGCATGATTTTTGGTGTCAAGACTC
249 TTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTC
122376 CTTGAAATATCTATAT
314 CTTGAAATATCTATAT
* * * * * *
122392 TCATCTAACCAAATCTTAGCCACATTAGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
122457 TTCGATTTAATTAGAAATTAATTCGAAAAAAATAGGAAAAACCAATATTAGAAGCGTTG-AAAGC
66 TTCGATTTAATTAGAAATTAATT-GGAAAAAATAGGAAAAA-CGATATTA-AAACG-TGAAAAGC
*** **
122521 CCTTCAATCTTTTTGATATCAAATTATATATATTTTTATGAGTATTTTAGCCAAAAATTGAGGAA
127 CCTTCAATCTTTTTGGCGTTGAATTATATATA-TTTTATGAGTATTTTAGCC-AAAATTGAGGAA
* * * * * * *
122586 ATATATATCGGGTCAATTTTTGCAAAATTTTAGCCGAATTCGTGTACTAACCATCATGGTTTTTG
190 AAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGTTTTTTG
* * * * *
122651 GCTAAAAATGCGTTACAGGGCCACGACTCTA-TTTTGCATGATTTTTGGCGCCAAGACTCCTTGA
255 GCTAAAAACGCGTTCCGGGGCCCCGGCTC-AGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGA
122715 AATATCCT-TAT
319 AATAT-CTATAT
* * * *
122726 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTATGTGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
122791 TTCTATTTAATTAGAAATTAATTTAGAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
66 TTCGATTTAATTAGAAATTAA-TT-GGAAAAAATAGGAAAAACGATATTAAAA-CGTGAAAA
122853 ATCCACCAAT
Statistics
Matches: 3438, Mismatches: 712, Indels: 452
0.75 0.15 0.10
Matches are distributed among these distances:
304 60 0.02
305 8 0.00
306 58 0.02
307 110 0.03
308 86 0.03
309 98 0.03
310 8 0.00
311 16 0.00
312 30 0.01
313 18 0.01
314 18 0.01
315 40 0.01
316 47 0.01
317 12 0.00
318 2 0.00
320 3 0.00
321 47 0.01
322 14 0.00
323 104 0.03
324 15 0.00
325 42 0.01
326 103 0.03
327 56 0.02
328 296 0.09
329 264 0.08
330 457 0.13
331 284 0.08
332 155 0.05
333 282 0.08
334 247 0.07
335 175 0.05
336 136 0.04
337 11 0.00
338 9 0.00
339 1 0.00
340 1 0.00
341 2 0.00
342 18 0.01
343 35 0.01
344 9 0.00
345 1 0.00
346 4 0.00
348 55 0.02
349 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (329 bp):
TCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
TTCGATTTAATTAGAAATTAATTGGAAAAAATAGGAAAAACGATATTAAAACGTGAAAAGCCCTT
CAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCAAAATTGAGGAAAAATCT
TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGTTTTTTGGCTAAA
AACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCT
ATAT
Found at i:121895 original size:333 final size:329
Alignment explanation
Indices: 120153--122852 Score: 1877
Period size: 333 Copynumber: 8.1 Consensus size: 329
120143 ACGAGCATCT
* * * * * *
120153 AAATTAATTCAGAATAAATATGAAAAACGATATGAAAAGCGTGAAAAGTCCTCCAATCTTTTTTG
1 AAATTAATTTAAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGG
* * * ** *
120218 CGTTAAATTATATATA-TTTCATGAGTATTTTAG-TAAAAAATTGAGGAAAAATTTTTTTGGTCA
66 CGTTGAATTATATATATTTTTATGAGTATTTTGGCT-AAAAATTGAGGAAAAA-AATTTGGGTCA
* * **
120281 TTTTTTGCAAAATTTTAGGCGAAATCGTAAACCAACCATCACAG-TTTTTTTT-GCTAAAAACGC
129 ATTTTTGCAAAATTTTAGCCGAAATCGT----GTACCATCA-AGATTTTTTTTGGCTAAAAACGC
* * * * * *
120344 TTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTAGCGTCGAGACTCCTTGAAATATATATATT
189 GTTT--GGGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAAATATCTATATT
* * ** * * *
120409 CTTCTAATCAAATCTCAATCACATTGCATTTAAAGATTTGCTTTTACGAGCATCTGAATCTTGTT
252 CATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCTTGTT
*
120474 TCAATTTAATTAG
317 TCGATTTAATTAG
** * * * * **
120487 ATTTTAA-TTCAAAAACATATGAAAAACGATATTAACAGTGTGAAAAGTCC-TCTAATAGTTTTG
1 AAATTAATTTAAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTTC-AATCTTTTTG
* * * * * * *
120550 GAGTCGAATTATGTATA-TTTTATGAGTATTTTAGAC-AAAAATTGAGGAAAACTATATCT-GAT
65 GCGTTGAATTATATATATTTTTATGAGTATTTT-GGCTAAAAATTGAGGAAAA--AAATTTGGGT
* * ** *
120612 CAATTTTTGCAAAATATTAGCCGAAATTGTGTATGTTAGTCGAA-ATCACGGTTTTTT-GCTAAA
127 CAATTTTTGCAAAATTTTAGCCGAAATCGTGTA--CCA-TC-AAGAT----TTTTTTTGGCTAAA
** * ** * * * * * *
120675 AACGCGTTCCAGGCCTCGGTTCAGTGTTGAATGATTTTTTGGGCCGAGACTCCTTGAAACATCTA
184 AACGCGTT-TGGGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAAATATCTA
* * * *** *
120740 TATTAATCTAACCAAATCTCATCCACAATGGATTTAAGGATTTG-TAAAACAAGCATCTT-AATC
248 TATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCAT-TTGAATC
* * *
120803 ATGTTTTGATTTAATTAA
312 TTGTTTCGATTTAATTAG
* * * * * * *
120821 AAATTAATTTGGAAAATAATAGGAAAAATGATATTAGAAGCATGAAAAGCCCTTCAATCTTTTTG
1 AAATTAATTT-AAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTG
* * * * * * * *
120886 GCGTTGAATTATATA-ATTTTTATGAGTATTGTGTCTTAAAATGGAGGAAATAACTTTCGAGTTA
65 GCGTTGAATTATATATATTTTTATGAGTATTTTGGCTAAAAATTGAGGAAAAAAATTT-GGGTCA
* * ** ** *** * *
120950 ATTTTTGCAAAATTCTAGCCGAAATCGTTTAGTAATCATCACGGTTTTTGACTAAAAACGCATTC
129 ATTTTTGCAAAATTTTAGCCGAAATCGTGTA-CCATCAAGATTTTTTTTGGCTAAAAACGCGTT-
* * * * * * * *
121015 CGGGGCCCCGTCTAAGTTTTGTATGATTTTTTGTGCCAAGAC-ACTTCG-AATATCCATATTCAT
192 -TGGGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTT-GAAATATCTATATTCAT
* * * * *
121078 CTAATCAAATCTCAGCTACATTGGATTTGAGAAATT--TTTTACGAGCATCTT-AATCTTGTTTC
255 CTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCAT-TTGAATCTTGTTTC
*
121140 AATTTAATTAG
319 GATTTAATTAG
* * * * * * *
121151 AAATTAA-TT-CAGAAAATATGATAAAACGATTTTAAAAGCGTGAAAAGTTCTCCAATCCTTTCG
1 AAATTAATTTAAAAAAAATATGA-AAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTG
* * * * ** *
121214 GCGTTAAATTATATAT-GTTTTATGAGTATTTAT-GCCAGAAATTGACGGAAAAATTTTTCGGAT
65 GCGTTGAATTATATATATTTTTATGAGTATTT-TGGCTAAAAATTGA-GGAAAAAAATTT-GGGT
* * * ** *** *
121277 CATTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACATCACGGTTTTTGGCTAAAAACGCATT
127 CAATTTTTGCAAAATTTTAGCCGAAATCGTGTACCATCAAGATTTTTTTTGGCTAAAAACGCGTT
* * * * *
121342 TCGGGACCCCGCCTTAGTTTTTCATGATTTTTGGCGCCGAGACTCCTTGAAATATCTATATTCAT
192 T-GGG-CCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAAATATCTATATTCAT
* * * * * * *
121407 CTAATCAAATCTTAGCCATATTGAATTTAAGGATTTGTTTTTATGAGCATCTGAATCTTGTTTCG
255 CTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCTTGTTTCG
121472 ATTTAATATA-
320 ATTTAAT-TAG
* * * * * * *
121482 AAATTAA-TTCAGAAAAATATGAAAAATGATATTAAAAGTGTGAAGAGTCCTCCAATCTTTTAGG
1 AAATTAATTTAAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGG
* * ** *
121546 CTTTTAATTATATATA-TTCAATGAGTATTGTGGCTAAAAATTGAGGAAAAAAAAGTTTGGGTCA
66 CGTTGAATTATATATATTTTTATGAGTATTTTGGCTAAAAATTGAGG-AAAAAAA-TTTGGGTCA
* **
121610 ATTTTTGCAGAATTTTAGCCGAAATCGTGTACCATCAAGATTTCTTTTTGGGGCGGAAAACGCGT
129 ATTTTTGCAAAATTTTAGCCGAAATCGTGTACCATCAAGATTT-TTTTT--GGCTAAAAACGCGT
* * * * * *
121675 TTGAGGCCCCGAATCAGTTTTCCATGATTTTTAGTGGCAACATTCCTTGAAATATCTATATTCAT
191 TTG-GGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAAATATCTATATTCAT
* * *
121740 CTAACCAAATCTTAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCATGTTTCA
255 CTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCTTGTTTCG
121805 ATTTAATTAG
320 ATTTAATTAG
* * *
121815 AAATTAATTTGAAAAAAAATAGGAAAAACGATATTAGAAGCGTGAGAAA-CCCTTCAATCTTTTT
1 AAATTAATTT-AAAAAAAATATGAAAAACGATATTAAAAGCGTGA-AAAGTCCTTCAATCTTTTT
* * * * * **
121879 TGCGTTGAATTATATATA-TTTTATGAGTATTGTGGTTAAAGATTGA-GAAAAATATTCCAGGTC
64 GGCGTTGAATTATATATATTTTTATGAGTATTTTGGCTAAAAATTGAGGAAAAAAATT-TGGGTC
* * * * * *
121942 AATTTTTTGTAAAATTTTAGCCGAAATCATGCACCATCATG-GTTTTTTTGGCTAAAAACGTGTT
128 AA-TTTTTGCAAAATTTTAGCCGAAATCGTGTACCATCAAGATTTTTTTTGGCTAAAAACGCGTT
* * * * * *
122006 CCGGGGCCCTAGGTCAGTTTTACATGATTTTTAGCAG-CAAGACTCCTTAATATATATATAATAT
192 -TGGGCCCCGA-CTCAGTTTTGCATGATTTTTAGC-GCCAAGACTCC----------T-TGA-A-
* * * * *
122070 ATATATATATATATATATATTACCAAATCTCAGCCACATTGTATTTAAGGATTT-ATTTGTACGA
241 ATATCTATAT-T-CATCTA--ACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTT-TACGA
* * * *
122134 G-TTTCTAAATCCTATTTCGATTTAATCT--
301 GCATT-TGAATCTTGTTTCGATTTAAT-TAG
* * * * * * * *
122162 -AATT--TTGAAATAAAATAGGCAAAACGATATTAGAAGCGTGAAAAAGGCTTTC--TGTTTTT-
1 AAATTAATTTAAAAAAAATATGAAAAACGATATTAAAAGCGTG-AAAAGTCCTTCAATCTTTTTG
** ** * * * * **
122221 ---TTG--GCA-A-A-A---CGA-GATTATTTTCGCTAGAAATCGAGGAAAAATCTTTCGGG-CA
65 GCGTTGAATTATATATATTTTTATGAGTATTTTGGCTAAAAATTGAGGAAAAAAATTT-GGGTCA
* * *
122273 ATTTTTGCAAAA-TTTAGCCGAAATCGTGTA-CGTCACG-GTTTTTTT-GCTAAAAACGCGTTCT
129 ATTTTTGCAAAATTTTAGCCGAAATCGTGTACCATCAAGATTTTTTTTGGCTAAAAACGCGTT-T
* * * *
122334 GGGGCCCGACTCAGTTTTGCATGATTTTTGGTGTCAAGACTCCTTGAAATATCTATATTCATCTA
193 GGGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAAATATCTATATTCATCTA
* * * *
122399 ACCAAATCTTAGCCACATTAGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATT
258 ACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCTTGTTTCGATT
122464 TAATTAG
323 TAATTAG
** * * * *
122471 AAATTAATTCGAAAAAAATAGGAAAAACCAATATTAGAAGCGTTG-AAAGCCCTTCAATCTTTTT
1 AAATTAATTTAAAAAAAATATGAAAAA-CGATATTAAAAGCG-TGAAAAGTCCTTCAATCTTTTT
*** ** * * * * *
122535 GATATCAAATTATATATATTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATATATATCGGGTC
64 GGCGTTGAATTATATATATTTTTATGAGTATTTTGGCTAAAAATTGAGGAAAAAAAT-TTGGGTC
* * * ** ** *
122600 AATTTTTGCAAAATTTTAGCCGAATTCGTGTACTAACCATCATGGTTTTTGGCTAAAAATGCGTT
128 AATTTTTGCAAAATTTTAGCCGAAATCGTGTAC-CATCAAGATTTTTTTTGGCTAAAAACGCGTT
* * *
122665 ACAGGGCCACGACTCTA-TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCCT-TATTC
192 --TGGGCCCCGACTC-AGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAAATAT-CTATATTC
* * * *
122728 ATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTATGTGCATCTGAATCTTGTTT
253 ATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCTTGTTT
*
122793 CTATTTAATTAG
318 CGATTTAATTAG
122805 AAATTAATTTAGAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
1 AAATTAATTTA-AAAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
122853 ATCCACCAAT
Statistics
Matches: 1871, Mismatches: 377, Indels: 236
0.75 0.15 0.10
Matches are distributed among these distances:
307 1 0.00
308 53 0.03
309 5 0.00
310 8 0.00
311 1 0.00
312 33 0.02
313 14 0.01
314 10 0.01
315 1 0.00
318 1 0.00
320 1 0.00
321 1 0.00
322 1 0.00
323 1 0.00
324 1 0.00
325 28 0.01
326 23 0.01
327 52 0.03
328 156 0.08
329 118 0.06
330 82 0.04
331 250 0.13
332 72 0.04
333 265 0.14
334 241 0.13
335 190 0.10
336 128 0.07
337 2 0.00
338 3 0.00
341 1 0.00
342 8 0.00
343 35 0.02
344 16 0.01
345 1 0.00
346 8 0.00
347 5 0.00
348 54 0.03
349 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (329 bp):
AAATTAATTTAAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGG
CGTTGAATTATATATATTTTTATGAGTATTTTGGCTAAAAATTGAGGAAAAAAATTTGGGTCAAT
TTTTGCAAAATTTTAGCCGAAATCGTGTACCATCAAGATTTTTTTTGGCTAAAAACGCGTTTGGG
CCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACC
AAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATTTGAATCTTGTTTCGATTTAA
TTAG
Found at i:122062 original size:2 final size:2
Alignment explanation
Indices: 122055--122089 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
122045 AGACTCCTTA
122055 AT AT AT 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 AT AT AT
122090 TACCAAATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123402 original size:27 final size:27
Alignment explanation
Indices: 123372--123469 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 27
123362 TTGCCATATC
123372 AAAATAT-ATTTTAATTATTTCATTATT
1 AAAATATAATTTT-ATTATTTCATTATT
*
123399 AAAATATAATTTTGTGTACCTTT--TTATT
1 AAAATATAATTTTAT-TA--TTTCATTATT
* *
123427 -AAATAT-A-TTTATAATGTCATTATT
1 AAAATATAATTTTATTATTTCATTATT
123451 AAAATATAATTTTAATTAT
1 AAAATATAATTTT-ATTAT
123470 AAAATTTCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
22 2 0.04
24 6 0.11
25 10 0.18
26 2 0.04
27 17 0.30
28 16 0.29
30 3 0.05
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (27 bp):
AAAATATAATTTTATTATTTCATTATT
Found at i:123466 original size:25 final size:25
Alignment explanation
Indices: 123391--123466 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
123381 TTTAATTATT
*
123391 TCATTATTAAAATATAATTTT-GTG
1 TCATTATTAAAATATAATTTTAATG
* *
123415 TACCTTTTTATTAAATAT-ATTTATAATG
1 T-CATTATTA--AAATATAATTT-TAATG
123443 TCATTATTAAAATATAATTTTAAT
1 TCATTATTAAAATATAATTTTAAT
123467 TATAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
24 1 0.02
25 16 0.39
26 8 0.20
27 13 0.32
28 3 0.07
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.51
Consensus pattern (25 bp):
TCATTATTAAAATATAATTTTAATG
Found at i:124616 original size:2 final size:2
Alignment explanation
Indices: 124605--124641 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
124595 TTCTACTTCT
124605 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA CTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
124642 TATTTTTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:125374 original size:17 final size:17
Alignment explanation
Indices: 125354--125392 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
125344 TTAGTAATAT
125354 TTATTGAATAATAATTA
1 TTATTGAATAATAATTA
** *
125371 TTATTTTATAATTATTA
1 TTATTGAATAATAATTA
125388 TTATT
1 TTATT
125393 TCAGTAAATA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTATTGAATAATAATTA
Found at i:125393 original size:17 final size:17
Alignment explanation
Indices: 125361--125393 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
125351 TATTTATTGA
125361 ATAATAATTATTATTTT
1 ATAATAATTATTATTTT
*
125378 ATAATTATTATTATTT
1 ATAATAATTATTATTT
125394 CAGTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATAATTATTATTTT
Found at i:137258 original size:2 final size:2
Alignment explanation
Indices: 137251--137293 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
137241 ATACTAGCTA
137251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
137294 GTTTAAGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:139278 original size:30 final size:30
Alignment explanation
Indices: 139244--139307 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
139234 TCATTCTGAC
* *
139244 AAAAGAAATTTACTTATGATCCTCTTTGAA
1 AAAAGAAATTTACTTATAAACCTCTTTGAA
* *
139274 AAAAGAAATTTGCTTATAAACCTTTTTGAA
1 AAAAGAAATTTACTTATAAACCTCTTTGAA
139304 AAAA
1 AAAA
139308 AATTGATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (30 bp):
AAAAGAAATTTACTTATAAACCTCTTTGAA
Found at i:153421 original size:42 final size:43
Alignment explanation
Indices: 153370--153451 Score: 123
Period size: 45 Copynumber: 1.9 Consensus size: 43
153360 AGTGTGTTAC
*
153370 CTAAATTCTACT-T-CATCTCTAGGTAATTCATCAAAATAAAG
1 CTAAATTCTACTCTCCATCTCTAGATAATTCATCAAAATAAAG
153411 CTAATATTCTACTCCTCCATCTCTAGATAATTCATCAAAAT
1 CTAA-ATTCTACT-CTCCATCTCTAGATAATTCATCAAAAT
153452 TAAATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 4 0.11
42 8 0.22
44 1 0.03
45 23 0.64
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (43 bp):
CTAAATTCTACTCTCCATCTCTAGATAATTCATCAAAATAAAG
Found at i:154795 original size:131 final size:124
Alignment explanation
Indices: 154549--154804 Score: 361
Period size: 123 Copynumber: 2.0 Consensus size: 124
154539 CATTGTTTAA
*
154549 ACTTTTATAGTTTTACTCAACTAAAAAATCTAATTTTATTTAATTAAATCTAATATCTTTATAAT
1 ACTTTTACAGTTTTACTCAACTAAAAAATCTAATTTTATTTAATTAAATCTAATATCTTTATAAT
**
154614 TTTTACTGTTTTACTATTTTAATTAAAAAACTTACATATATTAGAATTTTTT-AAATAT
66 TTTTACCATTTTACTATTTTAATTAAAAAACTTACATATATTAGAATTTTTTAAAATAT
** *
154672 ACTTTTACAGTTTTACTCAACTAAAAGCTCTATTTTTATTTAATTAAATCTAATATCCTTATACC
1 ACTTTTACAGTTTTACTCAACTAAAAAATCTAATTTTATTTAATTAAATCTAATAT-CTT-TA--
* *
154737 TATTTTATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGTATTTTTTAAAAT
62 TA----ATTTTTACCATTTTACTATTTTAATTAAAAAACTTACATATATTAGAATTTTTTAAAAT
154802 AT
123 AT
154804 A
1 A
154805 TTTCTTAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
123 52 0.45
124 3 0.03
125 2 0.02
127 2 0.02
131 50 0.43
132 7 0.06
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (124 bp):
ACTTTTACAGTTTTACTCAACTAAAAAATCTAATTTTATTTAATTAAATCTAATATCTTTATAAT
TTTTACCATTTTACTATTTTAATTAAAAAACTTACATATATTAGAATTTTTTAAAATAT
Found at i:159914 original size:25 final size:26
Alignment explanation
Indices: 159880--159946 Score: 100
Period size: 25 Copynumber: 2.6 Consensus size: 26
159870 CACTAACTAA
159880 GAAAACTATGGATTTTTTTTGGTT-C
1 GAAAACTATGGATTTTTTTTGGTTAC
* *
159905 GAAAACTATGGATTTTTTTTTGTTAT
1 GAAAACTATGGATTTTTTTTGGTTAC
*
159931 AAAAACTATGGATTTT
1 GAAAACTATGGATTTT
159947 GCTAACGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 23 0.61
26 15 0.39
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (26 bp):
GAAAACTATGGATTTTTTTTGGTTAC
Found at i:168201 original size:19 final size:18
Alignment explanation
Indices: 168177--168226 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
168167 GTCCCTATTT
*
168177 AGTGTAATGATCACTTTTA
1 AGTGTAATGATCA-TTATA
168196 AGTGTAATGGTATCATTATA
1 AGTGTAAT-G-ATCATTATA
168216 AGGTGTAATGA
1 A-GTGTAATGA
168227 ATAATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 11 0.41
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (18 bp):
AGTGTAATGATCATTATA
Found at i:168685 original size:148 final size:149
Alignment explanation
Indices: 168497--168788 Score: 514
Period size: 148 Copynumber: 2.0 Consensus size: 149
168487 AATCAAGTAT
* *
168497 AAACTAACCATTGTTTTTTTTTTCTTTTTCATGAGTTTCAAGCGACTTTTTAAGGTTGATATATG
1 AAACTAACCATTGTTTTTTTTTCCTTTCTCATGAGTTTCAAGCGACTTTTTAAGGTTGATATATG
* *
168562 TGTTTCTTTTTATCCAAATAATTTCAATTTCAAGCATTAAAAAATAAAAAAATTTCAAATTGAAA
66 TCTTTCTTTTTATCCAAACAATTTCAATTTCAAGCATTAAAAAATAAAAAAATTTCAAATTGAAA
168627 TCATTAAATTCTAAAAAAA
131 TCATTAAATTCTAAAAAAA
*
168646 AAACTAACCATTG-TTTTTTTTCCTTTCTCATGAGTTTCAAGCGACTTTTTAAGGTTGATATGTG
1 AAACTAACCATTGTTTTTTTTTCCTTTCTCATGAGTTTCAAGCGACTTTTTAAGGTTGATATATG
* *
168710 TCTTTCTTTTTATCCAAACAATTTCAATTTCAAGCATTAAAAAATAAAAAATTTTCAAGTTGAAA
66 TCTTTCTTTTTATCCAAACAATTTCAATTTCAAGCATTAAAAAATAAAAAAATTTCAAATTGAAA
168775 TCATTAAATTCTAA
131 TCATTAAATTCTAA
168789 TCATGAAAAT
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
148 123 0.90
149 13 0.10
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (149 bp):
AAACTAACCATTGTTTTTTTTTCCTTTCTCATGAGTTTCAAGCGACTTTTTAAGGTTGATATATG
TCTTTCTTTTTATCCAAACAATTTCAATTTCAAGCATTAAAAAATAAAAAAATTTCAAATTGAAA
TCATTAAATTCTAAAAAAA
Found at i:169997 original size:21 final size:19
Alignment explanation
Indices: 169971--170029 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 19
169961 CGCTGCTCTA
169971 ATAATCTCATCTGTACAGT
1 ATAATCTCATCTGTACAGT
* *
169990 ACATAATCTAATATGTACAGT
1 --ATAATCTCATCTGTACAGT
* *
170011 GTAATTTCATCTGTACAGT
1 ATAATCTCATCTGTACAGT
170030 TGCCAAACAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 15 0.47
21 17 0.53
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (19 bp):
ATAATCTCATCTGTACAGT
Found at i:170717 original size:29 final size:30
Alignment explanation
Indices: 170662--170719 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
170652 AAATTTGAGT
170662 ATCTAAATATCTTTTTTTTTTAAGGAAAAGC
1 ATCTAAATATC-TTTTTTTTTAAGGAAAAGC
*
170693 ATCTAAATATC-TTTTTTTTAGGGAAAA
1 ATCTAAATATCTTTTTTTTTAAGGAAAA
170720 AAAAGTATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 15 0.58
31 11 0.42
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (30 bp):
ATCTAAATATCTTTTTTTTTAAGGAAAAGC
Found at i:170724 original size:33 final size:31
Alignment explanation
Indices: 170662--170737 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
170652 AAATTTGAGT
** **
170662 ATCTAAATATCTTTTTTTTTTAAGGAAAAGC
1 ATCTAAATATCTTTTTTTTGGAAAAAAAAGC
*
170693 ATCTAAATATCTTTTTTTTAGGGAAAAAAAAGT
1 ATCTAAATATCTTTTTTTT--GGAAAAAAAAGC
170726 ATCTAAATATCT
1 ATCTAAATATCT
170738 AATTATAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 19 0.50
33 19 0.50
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (31 bp):
ATCTAAATATCTTTTTTTTGGAAAAAAAAGC
Found at i:171745 original size:49 final size:49
Alignment explanation
Indices: 171673--171772 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
171663 TTTTACATCA
*
171673 ACACGACTCAATTTTTCTAATTAATTAGGATCTAATATAATTACTGGAT
1 ACACGACTCAATTTCTCTAATTAATTAGGATCTAATATAATTACTGGAT
*
171722 ACACGACTCAATTTCTCTAATTAATTAGGATCTAATATGATTACTGGAT
1 ACACGACTCAATTTCTCTAATTAATTAGGATCTAATATAATTACTGGAT
171771 AC
1 AC
171773 TAATTGTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (49 bp):
ACACGACTCAATTTCTCTAATTAATTAGGATCTAATATAATTACTGGAT
Found at i:190786 original size:40 final size:40
Alignment explanation
Indices: 190742--190822 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
190732 CAAATTGGAC
*
190742 ATTTTACCCTTT-AAAGTTCTAATCCGGAACTTTCACCCCT
1 ATTTTACCCTTTGAAA-TTCTAATCCGAAACTTTCACCCCT
*
190782 ATTTTACCCTTTGAAATTCTAATCTGAAACTTTCACCCCT
1 ATTTTACCCTTTGAAATTCTAATCCGAAACTTTCACCCCT
190822 A
1 A
190823 CACTATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 35 0.92
41 3 0.08
ACGTcount: A:0.27, C:0.28, G:0.06, T:0.38
Consensus pattern (40 bp):
ATTTTACCCTTTGAAATTCTAATCCGAAACTTTCACCCCT
Found at i:194575 original size:12 final size:12
Alignment explanation
Indices: 194558--194586 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
194548 ATTTAGGTAC
194558 TTCACACTTATA
1 TTCACACTTATA
194570 TTCACACTTATA
1 TTCACACTTATA
194582 -TCACA
1 TTCACA
194587 TGTTTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (12 bp):
TTCACACTTATA
Found at i:195537 original size:5 final size:5
Alignment explanation
Indices: 195495--195522 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
195485 AACACTCTCG
195495 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
195523 GCCTTGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:205311 original size:18 final size:18
Alignment explanation
Indices: 205288--205322 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
205278 AGGTCCCGCA
205288 GCAGCCGTCGCAAGGAAC
1 GCAGCCGTCGCAAGGAAC
205306 GCAGCCGTCGCAAGGAA
1 GCAGCCGTCGCAAGGAA
205323 AGCAAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.31, G:0.34, T:0.06
Consensus pattern (18 bp):
GCAGCCGTCGCAAGGAAC
Found at i:221208 original size:19 final size:19
Alignment explanation
Indices: 221184--221222 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
221174 TTGTAATCCT
221184 TCCCTATGATATGAATAAA
1 TCCCTATGATATGAATAAA
221203 TCCCTATGATATGAATAAA
1 TCCCTATGATATGAATAAA
221222 T
1 T
221223 GATTGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
TCCCTATGATATGAATAAA
Found at i:228903 original size:176 final size:177
Alignment explanation
Indices: 228576--229242 Score: 1031
Period size: 176 Copynumber: 3.7 Consensus size: 177
228566 ATGCAGCATT
*
228576 TCTAGAATTCCACGTGGC--TCTCTTATTGG-CCTGG-AAGATTTTAAATAACAATAATACCCTT
1 TCTAGAATTCCACGTGGCTTTCTCTTATTGGTCC-GGCAA-AATTTAAATAACAATAATACCCTT
**
228637 AAGATTTTGTTTTAATTATTAAAAAACCACGCTTGCAATGACGATTTTAACCCCATTAAGCAGTC
64 AAGATTTTGTTTTAATTACGAAAAAACCACGCTTGCAATGACGATTTTAACCCCATTAAGCAGTC
228702 AGTTAACCCCGG-TTTTTTGTAATCTCATCATCACTAAGCTGTGGAATC
129 AGTTAACCCCGGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATC
228750 TCTAGAATTCCACGTGGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAA
1 TCTAGAATTCCACGTGGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAA
* *
228815 -AATTTGTTTTAATTACGAAAAAACCACGCTTGCAATGATGATTTTAACCCCATTAAGCAGTCAG
66 GATTTTGTTTTAATTACGAAAAAACCACGCTTGCAATGACGATTTTAACCCCATTAAGCAGTCAG
228879 TTAACCCCGGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATC
131 TTAACCCCGGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATC
*
228926 TCTAGAATTTCACGTGGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAA
1 TCTAGAATTCCACGTGGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAA
* * *
228991 GATTTTGTTTTAATTACGGAAAACCCACGCTTGCAATGCCGATTTTAACCCCATTAAACAGTTCA
66 GATTTTGTTTTAATTACGAAAAAACCACGCTTGCAATGACGATTTTAACCCCATT--A-AG--C-
*
229056 ATTGCAAATCAGTTAACCCCAGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATTC
125 A--G----TCAGTTAACCCCGGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAA-TC
*
229116 TCTAGAATTCCACGTAGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAA
1 TCTAGAATTCCACGTGGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAA
* * *
229181 GATTTTGTTTTAATTACGAAAAAACCATGCTTGCAATGACCATTTTAACCCCATTAAACAGT
66 GATTTTGTTTTAATTACGAAAAAACCACGCTTGCAATGACGATTTTAACCCCATTAAGCAGT
229243 TTAACTGCAA
Statistics
Matches: 454, Mismatches: 20, Indels: 34
0.89 0.04 0.07
Matches are distributed among these distances:
174 18 0.04
175 70 0.15
176 138 0.30
177 53 0.12
178 1 0.00
179 1 0.00
180 2 0.00
182 2 0.00
183 1 0.00
184 1 0.00
185 2 0.00
187 1 0.00
188 1 0.00
189 48 0.11
190 115 0.25
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (177 bp):
TCTAGAATTCCACGTGGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAA
GATTTTGTTTTAATTACGAAAAAACCACGCTTGCAATGACGATTTTAACCCCATTAAGCAGTCAG
TTAACCCCGGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATC
Found at i:229290 original size:189 final size:189
Alignment explanation
Indices: 228875--229290 Score: 712
Period size: 190 Copynumber: 2.2 Consensus size: 189
228865 CATTAAGCAG
* *
228875 TCAGTTAACCCCGGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATCTCTAGAATTTCACG
1 TCAGTTAACCCCGATTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATCTCTAGAATTCCACG
*
228940 TGGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAAGATTTTGTTTTAAT
66 TAGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAAGATTTTGTTTTAAT
* * *
229005 TACGGAAAACCCACGCTTGCAATGCCGATTTTAACCCCATTAAACAGTTCAATTGCAAA
131 TACGAAAAAACCACGCTTGCAATGCCGATTTTAACCCCATTAAACAGTTCAACTGCAAA
229064 TCAGTTAACCCC-AGTTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATTCTCTAGAATTCCA
1 TCAGTTAACCCCGA-TTTTTTTGTAATCTCATCATCACTAAGCTGTGGAA-TCTCTAGAATTCCA
229128 CGTAGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAAGATTTTGTTTTA
64 CGTAGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAAGATTTTGTTTTA
* *
229193 ATTACGAAAAAACCATGCTTGCAATGACC-ATTTTAACCCCATTAAACAGTTTAACTGCAAA
129 ATTACGAAAAAACCACGCTTGCAATG-CCGATTTTAACCCCATTAAACAGTTCAACTGCAAA
229254 TCAGTTAACCCCGATTTTTTT-TAATCTCATCATCACT
1 TCAGTTAACCCCGATTTTTTTGTAATCTCATCATCACT
229291 CTTAATAAGT
Statistics
Matches: 215, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
189 63 0.29
190 149 0.69
191 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (189 bp):
TCAGTTAACCCCGATTTTTTTGTAATCTCATCATCACTAAGCTGTGGAATCTCTAGAATTCCACG
TAGCTTTCTCTTATTGGTCCGGCAAAATTTAAATAACAATAATACCCTTAAGATTTTGTTTTAAT
TACGAAAAAACCACGCTTGCAATGCCGATTTTAACCCCATTAAACAGTTCAACTGCAAA
Found at i:229314 original size:2 final size:2
Alignment explanation
Indices: 229307--229334 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
229297 AAGTGGTTTA
229307 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
229335 GTACTAGTCC
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:231387 original size:17 final size:17
Alignment explanation
Indices: 231365--231400 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
231355 ATACAAAGAG
231365 CTATCTAGTATAACAAA
1 CTATCTAGTATAACAAA
* *
231382 CTATCTGGTGTAACAAA
1 CTATCTAGTATAACAAA
231399 CT
1 CT
231401 TTACAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (17 bp):
CTATCTAGTATAACAAA
Found at i:234961 original size:18 final size:17
Alignment explanation
Indices: 234923--234972 Score: 68
Period size: 15 Copynumber: 3.0 Consensus size: 17
234913 GAGGGCTTAT
234923 GTCCTCGTCTTCAAT--
1 GTCCTCGTCTTCAATAC
234938 GTCCTCGTCTTCAATACC
1 GTCCTCGTCTTCAATA-C
*
234956 GTCCTCATCTTCAATAC
1 GTCCTCGTCTTCAATAC
234973 ATGATACAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 15 0.48
17 1 0.03
18 15 0.48
ACGTcount: A:0.18, C:0.36, G:0.10, T:0.36
Consensus pattern (17 bp):
GTCCTCGTCTTCAATAC
Found at i:236146 original size:108 final size:107
Alignment explanation
Indices: 236007--236214 Score: 380
Period size: 108 Copynumber: 1.9 Consensus size: 107
235997 ATTAATTAAT
236007 ATTATTATATCGGAATTAATTAATTAATATTAACTAGCAATCCTAACACTTAAGGGAAATCCTAA
1 ATTATTATATCGGAATTAATTAATTAATATTAACTAGCAATCCTAACACTTAAGGGAAATCCTAA
236072 CCCTTCACTTACTAGGATTTCAAGACTATAAATATTAAGTAG
66 CCCTTCACTTACTAGGATTTCAAGACTATAAATATTAAGTAG
*
236114 ATTATTATTATCGGAATTAATTAATTAATATTAACTAGCAATCCTAACCCTTAAGGGAAATCCTA
1 ATTATTA-TATCGGAATTAATTAATTAATATTAACTAGCAATCCTAACACTTAAGGGAAATCCTA
* *
236179 ACCCTTCACTTACTAGGATTTGAAGATTATAAATAT
65 ACCCTTCACTTACTAGGATTTCAAGACTATAAATAT
236215 CTACATCAGC
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 7 0.07
108 90 0.93
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (107 bp):
ATTATTATATCGGAATTAATTAATTAATATTAACTAGCAATCCTAACACTTAAGGGAAATCCTAA
CCCTTCACTTACTAGGATTTCAAGACTATAAATATTAAGTAG
Found at i:241711 original size:30 final size:31
Alignment explanation
Indices: 241677--241760 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 31
241667 TTAACTTGTC
241677 TATGTATGAATTGGTCTATAATGACTACC-T
1 TATGTATGAATTGGTCTATAATGACTACCTT
* * *
241707 TATGTATGAATTCGTTTATAGTGACTACCTTTGT
1 TATGTATGAATTGGTCTATAATGACTACC--T-T
241741 TATGTATGAATTGGTCTATA
1 TATGTATGAATTGGTCTATA
241761 GCGACTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
30 26 0.58
34 19 0.42
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (31 bp):
TATGTATGAATTGGTCTATAATGACTACCTT
Found at i:241749 original size:34 final size:34
Alignment explanation
Indices: 241672--241785 Score: 137
Period size: 34 Copynumber: 3.4 Consensus size: 34
241662 GGTACTTAAC
*
241672 TTGTCTATGTATGAATTGGTCTATAATGACTACC-
1 TTGT-TATGTATGAATTGGTCTATAGTGACTACCT
* *
241706 ---TTATGTATGAATTCGTTTATAGTGACTACCT
1 TTGTTATGTATGAATTGGTCTATAGTGACTACCT
* *
241737 TTGTTATGTATGAATTGGTCTATAGCGACTGCCT
1 TTGTTATGTATGAATTGGTCTATAGTGACTACCT
*
241771 TAGTTATGTATGAAT
1 TTGTTATGTATGAAT
241786 ATTTTATGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
30 26 0.38
31 1 0.01
34 41 0.60
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (34 bp):
TTGTTATGTATGAATTGGTCTATAGTGACTACCT
Found at i:244510 original size:21 final size:21
Alignment explanation
Indices: 244486--244526 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
244476 TTCCCTTCTT
*
244486 TCCCTTGTCCTTTCCATGCGA
1 TCCCTTCTCCTTTCCATGCGA
**
244507 TCCCTTCTTTTTTCCATGCG
1 TCCCTTCTCCTTTCCATGCG
244527 CCATTTTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.37, G:0.12, T:0.44
Consensus pattern (21 bp):
TCCCTTCTCCTTTCCATGCGA
Done.