Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010700.1 Corchorus capsularis cultivar CVL-1 contig10721, 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: 169214
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:42 original size:32 final size:32
Alignment explanation
Indices: 1--70 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
*
1 CGGCCTGCCGTTGCGAAGCCGCCCCACCGGGG
1 CGGCCTGCCGTGGCGAAGCCGCCCCACCGGGG
** **
33 CGGCCTGCCGTGGTTAAGCCGCCCCAGTGGGG
1 CGGCCTGCCGTGGCGAAGCCGCCCCACCGGGG
65 CGGCCT
1 CGGCCT
71 ATTCATAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.09, C:0.40, G:0.39, T:0.13
Consensus pattern (32 bp):
CGGCCTGCCGTGGCGAAGCCGCCCCACCGGGG
Found at i:95 original size:33 final size:34
Alignment explanation
Indices: 48--155 Score: 123
Period size: 34 Copynumber: 3.3 Consensus size: 34
38 TGCCGTGGTT
* **
48 AAGCCGCCCCAGTGGGGCGGCCTATTC-ATAGTG
1 AAGCCGCCCAAGTGGGGCGGCCTACCCAATAGTG
* * *
81 AAGCCGCCCTAGTGGGGCGGCCTGCCCAATGGTG
1 AAGCCGCCCAAGTGGGGCGGCCTACCCAATAGTG
* *
115 AAGCCGCCCAAGTGGGGCGGCCTGCCC-ATGGT-
1 AAGCCGCCCAAGTGGGGCGGCCTACCCAATAGTG
147 AAGCCGCCC
1 AAGCCGCCC
156 TCTTGGGACG
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
32 9 0.13
33 28 0.41
34 31 0.46
ACGTcount: A:0.17, C:0.34, G:0.35, T:0.14
Consensus pattern (34 bp):
AAGCCGCCCAAGTGGGGCGGCCTACCCAATAGTG
Found at i:121 original size:34 final size:33
Alignment explanation
Indices: 15--155 Score: 169
Period size: 33 Copynumber: 4.3 Consensus size: 33
5 CTGCCGTTGC
** *
15 GAAGCCGCCCCACCGGGGCGGCCTG-CCGTGGT
1 GAAGCCGCCCCAGTGGGGCGGCCTGCCCATGGT
* *** *
47 TAAGCCGCCCCAGTGGGGCGGCCTATTCATAGT
1 GAAGCCGCCCCAGTGGGGCGGCCTGCCCATGGT
*
80 GAAGCCGCCCTAGTGGGGCGGCCTGCCCAATGGT
1 GAAGCCGCCCCAGTGGGGCGGCCTGCCC-ATGGT
*
114 GAAGCCGCCCAAGTGGGGCGGCCTGCCCATGGT
1 GAAGCCGCCCCAGTGGGGCGGCCTGCCCATGGT
147 -AAGCCGCCC
1 GAAGCCGCCC
156 TCTTGGGACG
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
32 30 0.32
33 32 0.34
34 31 0.33
ACGTcount: A:0.15, C:0.35, G:0.36, T:0.13
Consensus pattern (33 bp):
GAAGCCGCCCCAGTGGGGCGGCCTGCCCATGGT
Found at i:285 original size:42 final size:42
Alignment explanation
Indices: 201--285 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
191 GTCAAAATTG
** * *
201 CATTTTTTTGAAATCGTCATCAAAATACGGCATGTTATCGTT
1 CATTTTTTTGAAATCGTCATCAAAATACAACACGTTAACGTT
243 CATTTTTCTT-AAATCGTCATCAAAATACAACACGTTAACGTT
1 CATTTTT-TTGAAATCGTCATCAAAATACAACACGTTAACGTT
285 C
1 C
286 GTGATAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (42 bp):
CATTTTTTTGAAATCGTCATCAAAATACAACACGTTAACGTT
Found at i:13745 original size:2 final size:2
Alignment explanation
Indices: 13740--13770 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13730 TTTTTTTTCC
*
13740 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13771 TTATTTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:18381 original size:1 final size:1
Alignment explanation
Indices: 18347--18374 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
18337 ACCCCCAGAG
18347 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
18375 AATTTTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:38195 original size:222 final size:222
Alignment explanation
Indices: 37807--38244 Score: 553
Period size: 222 Copynumber: 2.0 Consensus size: 222
37797 ATGTTTATAC
** * *
37807 TTATCTAACTAAATCCCTTCCGCATTGGATTTAACGATTTTGTTTACGAGCATTCGAATTATGTT
1 TTATCTAACTAAATCCCAGCCACATTGGATTTAACGATTTTGTTTACGAGCATTCGAATCATGTT
* * *
37872 TCGATTTAATTAGAAAATAATTCAAAAAAAAAAGAAGGAAAAACGATACTAGAAGCGTGAAAAGT
66 TCGATTTAACTAGAAAATAATTCAAAAAAAAAAGAAGGAAAAACGACACTAGAAGCGTAAAAAGT
* * * * *
37937 CCTTCAATTTTTTTGGCATTGAATTATATTTATTTTATGATTATTGTGGCTAAAAATTGATGAAA
131 CCTTCAATTTTTTGGGCATTGAATTATATATATTTTATGAGTATTCTGGATAAAAATTGATGAAA
*
38002 AAACTTTCGGGTTAATTTTTGTAAAAT
196 AAACTTTCGGGTCAATTTTTGTAAAAT
* * * *
38029 TTATCTAACTAAATCTCAGCCACATTGGATTTAA-GAATTTATTTTTACGAGGA-TCTAAGTCAT
1 TTATCTAACTAAATCCCAGCCACATTGGATTTAACG-ATTT-TGTTTACGAGCATTCGAA-TCAT
* *** * * * *
38092 TTTTCGATTTAACTAGATTTTAATTC-AAAATAAAATAA-GAAAAATGACATTAGAAGCGTAAAA
63 GTTTCGATTTAACTAGAAAATAATTCAAAAAAAAAAGAAGGAAAAACGACACTAGAAGCGTAAAA
* *
38155 AG-CCATTCAATCTTTTTGGGCATTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGA
128 AGTCC-TTCAAT-TTTTTGGGCATTGAATTATATATATTTTATGAGTATTCTGGATAAAAATTGA
38219 TGAAAAAACTTTCGGGTCAATTTTTG
191 TGAAAAAACTTTCGGGTCAATTTTTG
38245 CAATATTGTA
Statistics
Matches: 184, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
220 2 0.01
221 30 0.16
222 118 0.64
223 34 0.18
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (222 bp):
TTATCTAACTAAATCCCAGCCACATTGGATTTAACGATTTTGTTTACGAGCATTCGAATCATGTT
TCGATTTAACTAGAAAATAATTCAAAAAAAAAAGAAGGAAAAACGACACTAGAAGCGTAAAAAGT
CCTTCAATTTTTTGGGCATTGAATTATATATATTTTATGAGTATTCTGGATAAAAATTGATGAAA
AAACTTTCGGGTCAATTTTTGTAAAAT
Found at i:39537 original size:332 final size:333
Alignment explanation
Indices: 38031--42852 Score: 4675
Period size: 332 Copynumber: 14.6 Consensus size: 333
38021 TGTAAAATTT
* * * * *
38031 ATCT-AACTAAATCTCAGCCACATTGGATTTAAGAATTTATTTTTACGAGGATCT-AAGTCATTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAA-TCATGT
*** * * * *
38094 TTCGATTTAA-CTAGATTTTAATTCAAAATAAAATAAGAAAAA-TGACATTAGAAGCGTAAAAAG
65 TTCGATTTAATC-AGAAACTAATTCAGAA-AAAATAGGAAAAACT-ATATTAGAAGCGTGAAAAG
* * ** *
38157 CCATTCAATCTTTTTGGGCATTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGA
127 CCCTTCAATCTTTTT-GGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGA
* * * *
38222 AAAAACTTTCGGGTCAATTTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTT
191 AAAAACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTT
* * * *
38287 TGCTAAAAACGCGTTCCTGGGCCCCAGCTCTGTTTAGCACGATTTTTGGCGCCTAGTA-TGACTG
256 GGCTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAG-ACTGACTG
*
38351 AAAAT-CTTATATTC
320 -AAATGTTTATATTC
* * * *
38365 ATCT-AACTAAAT-TCCAGCC-GCATTGGATTTAAAGATTT-TGTTTACGAGCATCTGAATTATG
1 ATCTAAACCAAATCT-CAGCCAG-ATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATG
* *
38426 TTTCGATTTAATTAGAAACTAATT-A-AAAAAA-A--AAAAACGT-TACTAGAAGCGTGAAAAGC
64 TTTCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAAC-TATATTAGAAGCGTGAAAAGC
* *
38485 CCTTCAATCTTTTTGGCATT-AAGTTATATTTATTTTATGAGTATTGTGGCTAAAAATTGACGAA
128 CCTTCAATCTTTTTGGCATTGAA-TTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAA
* * *
38549 AAAACTTTCGGGTTAATTTTTGTAAAATTTTAGACAAAAGT-ATGTGCTAACCATCACGGTTTTT
192 AAAACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAA-TCGTGTACTAACCATCACGGTTTTT
* * * * * * *
38613 GGGTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTCGCATGATTTTTCGCACCTAAACT-CCTTG
256 GGCTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGAC-TG
38677 -AA-----ATATTC
320 AAATGTTTATATTC
* * * * * * * *
38685 ATGT-AAGCAAATCGCAGGCACATTGGATTTAAGAATTTATTTTTACGAGGATCTGAATCATTTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* *** * * *
38749 TTGATTTAA-CTAGATTTTAATTCAGAATAAAATAAGAAAAA-TGACATTAAAAGCGTGAAAAGC
66 TCGATTTAATC-AGAAACTAATTCAGAA-AAAATAGGAAAAACT-ATATTAGAAGCGTGAAAAGC
* * ** *
38812 CCTTCAATCTTTTTGGGCGTTGAATTATATATATTTTATGAGTATTCTGTATAAAACTTGATGAA
128 CCTTCAATCTTTTT-GGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAA
* * * * * * * *
38877 AAAAATTTCAGGTTCATTTTTGCAATATTGTAAACGAAATCGTGTACTAACAATCACGGTTTTTG
192 AAAACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTG
* * ** * * * * *
38942 GTTAAAAACGCATTCTTGGGTCCCAGCTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTAAA
257 GCTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGACTGAA
39007 ATGTTTATATTC
322 ATGTTTATATTC
* * * * * *
39019 ATCTAAA-TAAATCTCAGCCACATTCGATTTAAAGATTT-TGTTTACGAGCATCTGAATTATGTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* * * * *
39082 TCGATTTAAGT-AGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGTCC
66 TCGATTTAA-TCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCCC
* * *
39146 TTCAATCTTTTTGGCATTAAATTATATTTATTTTATGAGTATTGTGGCTAAAGATTGATGAAAAA
130 TTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAA
* * * * * *
39211 ACTTTCGGGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCGCGATTTTTGGGT
195 ACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCT
* * * * *
39276 AAAATCGCGTTCCGGGGCCCCGGCTCGGTTTGGCATGATTTTTAGCGCCTAGACT-CCTTGAAAT
260 AAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGAC-TGAAAT
* *
39340 ATTTATATCC
324 GTTTATATTC
* * *
39350 AT-TAAACCAAATTTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGTATCTGAATCATATT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* * ** * *
39414 TCGATTTAATCAGAAATTAATTCAGAAAAAATGGGAAAAACTATATTAGAAGATTTAAAAACCCT
66 TCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCCCT
* * * * * * *
39479 CCAATTTTTTTGGCGTTGAATTATATATGTTTTACGAGTGTTGTGGCTCAAAATTGATGGAAAAA
131 TCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGAT-GAAAAA
* * * * * * * *
39544 ATTTTCGGGTTAGTTTCTGCAATATTTTAGACGAAATCGTGTATTGACCATCACGATTTTTGGCT
195 ACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCT
* * * * * *
39609 AAAAACACGTTCCTGGGCCCCAGCTCTGTTTAACACGATTTTTGGCGCCTAGTCTGACTGAAATG
260 AAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGACTGAAATG
39674 TTTATATTC
325 TTTATATTC
* * * * * *
39683 ATCT-AACTAAATCCCTGCC-GCATTGGATTTAAAGATTT-TGTTTACGAGCATCTGAATTATGT
1 ATCTAAACCAAATCTCAGCCAG-ATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGT
* * * * * * *
39745 TTCGATTTAATTAGAAACTAATTGA-AAAAAAAAAGAAAAACGATACTAGAAGCGTGAAAAGTCC
65 TTCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCCC
* * * * * *
39809 TTCAATCTTTTTGGCATTGAATAATATTTATTTTACGAGTATTATGGCTAAAAATCGATTAAAAA
130 TTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAA
* * *
39874 ACTTTCGGGTTAATTTTTGTAAAATTTTAGTC-AAAGGT-GTGTATTAACAATCACGGTTTTTTT
195 ACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAA--TCGTGTACTAACCATCACGG---TTTT
* *
39937 TGGCTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGC-TCTAGTCTGACTG
255 TGGCTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGACTG
*
40001 AAATGTTTATATTG
320 AAATGTTTATATTC
* * * * * *
40015 ATCT-AACTAAATCCCTGCC-GCATTGGATTTAACGATTT-TGTTTACGAGCAT-TCGAATTATG
1 ATCTAAACCAAATCTCAGCCAG-ATTGGATTTAAGGATTTATTTTTACGAGCATCT-GAATCATG
* * * * *
40076 TTTCGATTTAATTAGAAAATAATT-----AAAA-A-GAAAAACGATACTAGAAGCGTGAAAAGTC
64 TTTCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCC
* * * *
40134 TTTCAATGTTTTTGGCATTGAGTTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAA
129 CTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAA
* * *
40199 AACTTTCGGGTTAATTTTTGTAAAATTTTAGCCAAAAACGTGTAC-AAGCCATCACGGTTTTTGG
194 AACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAA-CCATCACGGTTTTTGG
* * * * * * *
40263 CTAAAATCGCGATCCGGGGCCCCGTCTCGGTTTGGCATGATTTTTGGCGCCTAAACT-CCTTGAA
258 CTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGAC-TGAA
*
40327 AT-TCCTATATTC
322 ATGT-TTATATTC
* ** * *
40339 ATC-AAACCAAATCTCAGCCAGATTAGATTTAAGGATTTATTTTTTGGAGTATCTGAATCATCTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* * ** *
40403 TCGATTTAATCAGAAACTAATTCAGAAAAAATGGGATAAACTATATTAGAAGATTGAAAAGCACT
66 TCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCCCT
* * * * * *
40468 CCAATTTTTTTGGCGTTGAATTATATATGTTTTATGAGTGTTGTGGCTAAAAATTGACGAAAGAA
131 TCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAA-AA
* * * * * * **
40533 A--TTCTGATTAATTTTT-TCAGATTTTTAGCCGAAATCGAGTACTAATTATCACGGTTTTTGGC
195 ACTTTCGGGTTAATTTTTGT-AAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGC
* * * * * * * *
40595 TAAAAACGTGTTCCAGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACT-CCTTGAAA
259 TAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGAC-TGAAA
*
40659 TATCTT-TATTC
323 TGT-TTATATTC
* * * * * * *
40670 TTGTAAA-CAAATCTCAGCCACATTGGATTTAAGAATTTACTTTTACGAGGATCTGAATCATTTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* * * *
40734 TCGATTTAA-CTAGAAATTAATTCAGAATAAAATAAGAAAAA-TGACATTAAAAGCGTGAAAAGC
66 TCGATTTAATC-AGAAACTAATTCAGAA-AAAATAGGAAAAACT-ATATTAGAAGCGTGAAAAGC
* *** *
40797 CCTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTCTAATTAAAATTTGATGAAA
128 CCTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAA
* * * * *
40862 GAAA-TTTCAGGTTAATTTTTGCAATATTGTAGACGAAATCGTGTACTAACAATCACGGTTTTTG
193 -AAACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTG
* * * * * * *
40926 GTTAAAAACGCATTCCTGGGTCCCGGCTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTAAA
257 GCTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGACTGAA
40991 ATGTTTATATTC
322 ATGTTTATATTC
* * * * * * *
41003 ATCTAAA-TAAATCTTAGCCACATTAGATTTAAAGATTT-TGTTTACGAGCATCTGAATTATGTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* * * * * *
41066 TCTATTTAAGT-AGAAACTAATTCAAAAAAAAAAAGGAAAAACGATATTAGAAGTGTGAAAAGTC
66 TCGATTTAA-TCAGAAACTAATTC-AGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCC
** * * * *
41130 AATCAATCTTTTTGGCATTGAATAATATTTATTTTATGAGTATTATGGCTAAAAATTGATTAAAA
129 CTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAA
* * * * *
41195 AGCTTTCGGGTTAATTTTTGTAAAATTTTAGTC--AAGCATGTATTAACCATCACGGTTTTTGGC
194 AACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGC
* * *
41258 TAAAAAACGCGTTTC-GGGACCCGGCTCGGTTTAGCACGATTTTTGGCG-CTAGTCTGACTGAAA
259 T-AAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGACTGAAA
*
41321 TGTTTATATTT
323 TGTTTATATTC
* * * * *
41332 ATCT-AACTAAATCCCTGCC-GCATTGGATTTAACGATTT-TGTTTT-CGAGCAT-TCGAATTAT
1 ATCTAAACCAAATCTCAGCCAG-ATTGGATTTAAGGATTTAT-TTTTACGAGCATCT-GAATCAT
* * * * * * *
41392 GTTTCGATTTAATTAGAAAATAATTCCAAAAAAAAAAATGGAAAAACGATACTAGAAGCCTGAAA
63 GTTTCGATTTAATCAGAAACTAATT-C-AGAAAAAATA-GGAAAAACTATATTAGAAGCGTGAAA
* *
41457 AGTCCTTCAATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATG
125 AGCCCTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATG
* * * * * * *
41522 AAAAAACTTTTTGGGTTAATTTTTATAAAATTTTAGCCAAAAACGTTTACTAATCATCACGGTTT
190 AAAAAAC-TTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTT
* ** * * * * * * *
41587 TTGGGTAAAAACGCGACCCGGGGCCCCGGCTCGGTTTGGCATGATTTTTCGAGCCCAAACT-CCT
254 TTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGAC-
*
41651 TGAAAT-TCCTATATTC
318 TGAAATGT-TTATATTC
* * * *
41667 ATC-AAACCAAATTTCAGCCAGATTGGATTTAAGGATTTATTTTTACAAGTATCTGAATCATCTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* * * * **
41731 TCGATTTAATCAGAAATTAATTCAGAAAAGATGGGAAAAACTATATTACAAGATTGAAAAGCCCT
66 TCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCCCT
* * * * * * *
41796 CCAATTTTTTTGGCGTTGAATTATATATGTTTTACGAGTGTTGTGGCTCAAAATTGATGAAAAAA
131 TCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAA
* * * * * *
41861 ATTTTGGGTTAATTTTTGCAATATTTTAGACGAAATCGTGTATTAACCATCACAGTTTTTGGCTA
196 CTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* * *
41926 AAAACGCGTTCCTGGGCCCCGGCTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGT
261 AAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGACTGAAATGT
41991 TTATATTC
326 TTATATTC
* * *
41999 ATCT-AACCAAATCCCAGCC-GCATTGGATTTGAA-GATTT-TGTTTACGAGCATCTGAATTATG
1 ATCTAAACCAAATCTCAGCCAG-ATTGGATTT-AAGGATTTATTTTTACGAGCATCTGAATCATG
* * * *
42060 TTTCGATTTAATCAGAAACTAATT-----AAAA-A--AAAAACGATAGTAGAAGCATGAAAAGTC
64 TTTCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCC
42117 CTTCAATCTTTTTGGCATTGAATTATAT-TATTTTATGAGTATTGTGGCTAAAAATTGATGAAAA
129 CTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAA
* * * * * * * *
42181 CATTTTCAGGTTAATTTTTGTAAAATTTTAGCCAAAAACGTGTACTAATCATCACGGTTTTTGGG
194 AACTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGC
* ** * * * * * *
42246 TAAAAACACAATCCGGGGCCCCAGCTCGGTTTGGCATGATTTTTGGCGCCTAAACT-CCTTGACA
259 TAAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGAC-TGAAA
*
42310 T-TCCTATATTC
323 TGT-TTATATTC
* *
42321 ATC-AAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGTATCTGAATCATCTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* *** *
42385 TCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAGAAACTATATTAGAAAATTGAAAATCCCT
66 TCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCCCT
* * * * *
42450 CCAATTTTTTTGGCATTGAATTATATATGTTTTACGAGTGTTGTGGCTAAAAATTGATGAAAAAA
131 TCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAA
* * * * * ** * * * *
42515 CTTCCAGGTTAATTTTTGCT-GAATTTTAGCCGAAATCGAGTGTTAATCTTCACTGTTTTTGACT
196 CTTTCGGGTTAATTTTTG-TAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCT
** * * ** * * * *
42579 AAAAACGCGTTCCGATGCCCCGCCTTGGTTGGGCATGATTTTTTGCGCCTAAACT-TCTTGAAAT
260 AAAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGAC-TGAAAT
* *
42643 ATCTT-TATTT
324 GT-TTATATTC
* * * * *
42653 ATGTAAA-CAAATCTCAGCCACATTGGATTTAAGGATTTATTTTAACGAGGATCTGAATCATTTT
1 ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
* * *
42717 TCGATTTAA-CTAGAAATTAATTCAGAATAAAATAAGAAAAA-TGACATTA-AAGGCGTGAAAAG
66 TCGATTTAATC-AGAAACTAATTCAGAA-AAAATAGGAAAAACT-ATATTAGAA-GCGTGAAAAG
* * * * *
42779 TCCTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATT-TTGTTAAAAATTTAACGA
127 CCCTTCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAA-TTGATGA
42843 AAAAACTTTC
191 AAAAACTTTC
42853 AGGCATAGGT
Statistics
Matches: 3711, Mismatches: 645, Indels: 265
0.80 0.14 0.06
Matches are distributed among these distances:
320 34 0.01
321 41 0.01
322 174 0.05
323 145 0.04
324 53 0.01
325 46 0.01
326 280 0.08
327 75 0.02
328 150 0.04
329 99 0.03
330 133 0.04
331 641 0.17
332 1024 0.28
333 595 0.16
334 132 0.04
335 53 0.01
336 35 0.01
337 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (333 bp):
ATCTAAACCAAATCTCAGCCAGATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATGTT
TCGATTTAATCAGAAACTAATTCAGAAAAAATAGGAAAAACTATATTAGAAGCGTGAAAAGCCCT
TCAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAA
CTTTCGGGTTAATTTTTGTAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
AAAACGCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGACTGACTGAAATGT
TTATATTC
Found at i:42976 original size:20 final size:20
Alignment explanation
Indices: 42951--42988 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42941 TTTGGGCAAT
42951 TGACCCGTTGAAAACCGGTG
1 TGACCCGTTGAAAACCGGTG
*
42971 TGACCCGTTGAAACCCGG
1 TGACCCGTTGAAAACCGG
42989 ATCCACCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (20 bp):
TGACCCGTTGAAAACCGGTG
Found at i:43115 original size:20 final size:21
Alignment explanation
Indices: 43080--43118 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
43070 TATTAAGGAT
*
43080 AATATTGCAAATTAAATAATA
1 AATATTGCAAAATAAATAATA
43101 AATATTG-AAAATAAATAA
1 AATATTGCAAAATAAATAA
43119 GAAAACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
AATATTGCAAAATAAATAATA
Found at i:44486 original size:333 final size:331
Alignment explanation
Indices: 43580--46993 Score: 3306
Period size: 333 Copynumber: 10.3 Consensus size: 331
43570 GGCGTCTTCC
* * * * * ** * *
43580 CAGCCGCATTCGATTTAAAGATTT-TGTTTACGAGCATCTGAATTACATTTCGATTTAATTAGAG
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGAA
* * * * *
43644 ACTAATTCA-AAAAAAAAAAGAAAAAGAAAACCGATACTAGAAGCGTTAAAAGTCCTTCAATCTT
66 ATTAATTCAGAAAAAAATAAG----A-AAAA-TGATATTAGAAGCGTGAAAAGTCCTTCAATCTT
* * * * * *
43708 TTTGGAATTGAATTATATTTATTTTAGGAGTATTATTGCTAAAAATTGATTAAAAAACTTTCGGG
125 TTTGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGG
* * * * * * *
43773 TTAATTTTTGTAAAATTTTAGTCAAAAGCGTGTATTAACCATCACGGTTTTGGGCTAAAAATGCG
190 TTAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCG
* * * * * * * * *
43838 TTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGTCTGAC-TGAAATGTTTAAATT
255 TT-CTGGGCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACT-CCTTGAAATATCTATATT
* *
43902 TATCTAACTAAATC-
318 CATGTAAC-AAATCT
* * * * * *
43916 CATGCCGCATTGGATTTAACGATTT-TGTTTACGAGCAT-TCGAATTATATTTCGATTTAATTAG
1 CA-GCCACATTGGATTTAAGGATTTATTTTTACGAGCATCT-GAATCATTTTTCGATTTAACTAG
* * *
43979 AAAATAATTCA-AAAAAAA-AAGGAAAAACGATACTAGAAGCGTGAAAAGTCCTTCAATCTTTTT
64 AAATTAATTCAGAAAAAAATAA-GAAAAATGATATTAGAAGCGTGAAAAGTCCTTCAATCTTTTT
* *
44042 GGAATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATG-AAAAACTTTCGGGTTA
128 GGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTA
* * * * *
44106 ATTTTTGTAAAATTTTAGCCAAAAACATGTACTAACCATCACGGTTTTTGGGTAAAAACGCGTTC
193 ATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTC
* * * ** * * * *
44171 TGGTGCCCCGCCTCGATTTGGCATGATATTTACCGTCTACACTCCTTTAAATATCTATATTCATA
258 TGG-GCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACTCCTTGAAATATCTATATTCATG
44236 TAAGCAAATCT
322 TAA-CAAATCT
* * *
44247 CAGCCAGATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTGAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGAA
* * * * * * *
44312 ATAAATTCAGTATAAAATAAGAAACATGACATTAGACGCGTGAAAAG-CACTTCAATCCTTTTGG
66 ATTAATTCAGAAAAAAATAAGAAAAATGATATTAGAAGCGTGAAAAGTC-CTTCAATCTTTTTGG
* * * ** *
44376 CGTTGAGTTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAAT
130 CATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTAAT
* * * *
44441 TTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGCCTAAAAACGCGTTCCT
195 TTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT-CT
* * * * * *
44506 AGG-CCCGACTCTGTTTAGCATGATTTTTGGCGCCTAGTCTGAC-TGAAAT-TCTTATATTCATC
259 GGGCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACT-CCTTGAAATATC-TATATTCATG
44568 TAACTAAATC-
322 TAAC-AAATCT
* * * * * * * *
44578 CTAGCCGCATTGGATTTAAAGATTT-TGTTTACGAGCATGTGAATTATGTTTCAATTTAATTAGA
1 C-AGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGA
* ** *
44642 AACTAA-T-A-AAAAAAA-AAGGAAAACCGATACTAGAAGCGTGAAAAGTCCTTCAATCTTTTTG
65 AATTAATTCAGAAAAAAATAA-GAAAAATGATATTAGAAGCGTGAAAAGTCCTTCAATCTTTTTG
* * *
44703 GCATAGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCTGGTTAA
129 GCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTAA
** ** * * *
44768 TTTTTGCTGAATTTTAGCCGAAATCGAATACTAATCATAACGGTTTTTGGCTAAAAACGCGTTCC
194 TTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCT
* * *
44833 GGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTATTCATGT
259 GG-GCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACTCCTTGAAATATCTATATTCATGT
44898 AAACAAATCT
323 -AACAAATCT
* *
44908 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTAAATCATTTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGAA
* * * ** *
44973 ATTAATTCAGAATAAAATAAGAAAAATGACATTAAAAGCGTGAAAAACCCTTCAATATTTTTGGC
66 ATTAATTCAGAAAAAAATAAGAAAAATGATATTAGAAGCGTGAAAAGTCCTTCAATCTTTTTGGC
* * ** * *
45038 ATTAAATTATATATATTTTATGAGTATTCTGTTTAAAATTTGATGAAAAAACTTTCAGGTTAATT
131 ATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTAATT
* * * * *
45103 TTTGCAATATTGTAGACGAAATCGTGTACT-A--A-CACGGTTTTTAGCTAAAAACGCATTCCTG
196 TTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT-CTG
* * * * * * * * *
45164 GGCCCCGGCTCTGTTTAGCACGATTTTTGGCGTCTAGTCTGAC-TGAAATATTTATATTCATATA
260 GGCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACT-CCTTGAAATATCTATATTCATGTA
*
45228 ACTAAATCC
324 AC-AAATCT
* * * * * * * *
45237 CAGCCACAATT-GATTTAAAGATTT-TGTTTAGGAGCATCTGGATTATGTTTCGGTTTAA-TTGA
1 CAGCCAC-ATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGA
* * ** * *
45299 AACTAATTCA-AAAAAAATAGGAAAAGCGATACTAGAAGCGTGAAAAGTCCTTTAATCTTTTTGG
65 AATTAATTCAGAAAAAAATAAGAAAAATGATATTAGAAGCGTGAAAAGTCCTTCAATCTTTTTGG
* * * *
45363 CATTGAATTATATTTATTTTATAAGTATTGTAGCTAAAAATTGATGAAAAAACTTTCGTGTTAAT
130 CATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTAAT
* * ** * *
45428 TTTTGTAAAATTTTAGCCAAAAGAGTGTACTAACCATCACGGTTTTTGGGTAAAAACGCGTTCCA
195 TTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT-CT
* * *
45493 GGGCCCCGGCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTATTCATGTA
259 GGGCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACTCCTTGAAATATCTATATTCATGT-
45558 AACAAATCT
323 AACAAATCT
* * * *
45567 CAGCCACATTGGATTTGAGAATTTATTTTTACAAGGATCTGAATCATTTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGAA
* * *
45632 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGC
66 ATTAATTCAGAAAAAAATAAGAAAAATGATATTAGAAGCGTGAAAAGTCCTTCAATCTTTTTGGC
* * ** *
45697 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATTGAAAAAACTTTCGGGTTAAT
131 ATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGA-TGAAAAAACTTTCGGGTTAAT
* * * * *
45762 TTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACGCGTTCCT
195 TTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT-CT
* * * * * * * * * * *
45827 GGG-CCCGACTCTGTTTAGCACGATTTTTTGCGGCTAGTCTGAC-TGAAATGTTTATATGCATCT
259 GGGCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACT-CCTTGAAATATCTATATTCATGT
*
45890 AACTAAATCC
323 AAC-AAATCT
* * * * * * * * * * *
45900 CAGTCATATTCGATTTAAAGATTT-TGTTTACAAGCATCTTAATTATGTTTCGATTTAATTGGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGAA
* * * * *
45964 ACTAATTCAAATAATAAAAAAAGAAAAACGATACTAGAAGAC-TGAAAAGTCCTTCAATCTTTTT
66 ATTAATTCAGA-AA-AAAATAAGAAAAATGATATTAGAAG-CGTGAAAAGTCCTTCAATCTTTTT
* *
46028 GGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAA-TTTCAGGTTA
128 GGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTA
* * * *
46092 ATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTT
193 ATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTC
* * * * *
46157 TGGGGCCCCGGCTCGGTTTGGCAAGATATTTTGGTGTCTAGACTCCTTGAAAT-TC---CTTCAT
258 T-GGGCCCCGACTCGGTTTGGCATGAT-TTTTGGCGCCTAGACTCCTTGAAATATCTATATTCAT
**
46218 CAAACCAAATCT
321 GTAA-CAAATCT
** * * *
46230 CAGCCAGTTTGGATTTATGGATTTATTTTTACGAGTATCTGAATCATCTTTCGATTTAA-TCAGA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACT-AGA
** * * * *
46294 AATTAATTCAG-AAAAAATGGGAAATACT-ATATCAGAAGCGTGAAAAG-CCTCCCAATTTTTTT
65 AATTAATTCAGAAAAAAATAAGAAA-AATGATATTAGAAGCGTGAAAAGTCCT-TCAA-TCTTTT
* * *
46356 TGGCGTTGAATTATATATGTTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTCCGGGTT
127 TGGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTT
* * * *
46421 AATTTTTGCAAAATTTTAGCCGAAATCGAGTTCTAACAATTACGGTTTTTGGCTAAAAACGCGTT
192 AATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT
* * * * * * * * * *
46486 CCGGTACCCCGAATCAGTTTGGTATGATGTTTGGCCCCTAAACTCCTTCAAATATCTATATTTAT
257 CTGG-GCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACTCCTTGAAATATCTATATTCAT
*
46551 GTAAGCTAATCT
321 GTAA-CAAATCT
* * *
46563 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTAAATAATCTTTT-GATGTAA-TCAT
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCAT-TTTTCGATTTAACT-A-
* * * * * * * *
46626 G-AATTAATTC-GGAAAAAATAGGGAAAATAATATCAGAAACGTGAAAAGTCTTTTAATCTTTTT
63 GAAATTAATTCAGAAAAAAATAAGAAAAATGATATTAGAAGCGTGAAAAGTCCTTCAATCTTTTT
** * * * * * *
46689 GGTGTTGAATTATATATGTTTTATGAGTATTGTGGCTAAAAATTAAGGAAAAAATTTTTGGGTAA
128 GGCATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTA
* * * * *
46754 ATTTTTCCAAAATTTTAGGCGAAATCGTGTACTAATAATACTATCACGATATTTGGCTAAAAACG
193 ATTTTTGCAAAATTTTAGCCGAAATCGTGTAC---T-A-ACCATCACGGTTTTTGGCTAAAAACG
* * * * * * *
46819 TGTT-TCGGAG-CCCAACTCAGTTTGGCATGATTATTGGCACCTCGACTCCTTGTAATATCTATA
253 CGTTCT-GG-GCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACTCCTTGAAATATCTATA
*
46882 TTTATGTAAGCAAATCT
316 TTCATGTAA-CAAATCT
* * * ** * *
46899 CAACTACATTTGATTTAAGGATTTATTTTTACGAAAATTTGAATCATCTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGAA
* *
46964 ATTAATTC-GAATAAAATAATAAAAATGATA
66 ATTAATTCAGAAAAAAATAAGAAAAATGATA
46994 GCCTCTCACA
Statistics
Matches: 2530, Mismatches: 466, Indels: 164
0.80 0.15 0.05
Matches are distributed among these distances:
326 122 0.05
327 21 0.01
328 205 0.08
329 260 0.10
330 406 0.16
331 232 0.09
332 375 0.15
333 478 0.19
334 189 0.07
335 6 0.00
336 136 0.05
337 100 0.04
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (331 bp):
CAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCATTTTTCGATTTAACTAGAA
ATTAATTCAGAAAAAAATAAGAAAAATGATATTAGAAGCGTGAAAAGTCCTTCAATCTTTTTGGC
ATTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGTTAATT
TTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGG
GCCCCGACTCGGTTTGGCATGATTTTTGGCGCCTAGACTCCTTGAAATATCTATATTCATGTAAC
AAATCT
Found at i:45556 original size:659 final size:663
Alignment explanation
Indices: 43580--46991 Score: 4092
Period size: 661 Copynumber: 5.1 Consensus size: 663
43570 GGCGTCTTCC
* * * * * * ** * *
43580 CAGCCGCATTCGATTTAAAGATTT-TGTTTACGAGCATCTGAATTACATTTCGATTTAATTAGAG
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
* * * * **
43644 ACTAATTCA-AAAAAAAAAAGAAAAA-GAAAACCGATACTAGAAGCGTTAAAAGTCCTTCAATCT
66 ATTAATTCAGAATAAAATAAGAAAAATG---A-C-AT--TAGAAGCGTGAAAAACCCTTCAATCT
** * * * *
43707 TTTTGGAATTGAATTATATTTATTTTAGGAGTATTATTGCTA-AAAA-TTGATTAAAAAACTTTC
124 TTTTGGCGTTGAATTATATATATTTTATGAGTATT-CTG-TATAAAATTTGATGAAAAAACTTTC
* * * * * * * * *
43770 GGGTTAATTTTTGTAAAATTTTAGTCAAAAGCGTGTATTAACCATCACGGTTTTGGGCTAAAAAT
187 GGGTTAATTTTTGCAATATTGTAGACGAAATCGTGTACTAA-CATCACGGTTTTTGGCTAAAAAC
* * * * *
43835 GCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGTTTAAA
251 GCGTTCCTGGGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATATTTATA
* * *
43900 TTTATCTAACTAAAT-CCATGCCGCATTGGATTTAACGATTTTGTTTACGAGCAT-TCGAATTAT
316 TTCATCTAACTAAATCCCA-GCCACATTGGATTTAAAGATTTTGTTTACGAGCATCT-GAATTAT
* *
43963 ATTTCGATTTAATTAGAAAATAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGT
379 GTTTCGATTTAATTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGT
*
44028 CCTTCAATCTTTTTGGAATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATG-AA
444 CCTTCAATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAA
* *
44092 AAACTTTCGGGTTAATTTTTGTAAAATTTTAGCCAAAAACATGTACTAACCATCACGGTTTTTGG
509 AAACTTTCGGGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGG
* * * * ** * * *
44157 GTAAAAACGCGTTCTGGTGCCCCGCCTCGATTTGGCATGATATTTACCGTCTACACTCCTTTAAA
574 CTAAAAACGCGTTCCGGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAA
* * *
44222 TATCTATATTCATATAAGCAAATCT
639 TATCTTTATTCATGTAAACAAATCT
* *
44247 CAGCCAGATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTGAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
* * * * * * *
44312 ATAAATTCAGTATAAAATAAGAAACATGACATTAGACGCGTGAAAAGCACTTCAATCCTTTTGGC
66 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGC
*
44377 GTTGAGTTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
131 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
* *
44442 TTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGCCTAAAAACGCGTTCCTA
196 TTTGCAATATTGTAGACGAAATCGTGTACTAA-CATCACGGTTTTTGGCTAAAAACGCGTTCCTG
*
44507 GG-CCCGACTCTGTTTAGCATGATTTTTGGCGCCTAGTCTGACTGAAAT-TCTTATATTCATCTA
260 GGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATAT-TTATATTCATCTA
* * * *
44570 ACTAAATCCTAGCCGCATTGGATTTAAAGATTTTGTTTACGAGCATGTGAATTATGTTTCAATTT
324 ACTAAATCCCAGCCACATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTT
*
44635 AATTAGAAACTAA-T-AAAAAAAAAAGGAAAACCGATACTAGAAGCGTGAAAAGTCCTTCAATCT
389 AATTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGTCCTTCAATCT
* *
44698 TTTTGGCATAGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCTG
454 TTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGG
* * * ** * *
44763 GTTAATTTTTGCT-GAATTTTAGCCGAAATCGAATACTAATCATAACGGTTTTTGGCTAAAAACG
519 GTTAATTTTTG-TAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAAACG
44827 CGTTCCGGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTAT
583 CGTTCCGGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTAT
44892 TCATGTAAACAAATCT
648 TCATGTAAACAAATCT
*
44908 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTAAATCATTTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
* *
44973 ATTAATTCAGAATAAAATAAGAAAAATGACATTAAAAGCGTGAAAAACCCTTCAATATTTTTGGC
66 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGC
* * * *
45038 ATTAAATTATATATATTTTATGAGTATTCTGTTTAAAATTTGATGAAAAAACTTTCAGGTTAATT
131 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
* *
45103 TTTGCAATATTGTAGACGAAATCGTGTACT-A-A-CACGGTTTTTAGCTAAAAACGCATTCCTGG
196 TTTGCAATATTGTAGACGAAATCGTGTACTAACATCACGGTTTTTGGCTAAAAACGCGTTCCTGG
* * *
45165 GCCCCGGCTCTGTTTAGCACGATTTTTGGCGTCTAGTCTGACTGAAATATTTATATTCATATAAC
261 GCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATATTTATATTCATCTAAC
* * *
45230 TAAATCCCAGCCACAATT-GATTTAAAGATTTTGTTTAGGAGCATCTGGATTATGTTTCGGTTTA
326 TAAATCCCAGCCAC-ATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTTA
* * *
45294 ATT-GAAACTAATTCAAAAAAAATAGGAAAAGCGATACTAGAAGCGTGAAAAGTCCTTTAATCTT
390 ATTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGTCCTTCAATCTT
* * *
45358 TTTGGCATTGAATTATATTTATTTTATAAGTATTGTAGCTAAAAATTGATGAAAAAACTTTCGTG
455 TTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGG
* *
45423 TTAATTTTTGTAAAATTTTAGCCAAAAGAGTGTACTAACCATCACGGTTTTTGGGTAAAAACGCG
520 TTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCG
*
45488 TTCCAGG-GCCCCGGCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTATT
585 TTCC-GGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTATT
45552 CATGTAAACAAATCT
649 CATGTAAACAAATCT
* * *
45567 CAGCCACATTGGATTTGAGAATTTATTTTTACAAGGATCTGAATCATTTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
*
45632 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGC
66 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGC
45697 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATTGAAAAAACTTTCGGGTTAAT
131 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGA-TGAAAAAACTTTCGGGTTAAT
* *
45762 TTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACGCGTTCCT
195 TTTTGCAATATTGTAGACGAAATCGTGTACTAA-CATCACGGTTTTTGGCTAAAAACGCGTTCCT
* * * *
45827 GGG-CCCGACTCTGTTTAGCACGATTTTTTGCGGCTAGTCTGACTGAAATGTTTATATGCATCTA
259 GGGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATATTTATATTCATCTA
* * * * *
45891 ACTAAATCCCAGTCATATTCGATTTAAAGATTTTGTTTACAAGCATCTTAATTATGTTTCGATTT
324 ACTAAATCCCAGCCACATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTT
* *
45956 AATTGGAAACTAATTCAAATAATAAAAAAAGAAAAACGATACTAGAAGAC-TGAAAAGTCCTTCA
389 AATTAGAAACTAATTC-AA-AA-AAAAAAGGAAAAACGATACTAGAAG-CGTGAAAAGTCCTTCA
46020 ATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAA-TT
450 ATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTT
*
46084 TCAGGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAA
515 TCGGGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAA
** * * * * * *
46149 ACGCGTTTTGGGGCCCCGGCTCGGTTTGGCAAGATATTTTGGTGTCTAGACTCCTTGAAAT-TCC
580 ACGCGTTCCGGTGCCCCGCCTCGGTTTGGCATGAT-TTTTGGCGCCTAAACTCCTTGAAATAT-C
* *
46213 TTCA-TCA---AACCAAATCT
643 TTTATTCATGTAAACAAATCT
** * * *
46230 CAGCCAGTTTGGATTTATGGATTTATTTTTACGAGTATCTGAATCATCTTTCGATTTAA-TCAGA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACT-AGA
** * * * * * *
46294 AATTAATTCAGAA-AAAATGGGAAATACT-ATATCAGAAGCGTG-AAAAGCCTCCCAATTTTTTT
65 AATTAATTCAGAATAAAATAAGAAA-AATGACATTAGAAGCGTGAAAAACCCT-TCAA-TCTTTT
* * ** * *
46356 TGGCGTTGAATTATATATGTTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTCCGGGTT
127 TGGCGTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTT
* * * * * *
46421 AATTTTTGCAAAATTTTAGCCGAAATCGAGTTCTAACAATTACGGTTTTTGGCTAAAAACGCGTT
192 AATTTTTGCAATATTGTAGACGAAATCGTGTACTAAC-ATCACGGTTTTTGGCTAAAAACGCGTT
* * * * * * * * ** * * * *
46486 CC-GGTACCCCGAATCAGTTTGGTATGATGTTTGGCCCCTAAACT-CCTTCAAATATCTATATTT
256 CCTGG-GCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGAC-TGAAATATTTATATTC
* * * * * * *
46549 ATGTAAGCT-AATCTCAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTAAATAATCTT
319 ATCTAA-CTAAATCCCAGCCACATTGGATTTAAAGATTT-TGTTTACGAGCATCTGAATTATGTT
* * * * ** * * ** *
46613 TTGATGTAATCATG-AATTAATTCGGAAAAAATAGGGAAAATAATA-TCAGAAACGTGAAAAGTC
382 TCGATTTAATTA-GAAACTAATTCAAAAAAAAAAGGAAAAACGATACT-AGAAGCGTGAAAAGTC
* * ** * * * *
46676 TTTTAATCTTTTTGGTGTTGAATTATATATGTTTTATGAGTATTGTGGCTAAAAATTAAGGAAAA
445 CTTCAATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAA
* * * ** * * * * * *
46741 AATTTTTGGGTAAATTTTTCCAAAATTTTAGGCGAAATCGTGTACTAATAATACTATCACGATAT
510 AACTTTCGGGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTAC---T-A-ACCATCACGGTTT
* * * ** * * * **
46806 TTGGCTAAAAACGTGTTTCGGAG-CCCAACTCAGTTTGGCATGATTATTGGCACCTCGACTCCTT
570 TTGGCTAAAAACGCGTTCCGGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTT
* * * *
46870 GTAATATCTATATTTATGTAAGCAAATCT
635 GAAATATCTTTATTCATGTAAACAAATCT
* * * ** * *
46899 CAACTACATTTGATTTAAGGATTTATTTTTACGAAAATTTGAATCATCTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
*
46964 ATTAATTC-GAATAAAATAATAAAAATGA
66 ATTAATTCAGAATAAAATAAGAAAAATGA
46992 TAGCCTCTCA
Statistics
Matches: 2394, Mismatches: 293, Indels: 114
0.85 0.10 0.04
Matches are distributed among these distances:
657 35 0.01
658 116 0.05
659 403 0.17
660 154 0.06
661 441 0.18
662 268 0.11
663 439 0.18
664 77 0.03
665 30 0.01
666 120 0.05
667 172 0.07
668 45 0.02
669 92 0.04
670 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (663 bp):
CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGC
GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
TTTGCAATATTGTAGACGAAATCGTGTACTAACATCACGGTTTTTGGCTAAAAACGCGTTCCTGG
GCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATATTTATATTCATCTAAC
TAAATCCCAGCCACATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTTAA
TTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGTCCTTCAATCTTT
TTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGGT
TAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGT
TCCGGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTATTCA
TGTAAACAAATCT
Found at i:46258 original size:663 final size:661
Alignment explanation
Indices: 43580--46991 Score: 4056
Period size: 663 Copynumber: 5.1 Consensus size: 661
43570 GGCGTCTTCC
* * * * * * ** * *
43580 CAGCCGCATTCGATTTAAAGATTT-TGTTTACGAGCATCTGAATTACATTTCGATTTAATTAGAG
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
* * * * *
43644 ACTAATTCA-AAAAAAAAAAGAAAAA-GAAAACCGATACTAGAAGCGTTAAAAGTCCTTCAATCT
66 ATTAATTCAGAATAAAATAAGAAAAATG---A-C-AT--TAGAAGCGTGAAAAGCCCTTCAATCT
** * * * *
43707 TTTTGGAATTGAATTATATTTATTTTAGGAGTATTATTGCTA-AAAA-TTGATTAAAAAACTTTC
124 TTTTGGCGTTGAATTATATATATTTTATGAGTATT-CTG-TATAAAATTTGATGAAAAAACTTTC
* * * * * * * * *
43770 GGGTTAATTTTTGTAAAATTTTAGTCAAAAGCGTGTATTAACCATCACGGTTTTGGGCTAAAAAT
187 GGGTTAATTTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAC
* * * *
43835 GCGTTCCGGGGCCCCGGCTCGGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGTTTAAA
252 GCGTTCCTGGGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGTTTATA
* * *
43900 TTTATCTAACTAAAT-CCATGCCGCATTGGATTTAACGATTTTGTTTACGAGCAT-TCGAATTAT
317 TTCATCTAACTAAATCCCA-GCCACATTGGATTTAAAGATTTTGTTTACGAGCATCT-GAATTAT
* *
43963 ATTTCGATTTAATTAGAAAATAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGT
380 GTTTCGATTTAATTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGT
*
44028 CCTTCAATCTTTTTGGAATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATG-AA
445 CCTTCAATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAA
* *
44092 AAACTTTCGGGTTAATTTTTGTAAAATTTTAGCCAAAAACATGTACTAACCATCACGGTTTTTGG
510 AAACTTTC-GGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGG
* * * * * ** * * *
44157 GTAAAAACGCGTTCTGGTGCCCCGCCTCGATTTGGCATGATATTTACCGTCTACACTCCTTTAAA
574 CTAAAAACGCGTTCCGGGGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAA
44222 TATCTAT-ATTCATATAAGCAAATCT
639 TATCT-TCATTCATA-AA-CAAATCT
* *
44247 CAGCCAGATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTGAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
* * * * * *
44312 ATAAATTCAGTATAAAATAAGAAACATGACATTAGACGCGTGAAAAGCACTTCAATCCTTTTGGC
66 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGC
*
44377 GTTGAGTTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
131 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
* *
44442 TTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGCCTAAAAACGCGTTCCTA
196 TTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCTG
*
44507 GG-CCCGACTCTGTTTAGCATGATTTTTGGCGCCTAGTCTGACTGAAAT-TCTTATATTCATCTA
261 GGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGT-TTATATTCATCTA
* * * *
44570 ACTAAATCCTAGCCGCATTGGATTTAAAGATTTTGTTTACGAGCATGTGAATTATGTTTCAATTT
325 ACTAAATCCCAGCCACATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTT
*
44635 AATTAGAAACTAA-T-AAAAAAAAAAGGAAAACCGATACTAGAAGCGTGAAAAGTCCTTCAATCT
390 AATTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGTCCTTCAATCT
*
44698 TTTTGGCATAGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCTG
455 TTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTC-G
* * * ** * *
44763 GTTAATTTTTGCT-GAATTTTAGCCGAAATCGAATACTAATCATAACGGTTTTTGGCTAAAAACG
519 GTTAATTTTTG-TAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAAACG
* *
44827 CGTTCCGGTGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTAT
583 CGTTCCGGGGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTCAT
44892 TCATGTAAACAAATCT
648 TCA--TAAACAAATCT
*
44908 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTAAATCATTTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
* * *
44973 ATTAATTCAGAATAAAATAAGAAAAATGACATTAAAAGCGTGAAAAACCCTTCAATATTTTTGGC
66 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGC
* * * *
45038 ATTAAATTATATATATTTTATGAGTATTCTGTTTAAAATTTGATGAAAAAACTTTCAGGTTAATT
131 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
* *
45103 TTTGCAATATTGTAGACGAAATCGTGTACT-A--A-CACGGTTTTTAGCTAAAAACGCATTCCTG
196 TTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCTG
* * * *
45164 GGCCCCGGCTCTGTTTAGCACGATTTTTGGCGTCTAGTCTGACTGAAATATTTATATTCATATAA
261 GGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGTTTATATTCATCTAA
* * *
45229 CTAAATCCCAGCCACAATT-GATTTAAAGATTTTGTTTAGGAGCATCTGGATTATGTTTCGGTTT
326 CTAAATCCCAGCCAC-ATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTT
* * *
45293 AATT-GAAACTAATTCAAAAAAAATAGGAAAAGCGATACTAGAAGCGTGAAAAGTCCTTTAATCT
390 AATTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGTCCTTCAATCT
* *
45357 TTTTGGCATTGAATTATATTTATTTTATAAGTATTGTAGCTAAAAATTGATGAAAAAACTTTCGT
455 TTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCG-
* *
45422 GTTAATTTTTGTAAAATTTTAGCCAAAAGAGTGTACTAACCATCACGGTTTTTGGGTAAAAACGC
519 GTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGC
* * *
45487 GTTCCAGGGCCCCGGCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTTATT
584 GTTCCGGGGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTCATT
45552 CATGTAAACAAATCT
649 CA--TAAACAAATCT
* * *
45567 CAGCCACATTGGATTTGAGAATTTATTTTTACAAGGATCTGAATCATTTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
45632 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGC
66 ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGC
45697 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATTGAAAAAACTTTCGGGTTAAT
131 GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGA-TGAAAAAACTTTCGGGTTAAT
* *
45762 TTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACGCGTTCCT
195 TTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCT
* * *
45827 GGG-CCCGACTCTGTTTAGCACGATTTTTTGCGGCTAGTCTGACTGAAATGTTTATATGCATCTA
260 GGGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGTTTATATTCATCTA
* * * * *
45891 ACTAAATCCCAGTCATATTCGATTTAAAGATTTTGTTTACAAGCATCTTAATTATGTTTCGATTT
325 ACTAAATCCCAGCCACATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTT
* *
45956 AATTGGAAACTAATTCAAATAATAAAAAAAGAAAAACGATACTAGAAGAC-TGAAAAGTCCTTCA
390 AATTAGAAACTAATTC-AA-AA-AAAAAAGGAAAAACGATACTAGAAG-CGTGAAAAGTCCTTCA
46020 ATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAA-TT
451 ATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTT
46084 TCAGGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAA
516 TC-GGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAA
** * * * * *
46149 ACGCGTTTTGGGGCCCCGGCTCGGTTTGGCAAGATATTTTGGTGTCTAGACTCCTTGAAAT-TCC
580 ACGCGTTCCGGGGCCCCGCCTCGGTTTGGCATGAT-TTTTGGCGCCTAAACTCCTTGAAATAT-C
*
46213 TTCA-TCA-AACCAAATCT
643 TTCATTCATAAACAAATCT
** * * *
46230 CAGCCAGTTTGGATTTATGGATTTATTTTTACGAGTATCTGAATCATCTTTCGATTTAA-TCAGA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACT-AGA
** * * * * *
46294 AATTAATTCAGAA-AAAATGGGAAATACT-ATATCAGAAGCGTGAAAAG-CCTCCCAATTTTTTT
65 AATTAATTCAGAATAAAATAAGAAA-AATGACATTAGAAGCGTGAAAAGCCCT-TCAA-TCTTTT
* * ** * *
46356 TGGCGTTGAATTATATATGTTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTCCGGGTT
127 TGGCGTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTT
* * * * * * *
46421 AATTTTTGCAAAATTTTAGCCGAAATCGAGTTCTAACAATTACGGTTTTTGGCTAAAAACGCGTT
192 AATTTTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT
* * * * * * * * ** * * * * *
46486 CC-GGTACCCCGAATCAGTTTGGTATGATGTTTGGCCCCTAAACT-CCTTCAAATATCTATATTT
257 CCTGG-GCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGAC-TGAAATGTTTATATTC
* * * * * * *
46549 ATGTAAGCT-AATCTCAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTAAATAATCTT
320 ATCTAA-CTAAATCCCAGCCACATTGGATTTAAAGATTT-TGTTTACGAGCATCTGAATTATGTT
* * * * ** * * ** *
46613 TTGATGTAATCATG-AATTAATTCGGAAAAAATAGGGAAAATAATA-TCAGAAACGTGAAAAGTC
383 TCGATTTAATTA-GAAACTAATTCAAAAAAAAAAGGAAAAACGATACT-AGAAGCGTGAAAAGTC
* * ** * * * *
46676 TTTTAATCTTTTTGGTGTTGAATTATATATGTTTTATGAGTATTGTGGCTAAAAATTAAGGAAAA
446 CTTCAATCTTTTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAA
* * * ** * * * * * *
46741 AATTTTTGGGTAAATTTTTCCAAAATTTTAGGCGAAATCGTGTACTAATAATACTATCACGATAT
511 AA-CTTTCGGTTAATTTTTGTAAAATTTTAGCCAAAAGCGTGTAC---T-A-ACCATCACGGTTT
* * * ** * * * **
46806 TTGGCTAAAAACGTGTTTCGGAG-CCCAACTCAGTTTGGCATGATTATTGGCACCTCGACTCCTT
570 TTGGCTAAAAACGCGTTCCGGGGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTT
* * *
46870 GTAATATCTAT-ATTTATGTAAGCAAATCT
635 GAAATATCT-TCATTCA--TAAACAAATCT
* * * ** * *
46899 CAACTACATTTGATTTAAGGATTTATTTTTACGAAAATTTGAATCATCTTTCGATTTAACTAGAA
1 CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
*
46964 ATTAATTC-GAATAAAATAATAAAAATGA
66 ATTAATTCAGAATAAAATAAGAAAAATGA
46992 TAGCCTCTCA
Statistics
Matches: 2398, Mismatches: 285, Indels: 122
0.85 0.10 0.04
Matches are distributed among these distances:
657 35 0.01
658 117 0.05
659 404 0.17
660 153 0.06
661 432 0.18
662 273 0.11
663 444 0.19
664 77 0.03
665 28 0.01
666 123 0.05
667 173 0.07
668 45 0.02
669 92 0.04
670 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (661 bp):
CAGCCACATTGGATTTAAGGATTTATTTTTACGAGGATCTGAATCATTTTTCGATTTAACTAGAA
ATTAATTCAGAATAAAATAAGAAAAATGACATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGC
GTTGAATTATATATATTTTATGAGTATTCTGTATAAAATTTGATGAAAAAACTTTCGGGTTAATT
TTTGCAATATTGTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCTG
GGCCCCGACTCTGTTTAGCACGATTTTTGGCGCCTAGTCTGACTGAAATGTTTATATTCATCTAA
CTAAATCCCAGCCACATTGGATTTAAAGATTTTGTTTACGAGCATCTGAATTATGTTTCGATTTA
ATTAGAAACTAATTCAAAAAAAAAAGGAAAAACGATACTAGAAGCGTGAAAAGTCCTTCAATCTT
TTTGGCATTGAATTATATTTATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAAACTTTCGGT
TAATTTTTGTAAAATTTTAGCCAAAAGCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGT
TCCGGGGCCCCGCCTCGGTTTGGCATGATTTTTGGCGCCTAAACTCCTTGAAATATCTTCATTCA
TAAACAAATCT
Found at i:59891 original size:6 final size:6
Alignment explanation
Indices: 59880--59917 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
59870 GTTAGGCTTC
* *
59880 ATCTTA ATCTTA ATCCTA ATCCTA ATCTTA ATC-TA ATC
1 ATCTTA ATCTTA ATCTTA ATCTTA ATCTTA ATCTTA ATC
59918 CCCCCACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (6 bp):
ATCTTA
Found at i:59907 original size:18 final size:17
Alignment explanation
Indices: 59884--59918 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
59874 GGCTTCATCT
59884 TAATCTTAATCCTAATCC
1 TAATCTTAAT-CTAATCC
59902 TAATCTTAATCTAATCC
1 TAATCTTAATCTAATCC
59919 CCCCACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATCTTAATCTAATCC
Found at i:62452 original size:7 final size:7
Alignment explanation
Indices: 62436--62472 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
62426 CATTGAGCAA
62436 AATAAAT
1 AATAAAT
*
62443 AATAAGT
1 AATAAAT
62450 AATAAAT
1 AATAAAT
62457 AAATAAAT
1 -AATAAAT
62465 AATAAAT
1 AATAAAT
62472 A
1 A
62473 CTTAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:62460 original size:22 final size:22
Alignment explanation
Indices: 62435--62483 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
62425 TCATTGAGCA
*
62435 AAATAAATAATAAGTAATAAAT
1 AAATAAATAATAAATAATAAAT
* *
62457 AAATAAATAATAAATACTTAAT
1 AAATAAATAATAAATAATAAAT
62479 AAATA
1 AAATA
62484 TAAGATATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATAAATAATAAATAATAAAT
Found at i:62468 original size:11 final size:11
Alignment explanation
Indices: 62435--62483 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
62425 TCATTGAGCA
62435 AAATAAATAAT
1 AAATAAATAAT
*
62446 AAGT-AATAAAT
1 AAATAAAT-AAT
62457 AAATAAATAAT
1 AAATAAATAAT
**
62468 AAATACTTAAT
1 AAATAAATAAT
62479 AAATA
1 AAATA
62484 TAAGATATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 3 0.09
11 26 0.81
12 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:90023 original size:15 final size:14
Alignment explanation
Indices: 89972--90064 Score: 58
Period size: 11 Copynumber: 7.1 Consensus size: 14
89962 TTATGATTAG
*
89972 TTTTAATTAGTTAA
1 TTTTAATTAGTTTA
** *
89986 TTAAAATTA-CTTA
1 TTTTAATTAGTTTA
*
89999 GTTT-ATTAGTTTA
1 TTTTAATTAGTTTA
90012 TGTTTAATTAG--TA
1 T-TTTAATTAGTTTA
*
90025 -TCTAATTAGTTTA
1 TTTTAATTAGTTTA
90038 TTATTAATTAG--TA
1 TT-TTAATTAGTTTA
90051 -TTTAATTAGTTTA
1 TTTTAATTAGTTTA
90064 T
1 T
90065 GATTAAAATG
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
11 16 0.28
12 5 0.09
13 14 0.24
14 11 0.19
15 12 0.21
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (14 bp):
TTTTAATTAGTTTA
Found at i:90032 original size:26 final size:26
Alignment explanation
Indices: 90003--90070 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 26
89993 TACTTAGTTT
90003 ATTAGTTTATGTTTAATTAGTATCTA
1 ATTAGTTTATGTTTAATTAGTATCTA
*
90029 ATTAGTTTAT-TATTAATTAGTATTTA
1 ATTAGTTTATGT-TTAATTAGTATCTA
*
90055 ATTAGTTTATGATTAA
1 ATTAGTTTATGTTTAA
90071 AATGAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 1 0.03
26 37 0.97
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.54
Consensus pattern (26 bp):
ATTAGTTTATGTTTAATTAGTATCTA
Found at i:90114 original size:24 final size:24
Alignment explanation
Indices: 90078--90134 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
90068 TAAAATGAAG
*
90078 AAAAATGAATTTGAAG-ATTTGTT
1 AAAAATGAATTTGAAGAAATTGTT
90101 AAAAATGAAGTTTGAAGAAATTGTT
1 AAAAATGAA-TTTGAAGAAATTGTT
*
90126 AGAAATGAA
1 AAAAATGAA
90135 ATTTAGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 9 0.30
24 7 0.23
25 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (24 bp):
AAAAATGAATTTGAAGAAATTGTT
Found at i:92289 original size:23 final size:25
Alignment explanation
Indices: 92249--92297 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
92239 TTACATTATT
*
92249 AAACTTAAACTTAGACTTCTTGTTC
1 AAACTTAAACTTAGACTTCTTCTTC
92274 AAACTT-AA-TTAGACTTCTTCTTC
1 AAACTTAAACTTAGACTTCTTCTTC
92297 A
1 A
92298 TGATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.65
24 2 0.09
25 6 0.26
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (25 bp):
AAACTTAAACTTAGACTTCTTCTTC
Found at i:115647 original size:29 final size:31
Alignment explanation
Indices: 115589--115652 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
115579 AACTTTATGT
*
115589 TTTCCGATTGTACCCTTATTTTTAAAACATA
1 TTTCCAATTGTACCCTTATTTTTAAAACATA
* *
115620 TTTCCAATTGTA-TCTT-TTTTTTAAACATA
1 TTTCCAATTGTACCCTTATTTTTAAAACATA
115649 TTTC
1 TTTC
115653 AAAATTGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 16 0.53
30 3 0.10
31 11 0.37
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTCCAATTGTACCCTTATTTTTAAAACATA
Found at i:115986 original size:22 final size:22
Alignment explanation
Indices: 115961--116015 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
115951 AGGTTATTAT
115961 AATTCCAT-GGGGAGGTTACCAA
1 AATTCCATAGGGGA-GTTACCAA
* *
115983 AATTCCATAGTGTAGTTACCAA
1 AATTCCATAGGGGAGTTACCAA
*
116005 AATTTCATAGG
1 AATTCCATAGG
116016 ATTGGGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (22 bp):
AATTCCATAGGGGAGTTACCAA
Found at i:116066 original size:22 final size:22
Alignment explanation
Indices: 116003--116068 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
115993 TGTAGTTACC
116003 AAAATTTCATAGGATTGGGTTATT
1 AAAATTTCATAGG-TT-GGTTATT
* * *
116027 AAAATTTCTTACGTTGGTTTTT
1 AAAATTTCATAGGTTGGTTATT
* *
116049 GAAATTTCATAGGGTGGTTA
1 AAAATTTCATAGGTTGGTTA
116069 ATTATCACAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 21 0.62
23 2 0.06
24 11 0.32
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (22 bp):
AAAATTTCATAGGTTGGTTATT
Found at i:116236 original size:22 final size:22
Alignment explanation
Indices: 116188--116494 Score: 113
Period size: 22 Copynumber: 13.8 Consensus size: 22
116178 CTTCATCGGG
*
116188 AGGTTATCAAAATTTTATAGTG-
1 AGGTTATCAAAATTTCATA-TGA
*
116210 TGGTTATCAAAATTTCATATGA
1 AGGTTATCAAAATTTCATATGA
*
116232 AGGTTAT-AAAAGTCTCAATTTCAT-A
1 AGGTTATCAAAA-TTTC-A--T-ATGA
* * *
116257 AGGAGTACCAAAATTTGATA-GA
1 AGG-TTATCAAAATTTCATATGA
*
116279 AGGTTATC-AAATATCATA-G-
1 AGGTTATCAAAATTTCATATGA
* *
116298 AGTGATTATCGAAATTTCATAAAGA
1 AG-G-TTATCAAAATTTCAT-ATGA
*
116323 TATGTTTATCAAAATTT-ATATGA
1 -A-GGTTATCAAAATTTCATATGA
*
116346 AGATTATCAAAATTTCATAGTG-
1 AGGTTATCAAAATTTCATA-TGA
** * *
116368 TTGTTATCAAAATTTCA-AAGCG
1 AGGTTATCAAAATTTCATATG-A
*
116390 AGGTTATCAAAATTACATAATG-
1 AGGTTATCAAAATTTCAT-ATGA
* *
116412 TGATTATCAAAATTTCATA-GA
1 AGGTTATCAAAATTTCATATGA
* * * *
116433 GGGGTCAACAAAATTT--TATAA
1 -AGGTTATCAAAATTTCATATGA
* *
116454 AGATGTTATAAAAATTTCATA-AA
1 AG--GTTATCAAAATTTCATATGA
*
116477 GAGGTTATCAAATTTTCA
1 -AGGTTATCAAAATTTCA
116495 AAATGTGATT
Statistics
Matches: 215, Mismatches: 39, Indels: 62
0.68 0.12 0.20
Matches are distributed among these distances:
19 2 0.01
20 15 0.07
21 30 0.14
22 120 0.56
23 10 0.05
24 9 0.04
25 17 0.08
26 7 0.03
27 5 0.02
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
AGGTTATCAAAATTTCATATGA
Found at i:116419 original size:44 final size:44
Alignment explanation
Indices: 116281--116516 Score: 162
Period size: 44 Copynumber: 5.3 Consensus size: 44
116271 TTGATAGAAG
* * * * * *
116281 GTTATC-AAATATCATAGAGTGATTATCGAAATTTCATAAAGATAT
1 GTTATCAAAATTTCAAAGAGAGGTTATCAAAATTTCATAATG--AT
* * * *
116326 GTTTATCAAAATTT-ATATGA-AGATTATCAAAATTTCATAGTGTT
1 G-TTATCAAAATTTCA-AAGAGAGGTTATCAAAATTTCATAATGAT
* *
116370 GTTATCAAAATTTCAAAGCGAGGTTATCAAAATTACATAATG-T
1 GTTATCAAAATTTCAAAGAGAGGTTATCAAAATTTCATAATGAT
* * * * * *
116413 GATTATCAAAATTTCATAGAGGGGTCAACAAAATTTTATAAAGAT
1 G-TTATCAAAATTTCAAAGAGAGGTTATCAAAATTTCATAATGAT
* * *
116458 GTTATAAAAATTTCATAA-AGAGGTTATCAAATTTTCAAAATG-T
1 GTTATCAAAATTTCA-AAGAGAGGTTATCAAAATTTCATAATGAT
116501 GATTA-CAAAAATTTCA
1 G-TTATC-AAAATTTCA
116517 TAGTGGTATT
Statistics
Matches: 150, Mismatches: 31, Indels: 21
0.74 0.15 0.10
Matches are distributed among these distances:
43 18 0.12
44 97 0.65
45 4 0.03
46 24 0.16
47 7 0.05
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (44 bp):
GTTATCAAAATTTCAAAGAGAGGTTATCAAAATTTCATAATGAT
Found at i:116447 original size:88 final size:88
Alignment explanation
Indices: 116353--116519 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 88
116343 TGAAGATTAT
** * * * *
116353 CAAAATTTCATAGTGTTGTTATCAAAATTTCA-AAGCGAGGTTATCAAAATTACATAATGTGATT
1 CAAAATTTCATAAAGATGTTATAAAAATTTCATAA-AGAGGTTATCAAAATTACAAAATGTGATT
116417 ATC-AAAATTTCATAGAGGGGTCAA
65 A-CAAAAATTTCATAGAGGGGTCAA
* * *
116441 CAAAATTTTATAAAGATGTTATAAAAATTTCATAAAGAGGTTATCAAATTTTCAAAATGTGATTA
1 CAAAATTTCATAAAGATGTTATAAAAATTTCATAAAGAGGTTATCAAAATTACAAAATGTGATTA
116506 CAAAAATTTCATAG
66 CAAAAATTTCATAG
116520 TGGTATTTCT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 1 0.01
88 65 0.96
89 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (88 bp):
CAAAATTTCATAAAGATGTTATAAAAATTTCATAAAGAGGTTATCAAAATTACAAAATGTGATTA
CAAAAATTTCATAGAGGGGTCAA
Found at i:116462 original size:66 final size:66
Alignment explanation
Indices: 116346--116494 Score: 156
Period size: 66 Copynumber: 2.3 Consensus size: 66
116336 ATTTATATGA
* ** * * * * *
116346 AGATTATCAAAATTTCATAGTGTTGTTATCAAAATTTCAAAGCGAGGTTATCAAAATTACATAAT
1 AGATTATCAAAATTTCATAGAGGGGTCAACAAAATTTCAAAGAGAGGTTATAAAAATTACATAAA
116411 G
66 G
* * * *
116412 TGATTATCAAAATTTCATAGAGGGGTCAACAAAATTTTATAA-AGATGTTATAAAAATTTCATAA
1 AGATTATCAAAATTTCATAGAGGGGTCAACAAAATTTCA-AAGAGAGGTTATAAAAATTACATAA
116476 AG
65 AG
* *
116478 AGGTTATCAAATTTTCA
1 AGATTATCAAAATTTCA
116495 AAATGTGATT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
66 65 0.97
67 2 0.03
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (66 bp):
AGATTATCAAAATTTCATAGAGGGGTCAACAAAATTTCAAAGAGAGGTTATAAAAATTACATAAA
G
Found at i:116627 original size:20 final size:20
Alignment explanation
Indices: 116602--116648 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
116592 ATGGAGTAAT
116602 CAAAATTTCAGGGAGGATAC
1 CAAAATTTCAGGGAGGATAC
* *
116622 CAAAA-TTCAGTGAGGATAT
1 CAAAATTTCAGGGAGGATAC
116641 CAAAATTT
1 CAAAATTT
116649 TATATGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (20 bp):
CAAAATTTCAGGGAGGATAC
Found at i:116666 original size:22 final size:22
Alignment explanation
Indices: 116638--116932 Score: 140
Period size: 22 Copynumber: 13.5 Consensus size: 22
116628 TCAGTGAGGA
*
116638 TATCAAAATTTTATATGAAGGT
1 TATCAAAATTTCATATGAAGGT
* * **
116660 TATCAAATTTTTATAGTTTA-GT
1 TATCAAAATTTCATA-TGAAGGT
* * *
116682 TTTCAAAATTTCATAAGAGGGT
1 TATCAAAATTTCATATGAAGGT
* *
116704 TATCAAAATTTCATA-GTATGT
1 TATCAAAATTTCATATGAAGGT
* * * *
116725 AGATCAAAATTTCATAGGGAGAT
1 -TATCAAAATTTCATATGAAGGT
*
116748 TAACAAAATTTCATAATG-AGGT
1 TATCAAAATTTCAT-ATGAAGGT
* ** * *
116770 AATCAAAAAATCATATGGAGCT
1 TATCAAAATTTCATATGAAGGT
*
116792 TATCAAAATTT-GTAT--A-GT
1 TATCAAAATTTCATATGAAGGT
* * *
116810 TATCAAGATTTCATAAGAAAGT
1 TATCAAAATTTCATATGAAGGT
* * * *
116832 TATCAAAATTTTATAGGGAGCTT
1 TATCAAAATTTCATATGAAG-GT
* * * *
116855 TATTAAAATTTTATAGGAAGATT
1 TATCAAAATTTCATATGAAG-GT
*
116878 TATCAAAATTTCATA-GCGAGGT
1 TATCAAAATTTCATATG-AAGGT
* * *
116900 TATCACAATTTCATAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
116922 TATCAAAATTT
1 TATCAAAATTT
116933 TAAAGTGTGA
Statistics
Matches: 207, Mismatches: 52, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
18 11 0.05
19 3 0.01
21 10 0.05
22 139 0.67
23 43 0.21
24 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (22 bp):
TATCAAAATTTCATATGAAGGT
Found at i:116939 original size:22 final size:22
Alignment explanation
Indices: 116877--116942 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
116867 ATAGGAAGAT
* * * *
116877 TTATCAAAATTTCATAGCGAGG
1 TTATCAAAATTTCAAAGTGTGA
* *
116899 TTATCACAATTTCATAGTGTGA
1 TTATCAAAATTTCAAAGTGTGA
*
116921 TTATCAAAATTTTAAAGTGTGA
1 TTATCAAAATTTCAAAGTGTGA
116943 CTACTAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (22 bp):
TTATCAAAATTTCAAAGTGTGA
Found at i:117037 original size:23 final size:22
Alignment explanation
Indices: 116983--117038 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
116973 TTTTTATAAA
*
116983 GTGGTTATCAATATATCATATG
1 GTGGTTATCAACATATCATATG
* *
117005 GAGGTTATCAACATCTCATAGTG
1 GTGGTTATCAACATATCATA-TG
*
117028 TTGGTTATCAA
1 GTGGTTATCAA
117039 AATTTCATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (22 bp):
GTGGTTATCAACATATCATATG
Found at i:117069 original size:45 final size:45
Alignment explanation
Indices: 116984--117069 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
116974 TTTTATAAAG
* * *
116984 TGGTTATCAATATATCATATGGAGGTTATCAACATCTCATAGTGT
1 TGGTTATCAAAATATCATATGGAAGTTATCAAAATCTCATAGTGT
* * *
117029 TGGTTATCAAAATTTCAT-TGGGAAGTTTTCAAAATTTCATA
1 TGGTTATCAAAATATCATAT-GGAAGTTATCAAAATCTCATA
117070 TTTAGGTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.03
45 33 0.97
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (45 bp):
TGGTTATCAAAATATCATATGGAAGTTATCAAAATCTCATAGTGT
Found at i:119508 original size:31 final size:31
Alignment explanation
Indices: 119444--119511 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
119434 GAACGTAGCA
* * *
119444 TGCCGCGTGTCACTTTTTGGTACACATGGCG
1 TGCCACGTATCACTTTTTGGTACACATGACG
**
119475 TGCCACGTATCACTTTTTGGTACATGTGACG
1 TGCCACGTATCACTTTTTGGTACACATGACG
119506 TGCCAC
1 TGCCAC
119512 TTTTTGGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.32
Consensus pattern (31 bp):
TGCCACGTATCACTTTTTGGTACACATGACG
Found at i:119512 original size:24 final size:24
Alignment explanation
Indices: 119485--119535 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
119475 TGCCACGTAT
* *
119485 CACTTTTTGGTACATGTGACGTGC
1 CACTTTTTGGCACACGTGACGTGC
*
119509 CACTTTTTGGCACACGTGGCGTGC
1 CACTTTTTGGCACACGTGACGTGC
119533 CAC
1 CAC
119536 ATGTCACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.31
Consensus pattern (24 bp):
CACTTTTTGGCACACGTGACGTGC
Found at i:119556 original size:31 final size:31
Alignment explanation
Indices: 119521--119597 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
119511 CTTTTTGGCA
*
119521 CACGTGGCGTGCCACATGTCACTTTTTTATC
1 CACGTGGCATGCCACATGTCACTTTTTTATC
* ** *
119552 CACGTGGCCTGCCATGTGTTACTTTTTTATC
1 CACGTGGCATGCCACATGTCACTTTTTTATC
119583 CACGTGGCATGCCAC
1 CACGTGGCATGCCAC
119598 GTCGGATACC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.34
Consensus pattern (31 bp):
CACGTGGCATGCCACATGTCACTTTTTTATC
Found at i:119565 original size:55 final size:55
Alignment explanation
Indices: 119454--119565 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
119444 TGCCGCGTGT
* * * * *
119454 CACTTTTTGGTACACATGGCGTGCCACGTATCACTTTTTGGTACATGTGACGTGC
1 CACTTTTTGGCACACATGGCGTGCCACATATCACTTTTTGATACACGTGACCTGC
* * * * *
119509 CACTTTTTGGCACACGTGGCGTGCCACATGTCACTTTTTTATCCACGTGGCCTGC
1 CACTTTTTGGCACACATGGCGTGCCACATATCACTTTTTGATACACGTGACCTGC
119564 CA
1 CA
119566 TGTGTTACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (55 bp):
CACTTTTTGGCACACATGGCGTGCCACATATCACTTTTTGATACACGTGACCTGC
Found at i:124834 original size:3 final size:3
Alignment explanation
Indices: 124826--124851 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
124816 ATTATCAATT
124826 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
124852 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:125853 original size:3 final size:3
Alignment explanation
Indices: 125845--125871 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
125835 GAGGTACTTC
125845 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
125872 TTCCTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:137446 original size:2 final size:2
Alignment explanation
Indices: 137439--137480 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
137429 ATCACTTGTC
137439 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
137481 GGTTTGGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:143593 original size:70 final size:70
Alignment explanation
Indices: 143509--143751 Score: 245
Period size: 70 Copynumber: 3.2 Consensus size: 70
143499 TTGTTTAGGT
*
143509 TTTTA-TAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATATAATATCCTTATAACT
1 TTTTACTA-TTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATATAATATCCTTATAACT
*
143573 ATTTTA
65 ATTATA
*
143579 TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATCTAATATTATCCTTATAG
1 TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATATAATTAAA--T-ATAATATCC-T-TA-
143644 GCTATAGCTATTATA
60 --TA-A-CTATTATA
* *
143659 TTTTACCATTTTACTATTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATCTAATATCCT
1 TTTTA-C---TA----TTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATATAATATCCT
*
143724 TATTACTATTATA
58 TATAACTATTATA
*
143737 TTTTACCATTTTACT
1 TTTTACTATTTTACT
143752 ATTTTAATTA
Statistics
Matches: 145, Mismatches: 9, Indels: 38
0.76 0.05 0.20
Matches are distributed among these distances:
70 49 0.34
71 2 0.01
72 1 0.01
73 8 0.06
74 1 0.01
75 2 0.01
77 1 0.01
78 15 0.10
79 2 0.01
80 13 0.09
81 1 0.01
83 2 0.01
84 2 0.01
85 7 0.05
86 1 0.01
88 38 0.26
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (70 bp):
TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATATAATATCCTTATAACTA
TTATA
Found at i:150380 original size:32 final size:33
Alignment explanation
Indices: 150308--150372 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
150298 TCAAAATAAT
* *
150308 TAAGGAAATTGATAAGGAGAGTATGTTTTGGAA
1 TAAGGAAATTGACAAGGAGAGTATGGTTTGGAA
150341 TAAGGAAATTGACAAGGAGAGTA-GGTTTGGAA
1 TAAGGAAATTGACAAGGAGAGTATGGTTTGGAA
150373 ATTGGAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.40, C:0.02, G:0.32, T:0.26
Consensus pattern (33 bp):
TAAGGAAATTGACAAGGAGAGTATGGTTTGGAA
Found at i:159197 original size:100 final size:100
Alignment explanation
Indices: 159024--159204 Score: 272
Period size: 100 Copynumber: 1.8 Consensus size: 100
159014 TACGACCTAG
* * * * * *
159024 ATGTCATGTATTTTGGAATCACGTGCAGAAGTGCTACGTCGTGGCCTAACGACTAGTACAAGCGT
1 ATGTCATGCATTTTGGAATCACGTGAAGAAGTGCCACGTCATGACCTAACGACTAATACAAGCGT
159089 GTGGAGTTTTATAGGATTAGTACTACCTAGGACTA
66 GTGGAGTTTTATAGGATTAGTACTACCTAGGACTA
* * * *
159124 ATGTCATGCATTTTGGAATCATGTGAAGAAGTGCCACGTCATGATCTAACGGCTAATACGAGCGT
1 ATGTCATGCATTTTGGAATCACGTGAAGAAGTGCCACGTCATGACCTAACGACTAATACAAGCGT
159189 GTGGAGTTTTATAGGA
66 GTGGAGTTTTATAGGA
159205 GTAGGTCGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 71 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (100 bp):
ATGTCATGCATTTTGGAATCACGTGAAGAAGTGCCACGTCATGACCTAACGACTAATACAAGCGT
GTGGAGTTTTATAGGATTAGTACTACCTAGGACTA
Done.