Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 14 of 279
Found at i:4370364 original size:24 final size:24
Alignment explanation
Indices: 4370337--4370733 Score: 303
Period size: 24 Copynumber: 17.0 Consensus size: 24
4370327 CTCCTATTCC
* *
4370337 AGCTTTAGCTTCAGCTTCAGCATT
1 AGCTTTAGCTTCGGCTTCAGCTTT
* **
4370361 AGCTTTTGCTTTAGCTTCAGC-TT
1 AGCTTTAGCTTCGGCTTCAGCTTT
*
4370384 ----TT-CCTTCGGCTTCAGCTTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
** ***
4370403 AGCTTTAGCTTTAGCTTCAGCACC
1 AGCTTTAGCTTCGGCTTCAGCTTT
*
4370427 AGCTTTTGCTTCGGCTTCAGCTTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
4370451 AGCTTTAGCTTCGGCTTCAGCTTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
*
4370475 AGCTTTATCTTCGGCTTCAGCTTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
* * *
4370499 AGCTTCAGCTTCGGCTTTAGCTTC
1 AGCTTTAGCTTCGGCTTCAGCTTT
* *
4370523 AG-TTTCAGCCTCAGCTTTAGCTTCAGCCTT
1 AGCTTT-AGCTTC-G-----GCTTCAGCTTT
* * *
4370553 AGCTTTAGCTTCAGCTTCAGCATG
1 AGCTTTAGCTTCGGCTTCAGCTTT
* *
4370577 AGATTTAGCTTCGGCTTCAGCCTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
*
4370601 AGATTTA------GCTTCAGCTTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
* *
4370619 AGCTTTAGCTTCAGCTTCAACTTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
** *
4370643 AGCTTCGGCTTCAGCCTT-AGCTTT
1 AGCTTTAGCTTC-GGCTTCAGCTTT
*
4370667 A------GCTTCGGCTTCAGCCTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
*
4370685 AGCTTTAGCTTCGGCTTCAGCCTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
4370709 AGCTTTAGCTTCGGCTTCAGCTTT
1 AGCTTTAGCTTCGGCTTCAGCTTT
4370733 A
1 A
4370734 ACTTCATCTT
Statistics
Matches: 298, Mismatches: 47, Indels: 56
0.74 0.12 0.14
Matches are distributed among these distances:
17 4 0.01
18 38 0.13
19 4 0.01
23 6 0.02
24 224 0.75
25 4 0.01
30 15 0.05
31 3 0.01
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (24 bp):
AGCTTTAGCTTCGGCTTCAGCTTT
Found at i:4370383 original size:42 final size:42
Alignment explanation
Indices: 4370337--4370753 Score: 390
Period size: 42 Copynumber: 9.9 Consensus size: 42
4370327 CTCCTATTCC
* * *
4370337 AGCTTTAGCTTCAGCTTCAGCATT-AGCTTTTGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTCAGC-TTCAGCTTTAGCTTTAGCTTC
*** ** *
4370379 AGCTTTTCCTTCGGCTTCAGCTTTAGCTTTAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
** * *
4370421 AGCACCAGCTTTTGCTTCGGCTTCAGCTTTAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
* * * * *
4370463 GGCTTCAGCTTTAGCTTTATCTTCGGCTTCAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
* * * *
4370505 AGCTTCGGCTTTAGCTTCAGTTTCAGCCTCAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
* * *
4370547 AGCCTT-AGCTTTAGCTTCAGCTTCAGCATGAGATTTAGCTTC
1 AG-CTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
* * * *
4370589 GGCTTCAGCCTTAGATTTAGCTTCAGCTTTAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
* * *
4370631 AGCTTCAACTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
* * * * * * *
4370673 GGCTTCAGCCTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTT
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
* * * * *
4370715 AGCTTCGGCTTCAGCTTTAACTTCATCTTTA-CTATTAGC
1 AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCT-TTAGC
4370754 ACTAGCTTTG
Statistics
Matches: 304, Mismatches: 67, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
41 6 0.02
42 295 0.97
43 3 0.01
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (42 bp):
AGCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTC
Found at i:4371858 original size:6 final size:6
Alignment explanation
Indices: 4371849--4371889 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
4371839 CACTACCACC
* * *
4371849 TCCTCT TCCTCT TCCTCT TCCTCC TCCTCC TCTTCT TCCTC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTC
4371890 CACCTCTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
TCCTCT
Found at i:4371873 original size:15 final size:15
Alignment explanation
Indices: 4371847--4371897 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
4371837 ACCACTACCA
4371847 CCTCCTCTTCCT-CT
1 CCTCCTCTTCCTCCT
4371861 --TCCTCTTCCTCCT
1 CCTCCTCTTCCTCCT
*
4371874 CCTCCTCTTCTTCCT
1 CCTCCTCTTCCTCCT
*
4371889 CCACCTCTT
1 CCTCCTCTT
4371898 ACGCCAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 10 0.31
13 2 0.06
15 20 0.62
ACGTcount: A:0.02, C:0.55, G:0.00, T:0.43
Consensus pattern (15 bp):
CCTCCTCTTCCTCCT
Found at i:4372254 original size:15 final size:15
Alignment explanation
Indices: 4372234--4372265 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4372224 ATTACCACCA
4372234 CCACCACCACCTCCT
1 CCACCACCACCTCCT
4372249 CCACCACCACCTCCT
1 CCACCACCACCTCCT
4372264 CC
1 CC
4372266 TCCTCCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.69, G:0.00, T:0.12
Consensus pattern (15 bp):
CCACCACCACCTCCT
Found at i:4372254 original size:18 final size:18
Alignment explanation
Indices: 4372231--4372268 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4372221 TCCATTACCA
4372231 CCACCACCACCACCTCCT
1 CCACCACCACCACCTCCT
*
4372249 CCACCACCACCTCCTCCT
1 CCACCACCACCACCTCCT
4372267 CC
1 CC
4372269 TCCTCCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.68, G:0.00, T:0.13
Consensus pattern (18 bp):
CCACCACCACCACCTCCT
Found at i:4372261 original size:12 final size:12
Alignment explanation
Indices: 4372227--4372262 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4372217 TATGTCCATT
*
4372227 ACCACCACCACC
1 ACCACCACCTCC
*
4372239 ACCACCTCCTCC
1 ACCACCACCTCC
4372251 ACCACCACCTCC
1 ACCACCACCTCC
4372263 TCCTCCTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.67, G:0.00, T:0.08
Consensus pattern (12 bp):
ACCACCACCTCC
Found at i:4372264 original size:3 final size:3
Alignment explanation
Indices: 4372243--4372298 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
4372233 ACCACCACCA
* * * * *
4372243 CCT CCT CCA CCA CCA CCT CCT CCT CCT CCT CCT TCT TCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
*
4372291 CTT CCT CC
1 CCT CCT CC
4372299 GCCAACAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.05, C:0.62, G:0.00, T:0.32
Consensus pattern (3 bp):
CCT
Found at i:4374389 original size:50 final size:50
Alignment explanation
Indices: 4374304--4374399 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
4374294 ACTAATAATG
*
4374304 AAAAAAATATTTATAAAATAAATATATTAAATTTTA-TTTTATTTTTTAT
1 AAAAAAATATTAATAAAATAAATATATTAAATTTTATTTTTATTTTTTAT
* * * *
4374353 AAAAAAATTATTAATAAAATATATTTTTTAATTTTTATTTTTATTTT
1 AAAAAAA-TATTAATAAAATAAATATATTAAATTTTATTTTTATTTT
4374400 AGATTAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 7 0.17
50 24 0.60
51 9 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (50 bp):
AAAAAAATATTAATAAAATAAATATATTAAATTTTATTTTTATTTTTTAT
Found at i:4375825 original size:3 final size:3
Alignment explanation
Indices: 4375817--4375846 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4375807 TTACTGGCAC
*
4375817 AGG AGG AGG AGG AGG AGG AAG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
4375847 TGGTGGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:4376949 original size:444 final size:444
Alignment explanation
Indices: 4376111--4377000 Score: 1200
Period size: 444 Copynumber: 2.0 Consensus size: 444
4376101 GTGGTATAGC
* ** *
4376111 TGGTGGGGGTGGTTTTAAGTTTGGGTTTAGAGGCGGAATGCGAACAGGATTTAGTGGAAATGGTG
1 TGGTGGGGGTGGTTTTAAGTTTGGGTTTAAAGGCGGAATAAGAACAGGATTTAGTGGAAATAGTG
* * * * *
4376176 GTGGAAGTGGTGACACTAATGTTGGTGGAGGGGCTGCAAGCCATGCTGAAGGTGTTGGTAGTGGT
66 GTGGAAGTGGTGACACTAATGTTGGTGGAGAGGCTGCAAGCCAAGCCGAAAGTGTTGGTAATGGT
** * * *
4376241 GCAACTAGTACAAGTGGTAGCCTTAGCGGAGCAAAGAGTAGTGATGAAAAAGCTAGTGATACTCG
131 GCAACTAGTACAAGCAGTAGCCTTAACGGAGCAAAGAGTAGTGATGAAAAAGCTAGTGACACTAG
*** * * * * * *
4376306 TAAGAATGAGGCTAAAGTTGGTTTTGAAGGTAAAGTAGGAGGACAAGGTGAGGTTGGTGGAAATA
196 TAAGAATGAGGCTAAAACAGGTTTTGAAGGTAAAATAAGAGGACAAAGAGAGGTTGGTAGAAACA
*
4376371 ATGGCAGAAGTGGTAGCACTAGTGTTGCTGGCAAGGTAGGAGGGCAAGGTGGAGCTATTGGCAGT
261 ATGGCAGAAGCGGTAGCACTAGTGTTGCTGGCAAGGTAGGAGGGCAAGGTGGAGCTATTGGCAGT
* *
4376436 GGTAGTACTGATGCAAGTGGTACTTATAGCGATGAAAAGGATAATGATGGAAAAATTAGTGCTAC
326 GGTAGTACTGATGCAAGTGGTACTTATAGCAATGAAAAGGATAATGATGGAAAAACTAGTGCTAC
* * * *
4376501 TAGTAAGGGTGAAGCTAAAGATAGGTTTAAAGGTAAAGTAGGAGGGCAAGGAGG
391 TAGTAAGGGTGAAGCTAAAAACAGGTTTAAAGGTAAAATAGGAGGACAAGGAGG
* * *
4376555 TGGTGGGGGTGGTTTTAAGTTTGGGTTTAAAGGCGGAATAAGAGCAGGCTTTGGTGGAAATAGTG
1 TGGTGGGGGTGGTTTTAAGTTTGGGTTTAAAGGCGGAATAAGAACAGGATTTAGTGGAAATAGTG
* * *
4376620 GTGGAAGTGGTGGCACTAATGTTGGTGGAGAGGCTG-GAGATCAAGCCGAAAGTGTTGGTAATGG
66 GTGGAAGTGGTGACACTAATGTTGGTGGAGAGGCTGCAAG-CCAAGCCGAAAGTGTTGGTAATGG
* * *
4376684 TGCAACTAGTACAAGCAGT-GATCTTAACGGATCAAAGAGTAGTGAT-AACAAATCTAGTGACAC
130 TGCAACTAGTACAAGCAGTAG-CCTTAACGGAGCAAAGAGTAGTGATGAA-AAAGCTAGTGACAC
* *
4376747 TAGTAAGAGTGAGGGTAAAACAGGTTTTGAAGGTAAAATAAGAGGACAAAGAGAGGTTGGTAGAA
193 TAGTAAGAATGAGGCTAAAACAGGTTTTGAAGGTAAAATAAGAGGACAAAGAGAGGTTGGTAGAA
* ** * * *
4376812 ACAGTGGTGGAAGCGGTAGCACTAGTGTTGCTGGTAAGGTAGGAGGGCAAGGTGGAGGTGTTGGC
258 ACAATGGCAGAAGCGGTAGCACTAGTGTTGCTGGCAAGGTAGGAGGGCAAGGTGGAGCTATTGGC
* *
4376877 AGTGGTAGTTCTGATGCAAGTGGTA-TTCATAGCAATGAAAAAGG-TAGTGAT-GAAAAAGCTAG
323 AGTGGTAGTACTGATGCAAGTGGTACTT-ATAGCAATG-AAAAGGATAATGATGGAAAAA-CTAG
* * *
4376939 T-TTCACTAGTAAGGGTGAAGCTAAAAACGGGTTTGAAGGTAAAATAGGAGGACAAGGAGG
385 TGCT-ACTAGTAAGGGTGAAGCTAAAAACAGGTTTAAAGGTAAAATAGGAGGACAAGGAGG
4376999 TG
1 TG
4377001 CAGCCAGTGG
Statistics
Matches: 387, Mismatches: 52, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
443 14 0.04
444 367 0.95
445 6 0.02
ACGTcount: A:0.31, C:0.09, G:0.36, T:0.24
Consensus pattern (444 bp):
TGGTGGGGGTGGTTTTAAGTTTGGGTTTAAAGGCGGAATAAGAACAGGATTTAGTGGAAATAGTG
GTGGAAGTGGTGACACTAATGTTGGTGGAGAGGCTGCAAGCCAAGCCGAAAGTGTTGGTAATGGT
GCAACTAGTACAAGCAGTAGCCTTAACGGAGCAAAGAGTAGTGATGAAAAAGCTAGTGACACTAG
TAAGAATGAGGCTAAAACAGGTTTTGAAGGTAAAATAAGAGGACAAAGAGAGGTTGGTAGAAACA
ATGGCAGAAGCGGTAGCACTAGTGTTGCTGGCAAGGTAGGAGGGCAAGGTGGAGCTATTGGCAGT
GGTAGTACTGATGCAAGTGGTACTTATAGCAATGAAAAGGATAATGATGGAAAAACTAGTGCTAC
TAGTAAGGGTGAAGCTAAAAACAGGTTTAAAGGTAAAATAGGAGGACAAGGAGG
Found at i:4377135 original size:24 final size:24
Alignment explanation
Indices: 4377108--4377170 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
4377098 ATTTAGTGCT
*
4377108 TCTCATAATAGTGAAACTAAATCA
1 TCTCATAAAAGTGAAACTAAATCA
4377132 TCTCATAAAAGTGAAACTAAATCA
1 TCTCATAAAAGTGAAACTAAATCA
* *
4377156 TATCATAAGAGTGAA
1 TCTCATAAAAGTGAA
4377171 CACAAAGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (24 bp):
TCTCATAAAAGTGAAACTAAATCA
Found at i:4377380 original size:12 final size:12
Alignment explanation
Indices: 4377359--4377789 Score: 208
Period size: 12 Copynumber: 35.9 Consensus size: 12
4377349 GTGCTAATAG
* *
4377359 TAAAGATAAAGT
1 TAAAGCTAAAGC
4377371 TAAAGCTAAAGC
1 TAAAGCTAAAGC
* *
4377383 TGAAGCTAATGC
1 TAAAGCTAAAGC
* *
4377395 TGAAGCTAATGC
1 TAAAGCTAAAGC
*
4377407 TAAAGCTAATGC
1 TAAAGCTAAAGC
* **
4377419 TGAAGCTAATTC
1 TAAAGCTAAAGC
4377431 TAAAGCTAAAGC
1 TAAAGCTAAAGC
*
4377443 TAATA-CTGAAGC
1 TAA-AGCTAAAGC
*
4377455 TATAGCTAAAGCC
1 TAAAGCTAAAG-C
* * *
4377468 GAAA-CTAATGT
1 TAAAGCTAAAGC
* *
4377479 TAAAGCTAATGT
1 TAAAGCTAAAGC
* *
4377491 TGAAGCTAAAGT
1 TAAAGCTAAAGC
**
4377503 TAAAGCCGAAGC
1 TAAAGCTAAAGC
*
4377515 TAATGCTAAAGC
1 TAAAGCTAAAGC
*
4377527 TAATA-CTGAAGC
1 TAA-AGCTAAAGC
4377539 TAAAGCTAAAGC
1 TAAAGCTAAAGC
** *
4377551 CGAAGCTAATGC
1 TAAAGCTAAAGC
**
4377563 TAAAGCTATGGC
1 TAAAGCTAAAGC
* ***
4377575 TGAAGCCGGAGC
1 TAAAGCTAAAGC
*
4377587 TAAAGCTGAAGC
1 TAAAGCTAAAGC
*
4377599 TAAAGCTAAGGC
1 TAAAGCTAAAGC
* ** *
4377611 TGAAGCCGAAGT
1 TAAAGCTAAAGC
4377623 TAAAGCTAAAGC
1 TAAAGCTAAAGC
*
4377635 -AGAAG-TCGAAGC
1 TA-AAGCT-AAAGC
* *
4377647 TAAAGCTGAGGC
1 TAAAGCTAAAGC
* * **
4377659 TGAATCCGAAGC
1 TAAAGCTAAAGC
*
4377671 TAAATC-AGAAGC
1 TAAAGCTA-AAGC
4377683 TAAAGCTAAAGC
1 TAAAGCTAAAGC
* * *
4377695 TGAGGCTGAAGC
1 TAAAGCTAAAGC
** *
4377707 CGAAGCTAAAGA
1 TAAAGCTAAAGC
* *
4377719 TGAAGCTGAAGC
1 TAAAGCTAAAGC
4377731 TAAAGCTAAAGC
1 TAAAGCTAAAGC
* **
4377743 TGAAGCCGAAGC
1 TAAAGCTAAAGC
*
4377755 TAAAGCTGAAGC
1 TAAAGCTAAAGC
****
4377767 CGTGGCTAAAGC
1 TAAAGCTAAAGC
4377779 TAAAGCTAAAG
1 TAAAGCTAAAG
4377790 TCGAAGGAAA
Statistics
Matches: 316, Mismatches: 91, Indels: 24
0.73 0.21 0.06
Matches are distributed among these distances:
11 7 0.02
12 302 0.96
13 7 0.02
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (12 bp):
TAAAGCTAAAGC
Found at i:4377411 original size:42 final size:42
Alignment explanation
Indices: 4377371--4377766 Score: 323
Period size: 42 Copynumber: 9.4 Consensus size: 42
4377361 AAGATAAAGT
* * *
4377371 TAAAGCTAAAGCTGAAGCTAATGCTGAAGCTAATGCTAAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGC
* * ** ** * *
4377413 TAATGCTGAAGCTAATTCTAAAGCTAAAGCTAATACTGAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGC
* * * *
4377455 TATAGCTAAAGCCGAAACTAATGTTAAAGCTAATGTTGAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGC
* *
4377497 TAAAGTTAAAGCCGAAGCTAATGCTAAAGCTAATACTGAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGC
4377539 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCT-ATGGCTGAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAAT-GCTGAAGC
*** * * * * *
4377581 CGGAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAA-GCCGAAGT
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCT-AATGCTGAAGC
* * * * *
4377623 TAAAGCTAAAGCAGAAGTCGAA-GCTAAAGCTGAGGCTGAATC
1 TAAAGCTAAAGCCGAAG-CTAATGCTAAAGCTAATGCTGAAGC
** * * * * *
4377665 CGAAGCTAAATCAGAAGCTAAAGCTAAAGCTGAGGCTGAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGC
** ** *
4377707 CGAAGCTAAAGATGAAGCTGAA-GCTAAAGCTAAAGCTGAAGC
1 TAAAGCTAAAGCCGAAGCT-AATGCTAAAGCTAATGCTGAAGC
** *
4377749 CGAAGCTAAAGCTGAAGC
1 TAAAGCTAAAGCCGAAGC
4377767 CGTGGCTAAA
Statistics
Matches: 290, Mismatches: 57, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
41 6 0.02
42 278 0.96
43 5 0.02
44 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (42 bp):
TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGC
Found at i:4377579 original size:84 final size:84
Alignment explanation
Indices: 4377371--4377766 Score: 379
Period size: 84 Copynumber: 4.7 Consensus size: 84
4377361 AAGATAAAGT
* * * * * * **
4377371 TAAAGCTAAAGCTGAAGCTAATGCTGAAGCTAATGCTAAAG-CTAATGCTGAAGCTAATTCTAAA
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGCCGAA-GCTAAAGCTGAAGCTAAA
4377435 GCTAAAGCTAATACTGAAGC
65 GCTAAAGCTAATACTGAAGC
* * * * ** * * *
4377455 TATAGCTAAAGCCGAAACTAATGTTAAAGCTAATGTTGAAGCTAAAGTTAAAGCCGAAGCTAATG
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGCCGAAGCTAAAGCTGAAGCTAAAG
4377520 CTAAAGCTAATACTGAAGC
66 CTAAAGCTAATACTGAAGC
*
4377539 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCT-ATGGCTGAAGCCGGAGCTAAAGCTGAAGCTAAA
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAAT-GCTGAAGCCGAAGCTAAAGCTGAAGCTAAA
* * * *
4377603 GCTAAGGCTGAA-GCCGAAGT
65 GCTAAAGCT-AATACTGAAGC
* * * * * * *
4377623 TAAAGCTAAAGCAGAAGTCGAA-GCTAAAGCTGAGGCTGAATCCGAAGCTAAATCAGAAGCTAAA
1 TAAAGCTAAAGCCGAAG-CTAATGCTAAAGCTAATGCTGAAGCCGAAGCTAAAGCTGAAGCTAAA
* **
4377687 GCTAAAGCTGAGGCTGAAGC
65 GCTAAAGCTAATACTGAAGC
** ** *
4377707 CGAAGCTAAAGATGAAGCTGAA-GCTAAAGCTAAAGCTGAAGCCGAAGCTAAAGCTGAAGC
1 TAAAGCTAAAGCCGAAGCT-AATGCTAAAGCTAATGCTGAAGCCGAAGCTAAAGCTGAAGC
4377767 CGTGGCTAAA
Statistics
Matches: 254, Mismatches: 51, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
83 4 0.02
84 242 0.95
85 8 0.03
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (84 bp):
TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGCCGAAGCTAAAGCTGAAGCTAAAG
CTAAAGCTAATACTGAAGC
Found at i:4377767 original size:18 final size:18
Alignment explanation
Indices: 4377573--4377784 Score: 118
Period size: 18 Copynumber: 11.4 Consensus size: 18
4377563 TAAAGCTATG
*
4377573 GCTGAAGCCGGAGCTAAA
1 GCTGAAGCCGAAGCTAAA
** *
4377591 GCTGAAGCTAAAGCTAAG
1 GCTGAAGCCGAAGCTAAA
4377609 GCTGAAGCCGAAGTTAAAGCTAAA
1 GCTGAAGCC---G---AAGCTAAA
* *
4377633 GCAGAAGTCGAAGCTAAA
1 GCTGAAGCCGAAGCTAAA
* * * **
4377651 GCTGAGGCTGAATCCGAA
1 GCTGAAGCCGAAGCTAAA
* * *
4377669 GCTAAATCAGAAGCTAAA
1 GCTGAAGCCGAAGCTAAA
* * * *
4377687 GCTAAAGCTGAGGCTGAA
1 GCTGAAGCCGAAGCTAAA
* ** * *
4377705 GCCGAAGCTAAAGATGAA
1 GCTGAAGCCGAAGCTAAA
**
4377723 GCTGAAGCTAAAGCTAAA
1 GCTGAAGCCGAAGCTAAA
4377741 GCTGAAGCCGAAGCTAAA
1 GCTGAAGCCGAAGCTAAA
**
4377759 GCTGAAGCCGTGGCTAAA
1 GCTGAAGCCGAAGCTAAA
*
4377777 GCTAAAGC
1 GCTGAAGC
4377785 TAAAGTCGAA
Statistics
Matches: 148, Mismatches: 40, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
18 133 0.90
21 1 0.01
24 14 0.09
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.15
Consensus pattern (18 bp):
GCTGAAGCCGAAGCTAAA
Found at i:4378069 original size:30 final size:30
Alignment explanation
Indices: 4378035--4378138 Score: 136
Period size: 30 Copynumber: 3.5 Consensus size: 30
4378025 ACATGGTAGA
4378035 GGTGGCGGTGGTGGTCACATGCATTTTGGT
1 GGTGGCGGTGGTGGTCACATGCATTTTGGT
* * *
4378065 GGTGGTGGTGGTGGCCACATGCATTTTGGC
1 GGTGGCGGTGGTGGTCACATGCATTTTGGT
* * *
4378095 GGCGGCGGTGGTAGTCACATGCATTTTGCT
1 GGTGGCGGTGGTGGTCACATGCATTTTGGT
* *
4378125 GCTGGTGGTGGTGG
1 GGTGGCGGTGGTGG
4378139 AAGTGGTAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.10, C:0.15, G:0.44, T:0.31
Consensus pattern (30 bp):
GGTGGCGGTGGTGGTCACATGCATTTTGGT
Found at i:4378234 original size:129 final size:129
Alignment explanation
Indices: 4378061--4378322 Score: 407
Period size: 129 Copynumber: 2.0 Consensus size: 129
4378051 ACATGCATTT
* *
4378061 TGGTGGTGGTGGTGGTGGCCACATGCATTTTGGCGGCGGCGGTGGTAGTCACATGCATTTTGCTG
1 TGGTGGTGGTGGTGGTAGCCACATGCAGTTTGGCGGCGGCGGTGGTAGTCACATGCATTTTGCTG
* * *
4378126 CTGGTGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTGTAGGTGG
66 CTGGTGGCGGTGGAAGTGGTAGCAGTAATGTTGATGGTGGGGCTAAAGGGCATGGTGAAGGTGG
* * * * * * *
4378190 TGGTGGTGGTGGTGGTAGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCATATGCATTTTGGTG
1 TGGTGGTGGTGGTGGTAGCCACATGCAGTTTGGCGGCGGCGGTGGTAGTCACATGCATTTTGCTG
*
4378255 GTGGTGGCGGTGGAAGTGGTAGCAGTAATGTTGATGGTGGGGCTAAAGGGCATGGTGAAGGTGG
66 CTGGTGGCGGTGGAAGTGGTAGCAGTAATGTTGATGGTGGGGCTAAAGGGCATGGTGAAGGTGG
4378319 TGGT
1 TGGT
4378323 CAAATGCATT
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.15, C:0.09, G:0.47, T:0.30
Consensus pattern (129 bp):
TGGTGGTGGTGGTGGTAGCCACATGCAGTTTGGCGGCGGCGGTGGTAGTCACATGCATTTTGCTG
CTGGTGGCGGTGGAAGTGGTAGCAGTAATGTTGATGGTGGGGCTAAAGGGCATGGTGAAGGTGG
Found at i:4378267 original size:30 final size:30
Alignment explanation
Indices: 4378035--4378267 Score: 130
Period size: 30 Copynumber: 7.5 Consensus size: 30
4378025 ACATGGTAGA
* *
4378035 GGTGGCGGTGGTGGTCACATGCATTTTGGT
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
* * *
4378065 GGTGGTGGTGGTGGCCACATGCATTTTGGC
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
* * * *
4378095 GGCGGCGGTGGTAGTCACATGCATTTTGCTGCT
1 GGTGGTGGTGGTGGTCACATGCAGTTTG--G-T
* *
4378128 GGTGGTGGTGGAAGTGGT-AGCA-GTAGTGTTGAT
1 GGTGGTGGT-G--GTGGTCA-CATGCAGT-TTGGT
*** * ** * *
4378161 GGTGG-GGCTAAAGGGCATGGTGTAGGTGGTGGT
1 GGTGGTGG-TGGTGGTCA-CATGCA-GT-TTGGT
*
4378194 GGTGGTGGTGGTAGTCACATGCAGTTTGGT
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
* *
4378224 GGTGGTGGTGGTGGTCATATGCATTTTGGT
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
*
4378254 GGTGGTGGCGGTGG
1 GGTGGTGGTGGTGG
4378268 AAGTGGTAGC
Statistics
Matches: 154, Mismatches: 36, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
30 97 0.63
31 3 0.02
32 9 0.06
33 29 0.19
34 3 0.02
35 4 0.03
36 9 0.06
ACGTcount: A:0.12, C:0.11, G:0.46, T:0.31
Consensus pattern (30 bp):
GGTGGTGGTGGTGGTCACATGCAGTTTGGT
Found at i:4379997 original size:31 final size:29
Alignment explanation
Indices: 4379962--4380028 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
4379952 GTCATATTTC
*
4379962 GTACTTGCATTTTTATAAAATATCCAATGTG
1 GTACTTGCA-TTTT-GAAAATATCCAATGTG
** *
4379993 GTACTTTTATTTTGAAAATATCTAATGTG
1 GTACTTGCATTTTGAAAATATCCAATGTG
*
4380022 GTGCTTG
1 GTACTTG
4380029 AACTATCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 19 0.63
30 4 0.13
31 7 0.23
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.45
Consensus pattern (29 bp):
GTACTTGCATTTTGAAAATATCCAATGTG
Found at i:4380111 original size:29 final size:29
Alignment explanation
Indices: 4380051--4380140 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
4380041 GTGTATTATT
* * *
4380051 TGGTACCTATACTTTTTTAAAACATCTAATG
1 TGGTACCTATAC--TTTGAAAAAATCCAATG
**
4380082 TGGTACCTATACTTTGAAAATGTCCAATG
1 TGGTACCTATACTTTGAAAAAATCCAATG
* *
4380111 TAGTATCTATACTTTGAAAAAATCCAATG
1 TGGTACCTATACTTTGAAAAAATCCAATG
4380140 T
1 T
4380141 AATACTTGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 39 0.76
31 12 0.24
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (29 bp):
TGGTACCTATACTTTGAAAAAATCCAATG
Found at i:4381140 original size:29 final size:31
Alignment explanation
Indices: 4381107--4381169 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
4381097 TCACATGAAT
4381107 ATTTT-CA-AAACATAAATACCACAAT-TGAC
1 ATTTTACAGAAACATAAATACCA-AATATGAC
* *
4381136 ATTTTATAGAAATATAAATACCAAATATGAC
1 ATTTTACAGAAACATAAATACCAAATATGAC
4381167 ATT
1 ATT
4381170 ATCCCTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 4 0.14
31 20 0.69
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (31 bp):
ATTTTACAGAAACATAAATACCAAATATGAC
Found at i:4381149 original size:90 final size:91
Alignment explanation
Indices: 4380978--4381162 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 91
4380968 TAAGTACCGT
* * * * *
4380978 AATAATACACAAATTGATAGTTTAAGCATCACATTGAACATTTTTAAAATATAAATACTACATCA
1 AATAACACACAAATTAATAGTTTAAGCATCACATTGAACATTTTCAAAACATAAATACCACATCA
4381043 GACATTTTACAAAAATATAAATACCA
66 GACATTTTACAAAAATATAAATACCA
* * *
4381069 AATAACACATAAATTAATAGTTTAAGTATCACA-TGAATATTTTCAAAACATAAATACCACAAT-
1 AATAACACACAAATTAATAGTTTAAGCATCACATTGAACATTTTCAAAACATAAATACCAC-ATC
* * *
4381132 TGACATTTTATAGAAATATAAATACCA
65 AGACATTTTACAAAAATATAAATACCA
4381159 AATA
1 AATA
4381163 TGACATTATC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
90 51 0.62
91 31 0.38
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (91 bp):
AATAACACACAAATTAATAGTTTAAGCATCACATTGAACATTTTCAAAACATAAATACCACATCA
GACATTTTACAAAAATATAAATACCA
Found at i:4394140 original size:12 final size:12
Alignment explanation
Indices: 4394125--4394154 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4394115 ACAATAATAC
4394125 TATATATAAATG
1 TATATATAAATG
*
4394137 TATATATATATG
1 TATATATAAATG
4394149 TATATA
1 TATATA
4394155 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:4394260 original size:19 final size:17
Alignment explanation
Indices: 4394236--4394282 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
4394226 AATTAAAGTA
*
4394236 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
4394255 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
4394272 AT-AAAAATATA
1 ATAAAAAATATA
4394283 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:4394278 original size:18 final size:19
Alignment explanation
Indices: 4394239--4394287 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
4394229 TAAAGTAATA
*
4394239 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
4394257 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
4394274 AAAAATATACACTA
1 AAAAATATATACTA
4394288 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:4394514 original size:3 final size:3
Alignment explanation
Indices: 4394501--4394586 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
4394491 GAGGGCATAT
4394501 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
4394545 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4394587 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4394527 original size:18 final size:18
Alignment explanation
Indices: 4394506--4394586 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
4394496 CATATATAAT
4394506 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
4394524 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
4394545 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
4394563 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
4394580 ATAATAA
1 ATAATAA
4394587 AACAAAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 5 0.09
20 5 0.09
21 11 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:4394952 original size:23 final size:23
Alignment explanation
Indices: 4394917--4394989 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
4394907 CCTTTTTTAC
*
4394917 AAAAAAA-CACCTCCAAAAAACA
1 AAAAAAACCTCCTCCAAAAAACA
4394939 AAAAAAACCTCCTCC--AAAACA
1 AAAAAAACCTCCTCCAAAAAACA
* * *
4394960 AAGAACAATCCTTCTCCAAAAAACC
1 AA-AA-AAACCTCCTCCAAAAAACA
4394985 AAAAA
1 AAAAA
4394990 CCCACCCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 8 0.19
22 9 0.21
23 16 0.38
24 2 0.05
25 7 0.17
ACGTcount: A:0.60, C:0.29, G:0.01, T:0.10
Consensus pattern (23 bp):
AAAAAAACCTCCTCCAAAAAACA
Found at i:4394957 original size:21 final size:21
Alignment explanation
Indices: 4394915--4394980 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
4394905 AACCTTTTTT
**
4394915 ACAAAAAAACACCTCC-AAAAA
1 ACAAAAAAA-ACCTCCTCCAAA
4394936 ACAAAAAAAACCTCCTCCAAA
1 ACAAAAAAAACCTCCTCCAAA
* *
4394957 ACAAAGAACAATCCTTCTCCAAA
1 ACAAA-AA-AAACCTCCTCCAAA
4394980 A
1 A
4394981 AACCAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 17 0.45
22 2 0.05
23 13 0.34
ACGTcount: A:0.58, C:0.30, G:0.02, T:0.11
Consensus pattern (21 bp):
ACAAAAAAAACCTCCTCCAAA
Found at i:4395739 original size:48 final size:48
Alignment explanation
Indices: 4395677--4395845 Score: 198
Period size: 48 Copynumber: 3.6 Consensus size: 48
4395667 TGATATGTGT
*
4395677 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
* * * * ** ** *
4395725 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCATTAAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
* * *
4395771 GCTAGTGTAAGATATGTCTAGGATATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
*
4395819 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
4395846 GCGTCAACTT
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
46 33 0.35
47 2 0.02
48 59 0.63
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
Found at i:4395968 original size:49 final size:49
Alignment explanation
Indices: 4395865--4395995 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
4395855 TGTTGCGTGT
* *
4395865 TAGTGTAAGACTTGTTTAGGACATGGCATCGACACTGATAGATGAGAGC
1 TAGTGTAAGACTTGTTTGGGACATGGCATCGACACTGATAGATGAAAGC
* * * * *
4395914 TAGTGTAAGACTTATTTGGGACACGGCATCGGC-CTCTATATATGAAAG-
1 TAGTGTAAGACTTGTTTGGGACATGGCATCGACACT-GATAGATGAAAGC
* * *
4395962 TCAGTGTAAAACCTGTCTGGGACATGGCATCGAC
1 T-AGTGTAAGACTTGTTTGGGACATGGCATCGAC
4395996 TTTGATGTGC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.04
49 64 0.96
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (49 bp):
TAGTGTAAGACTTGTTTGGGACATGGCATCGACACTGATAGATGAAAGC
Found at i:4396864 original size:330 final size:330
Alignment explanation
Indices: 4396256--4396919 Score: 1265
Period size: 330 Copynumber: 2.0 Consensus size: 330
4396246 TATCTATGTA
*
4396256 TTTTACGTGAAGTATGAAATGTGAATTCAATCAACATTGTATGCTTGGTGAGAGATGATTATGAA
1 TTTTACATGAAGTATGAAATGTGAATTCAATCAACATTGTATGCTTGGTGAGAGATGATTATGAA
4396321 CAATTAATATTTATGAATCCTCACTTTCGTGCGCAAATTGAGTTATGTTAGGAGTATGATCCTTT
66 CAATTAATATTTATGAATCCTCACTTTCGTGCGCAAATTGAGTTATGTTAGGAGTATGATCCTTT
4396386 ATGGTAACTTATAGCTATTTCATTATTTACATGCTACTTACTAAGCTTTATGCTTACCCATTTTA
131 ATGGTAACTTATAGCTATTTCATTATTTACATGCTACTTACTAAGCTTTATGCTTACCCATTTTA
* *
4396451 CTTTCCATTTCCTTGTAGTGCCGCCAAATTAGCCTGTGGATCAGATACCATTAGAGGCCTCGTTC
196 CTTTCCATTTCCTTGTAGTGCCGCCAAATTAGCCCGTGGATCAGATACCATCAGAGGCCTCGTTC
4396516 ACACTATCATTTGAAGCACTTGGTATAGTTAGTTCTTTTATTTTGATTATGGCATGTATAGGACT
261 ACACTATCATTTGAAGCACTTGGTATAGTTAGTTCTTTTATTTTGATTATGGCATGTATAGGACT
4396581 TTGTC
326 TTGTC
*
4396586 TTTTACATGAAGTATGAAATGTGGATTCAATCAACATTGTATGCTTGGTGAGAGATGATTATGAA
1 TTTTACATGAAGTATGAAATGTGAATTCAATCAACATTGTATGCTTGGTGAGAGATGATTATGAA
*
4396651 CAATTAATATTTATGAATCCTCACTTTCGTGCGTAAATTGAGTTATGTTAGGAGTATGATCCTTT
66 CAATTAATATTTATGAATCCTCACTTTCGTGCGCAAATTGAGTTATGTTAGGAGTATGATCCTTT
*
4396716 ATGGTAACTTGTAGCTATTTCATTATTTACATGCTACTTACTAAGCTTTATGCTTACCCATTTTA
131 ATGGTAACTTATAGCTATTTCATTATTTACATGCTACTTACTAAGCTTTATGCTTACCCATTTTA
4396781 CTTTCCATTTCCTTGTAGTGCCGCCAAATTAGCCCGTGGATCAGATACCATCAGAGGCCTCGTTC
196 CTTTCCATTTCCTTGTAGTGCCGCCAAATTAGCCCGTGGATCAGATACCATCAGAGGCCTCGTTC
*
4396846 ACACTATCATTTGAAGCACTTGGTATAGTTAGTTCTTTTATTTTTATTATGGCATGTATAGGACT
261 ACACTATCATTTGAAGCACTTGGTATAGTTAGTTCTTTTATTTTGATTATGGCATGTATAGGACT
4396911 TTGTC
326 TTGTC
4396916 TTTT
1 TTTT
4396920 GAGTTTTCTA
Statistics
Matches: 327, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
330 327 1.00
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (330 bp):
TTTTACATGAAGTATGAAATGTGAATTCAATCAACATTGTATGCTTGGTGAGAGATGATTATGAA
CAATTAATATTTATGAATCCTCACTTTCGTGCGCAAATTGAGTTATGTTAGGAGTATGATCCTTT
ATGGTAACTTATAGCTATTTCATTATTTACATGCTACTTACTAAGCTTTATGCTTACCCATTTTA
CTTTCCATTTCCTTGTAGTGCCGCCAAATTAGCCCGTGGATCAGATACCATCAGAGGCCTCGTTC
ACACTATCATTTGAAGCACTTGGTATAGTTAGTTCTTTTATTTTGATTATGGCATGTATAGGACT
TTGTC
Found at i:4416119 original size:21 final size:21
Alignment explanation
Indices: 4416078--4416119 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4416068 GTTGAGAAAA
* *
4416078 TTATTTAATTTAAAATTTAAT
1 TTATTTAAATTAAAATATAAT
4416099 TTATTTAAATTAATAA-ATAAT
1 TTATTTAAATTAA-AATATAAT
4416120 ATTTATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTTAAATTAAAATATAAT
Found at i:4417030 original size:15 final size:18
Alignment explanation
Indices: 4417010--4417045 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
4417000 TTATTATTTT
4417010 ATTTTTT-T-ATT-TTAA
1 ATTTTTTATAATTATTAA
4417025 ATTTTTTATAATTATTAA
1 ATTTTTTATAATTATTAA
4417043 ATT
1 ATT
4417046 CTAAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 1 0.06
17 3 0.17
18 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTATAATTATTAA
Found at i:4417261 original size:19 final size:19
Alignment explanation
Indices: 4417214--4417253 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4417204 ATTATTTAAC
4417214 TTATCTTTGAATTAATAAA
1 TTATCTTTGAATTAATAAA
4417233 TTATCTTTGAATTAATAAA
1 TTATCTTTGAATTAATAAA
4417252 TT
1 TT
4417254 CTTTTTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
TTATCTTTGAATTAATAAA
Found at i:4417755 original size:19 final size:19
Alignment explanation
Indices: 4417731--4417769 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4417721 ATACTAAAAG
4417731 TAAGAAAATTAGTTTTGAT
1 TAAGAAAATTAGTTTTGAT
4417750 TAAGAAAATTAGTTTTGAT
1 TAAGAAAATTAGTTTTGAT
4417769 T
1 T
4417770 CTATGTTTGA
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:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAGAAAATTAGTTTTGAT
Found at i:4419905 original size:46 final size:47
Alignment explanation
Indices: 4419752--4419976 Score: 151
Period size: 46 Copynumber: 4.8 Consensus size: 47
4419742 GGGTTATTGT
* * * * *
4419752 GAGCTAGTGTAAGACATGTCTGGGACAT-GCACCAGCCA-C-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATC-GGCATCGA-GACGA
*
4419798 GAGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAGACGA
* * * *
4419846 GTGCTAGTATAAGACATGT-TCGGGACAT-GCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCT-GGGACATGGCATCGGCATCGAGACG-A
** * * *
4419893 -AGCCAGTGTAAGACATGGATAGGACAT-GCATTGGC-TACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCAT-CGAGACGA
* ** * *
4419938 TAGTTAGTGTAAGACCATGTCTGGGATATGACATCGGCA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
4419977 CCCTACCCCA
Statistics
Matches: 141, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.01
46 73 0.52
47 41 0.29
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGACGA
Found at i:4421618 original size:32 final size:32
Alignment explanation
Indices: 4421582--4421645 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
4421572 TACTAAGTGG
*
4421582 TATTACATGGTCAAATTGTAATATGGAAATAT
1 TATTAAATGGTCAAATTGTAATATGGAAATAT
*
4421614 TATTAAATGGTCGAATTGTAATATGGAAATAT
1 TATTAAATGGTCAAATTGTAATATGGAAATAT
4421646 AACTTGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.38
Consensus pattern (32 bp):
TATTAAATGGTCAAATTGTAATATGGAAATAT
Found at i:4430613 original size:21 final size:22
Alignment explanation
Indices: 4430583--4430625 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
4430573 CATGATTTTG
4430583 TTTTATTTCTTTTCTTTTTGAA
1 TTTTATTTCTTTTCTTTTTGAA
4430605 TTTT-TTTCTTTTCTTTTTGAA
1 TTTTATTTCTTTTCTTTTTGAA
4430626 AATTTCCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTATTTCTTTTCTTTTTGAA
Found at i:4433950 original size:21 final size:22
Alignment explanation
Indices: 4433904--4433950 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
4433894 TGCAAGGCTC
**
4433904 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
4433926 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
4433947 ACAC
1 ACAC
4433951 ACCTGTGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:4435243 original size:56 final size:58
Alignment explanation
Indices: 4435152--4435301 Score: 166
Period size: 56 Copynumber: 2.6 Consensus size: 58
4435142 TAGTGTATAA
* * *
4435152 CAGGATTACCAGTCCAGGCTAAATCCTTTCTATAACGTATGCTCAA-AGAGT-TCA-AT
1 CAGGATTACCAGTCCAGGCTAAACCCTATCTATAACGTATACTCAAGAG-GTATCATAT
* * *
4435208 TAGGATTACCAGTCCAGGCTAAACCCTAATC-ATAACGTATACTCGAGAGGTATTATAT
1 CAGGATTACCAGTCCAGGCTAAACCCT-ATCTATAACGTATACTCAAGAGGTATCATAT
* *
4435266 CAGGATTACCCGTCCAGGCTAAATCCT-TCCTATAAC
1 CAGGATTACCAGTCCAGGCTAAACCCTAT-CTATAAC
4435302 AAGGTCAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
56 41 0.52
57 7 0.09
58 31 0.39
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGGCTAAACCCTATCTATAACGTATACTCAAGAGGTATCATAT
Found at i:4446541 original size:13 final size:13
Alignment explanation
Indices: 4446523--4446550 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4446513 GAAGCACGAC
4446523 TCACACGGGCGTG
1 TCACACGGGCGTG
4446536 TCACACGGGCGTG
1 TCACACGGGCGTG
4446549 TC
1 TC
4446551 CCTGTCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:4449559 original size:55 final size:55
Alignment explanation
Indices: 4449489--4449608 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 55
4449479 GCTAACCTGC
* *
4449489 CAAAATAACACGGGCGTGCGACACACCCGTGCCTTGAAACCGTGGCCGAACCCGT
1 CAAATTAACACGGGCGTGCGACACACCCGTGCCTAGAAACCGTGGCCGAACCCGT
* * * * * * * *
4449544 CAAATTAACACGGGCGTTCGACACGCCCTTGTCTAGCACCCGTGGTCGAACCTGT
1 CAAATTAACACGGGCGTGCGACACACCCGTGCCTAGAAACCGTGGCCGAACCCGT
*
4449599 TAAATTAACA
1 CAAATTAACA
4449609 AGTGCATGGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.28, C:0.32, G:0.23, T:0.18
Consensus pattern (55 bp):
CAAATTAACACGGGCGTGCGACACACCCGTGCCTAGAAACCGTGGCCGAACCCGT
Found at i:4450170 original size:16 final size:16
Alignment explanation
Indices: 4450149--4450180 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4450139 TGGTTAGGAT
4450149 AGTTGAAATAATCATG
1 AGTTGAAATAATCATG
4450165 AGTTGAAATAATCATG
1 AGTTGAAATAATCATG
4450181 CCTTTTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AGTTGAAATAATCATG
Found at i:4460428 original size:18 final size:18
Alignment explanation
Indices: 4460407--4460450 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
4460397 ATAATCAGTA
4460407 ATTCAGTAACAGTCAAAT
1 ATTCAGTAACAGTCAAAT
* *
4460425 ATTCAGTAGCAGTCAATT
1 ATTCAGTAACAGTCAAAT
4460443 ATTCAGTA
1 ATTCAGTA
4460451 TCTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (18 bp):
ATTCAGTAACAGTCAAAT
Found at i:4460678 original size:51 final size:53
Alignment explanation
Indices: 4460566--4460684 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 53
4460556 CTGTAACGGT
* * ***
4460566 AACAGTAATAGTAACAGTAGCGGTACATAGAGTACCTCATCGGAACAAATTTGG
1 AACAGTAACAGTAACAGTAGAGGTA-ATAGAGTACCTCATCGGAACAAATCCAG
* **
4460620 AACAGTAACAGTAACAGTA-AGGT-ATAGAGTACCTCTTCGGAATGAATCCAG
1 AACAGTAACAGTAACAGTAGAGGTAATAGAGTACCTCATCGGAACAAATCCAG
*
4460671 AATAGTAACAGTAA
1 AACAGTAACAGTAA
4460685 AGCGACAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
51 35 0.62
53 3 0.05
54 18 0.32
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTAGAGGTAATAGAGTACCTCATCGGAACAAATCCAG
Found at i:4461952 original size:16 final size:16
Alignment explanation
Indices: 4461928--4461971 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
4461918 TTTAATTTGT
*
4461928 TTAATAATATAATATAA
1 TTAATAATATAAT-CAA
4461945 TT-ATAATATAATCAA
1 TTAATAATATAATCAA
4461960 TTAATAATATAA
1 TTAATAATATAA
4461972 AATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 4 0.16
16 19 0.76
17 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAATAATATAATCAA
Found at i:4473941 original size:14 final size:16
Alignment explanation
Indices: 4473917--4473948 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4473907 TTAAAAGAAC
4473917 ATTTCTTAAAA-CCAA
1 ATTTCTTAAAACCCAA
4473932 ATTT-TTAAAACCCAA
1 ATTTCTTAAAACCCAA
4473947 AT
1 AT
4473949 CCATAGCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTTCTTAAAACCCAA
Found at i:4483066 original size:31 final size:29
Alignment explanation
Indices: 4482997--4483066 Score: 68
Period size: 31 Copynumber: 2.3 Consensus size: 29
4482987 GGGTACAAGT
* * *
4482997 TTTTTTTTTATTCTAATTTGATATTTGAG
1 TTTTTTTTAATTCTAATTTAATATTTGAA
* *
4483026 TTTAATTTTAATGTTTAATTTAATATTTGAAA
1 TTT-TTTTTAAT-TCTAATTTAATATTTG-AA
4483058 TTTTTTTTA
1 TTTTTTTTA
4483067 TTAAGTAGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 3 0.09
30 6 0.19
31 19 0.59
32 4 0.12
ACGTcount: A:0.27, C:0.01, G:0.07, T:0.64
Consensus pattern (29 bp):
TTTTTTTTAATTCTAATTTAATATTTGAA
Found at i:4485357 original size:15 final size:15
Alignment explanation
Indices: 4485339--4485368 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4485329 GTACCATCTA
*
4485339 AATATGTTCTTGAAT
1 AATATGTCCTTGAAT
4485354 AATATGTCCTTGAAT
1 AATATGTCCTTGAAT
4485369 GGGCTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (15 bp):
AATATGTCCTTGAAT
Found at i:4486993 original size:33 final size:33
Alignment explanation
Indices: 4486939--4487030 Score: 121
Period size: 33 Copynumber: 2.7 Consensus size: 33
4486929 GGTTCTGGGC
* *
4486939 TAGGCCGTGTGGGTCATACGGGCAAGGCCAAATA
1 TAGG-CGTGTGGGCCACACGGGCAAGGCCAAATA
*
4486973 TAGGTGTGTGGGCCACACGGGCAAGGCCAAATA
1 TAGGCGTGTGGGCCACACGGGCAAGGCCAAATA
* *
4487006 TGGGCGTGTGGGCCTACATGGGCAA
1 TAGGCGTGTGGGCC-ACACGGGCAA
4487031 ACCACACGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
33 38 0.75
34 13 0.25
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (33 bp):
TAGGCGTGTGGGCCACACGGGCAAGGCCAAATA
Found at i:4487509 original size:19 final size:19
Alignment explanation
Indices: 4487481--4487524 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4487471 ATTTTGGCAT
* *
4487481 ATCTGCTATCTGAATCTGA
1 ATCTGATATCTAAATCTGA
4487500 ATCTGATATCTAAATCTGA
1 ATCTGATATCTAAATCTGA
*
4487519 GTCTGA
1 ATCTGA
4487525 AATTAAGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (19 bp):
ATCTGATATCTAAATCTGA
Found at i:4491977 original size:79 final size:82
Alignment explanation
Indices: 4491866--4492050 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
4491856 GCTACTCGTT
* *
4491866 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
4491929 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
4491946 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
4492009 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
4492026 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4492051 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:4492050 original size:40 final size:40
Alignment explanation
Indices: 4491847--4492050 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
4491837 CGGAATTTAA
** *
4491847 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
4491887 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
4491927 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
4491966 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
4492006 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
4492046 CCGGA
1 CCGGA
4492051 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:4500674 original size:23 final size:23
Alignment explanation
Indices: 4500648--4500721 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
4500638 TTGAATTGGC
4500648 TTGTAAATGATATGTGTTTGGTT
1 TTGTAAATGATATGTGTTTGGTT
** * *
4500671 TTGTTTATAGCTATGTGAATTGG-T
1 TTGTAAAT-GATATGTG-TTTGGTT
4500695 TTGTAAATGATATGTGTTTGGTT
1 TTGTAAATGATATGTGTTTGGTT
4500718 TTGT
1 TTGT
4500722 TTATAGCTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 14 0.35
25 4 0.10
ACGTcount: A:0.20, C:0.01, G:0.26, T:0.53
Consensus pattern (23 bp):
TTGTAAATGATATGTGTTTGGTT
Found at i:4500685 original size:24 final size:24
Alignment explanation
Indices: 4500658--4500734 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
4500648 TTGTAAATGA
4500658 TATGTGTTTGGTTTTGTTTATAGC
1 TATGTGTTTGGTTTTGTTTATAGC
* ** *
4500682 TATGTGAATTGG-TTTGTAAAT-GA
1 TATGTG-TTTGGTTTTGTTTATAGC
4500705 TATGTGTTTGGTTTTGTTTATAGC
1 TATGTGTTTGGTTTTGTTTATAGC
4500729 TATGTG
1 TATGTG
4500735 AATTGGCTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 4 0.10
23 14 0.33
24 20 0.48
25 4 0.10
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.53
Consensus pattern (24 bp):
TATGTGTTTGGTTTTGTTTATAGC
Found at i:4500692 original size:47 final size:47
Alignment explanation
Indices: 4500639--4500743 Score: 201
Period size: 47 Copynumber: 2.2 Consensus size: 47
4500629 TTTAGCCATT
4500639 TGAATTGGCTTGTAAATGATATGTGTTTGGTTTTGTTTATAGCTATG
1 TGAATTGGCTTGTAAATGATATGTGTTTGGTTTTGTTTATAGCTATG
*
4500686 TGAATTGGTTTGTAAATGATATGTGTTTGGTTTTGTTTATAGCTATG
1 TGAATTGGCTTGTAAATGATATGTGTTTGGTTTTGTTTATAGCTATG
4500733 TGAATTGGCTT
1 TGAATTGGCTT
4500744 ATTTTTTCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.21, C:0.04, G:0.26, T:0.50
Consensus pattern (47 bp):
TGAATTGGCTTGTAAATGATATGTGTTTGGTTTTGTTTATAGCTATG
Found at i:4514351 original size:3 final size:3
Alignment explanation
Indices: 4514327--4514370 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
4514317 TATACTAAAG
4514327 AAT AAT ATAT AAT -AT AGA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
4514371 AAGGCTAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 3 0.08
3 30 0.81
4 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4518855 original size:694 final size:690
Alignment explanation
Indices: 4517458--4519357 Score: 2131
Period size: 694 Copynumber: 2.7 Consensus size: 690
4517448 GGTGATACAA
* * * * * * *
4517458 GTTAGATTTGCCGTTAGAGTTAGAGAAGATTCATAATGTATTCCACATATCGAT-TCTATGACGG
1 GTTAGCTTTGCCATCAGAGTTAGAAAAGATTCATAATGTATTCAACATACCGATGT-TAAG-CGG
* * * * * *
4517522 TAT-AGATCAGATCTTTCACAGGTAATATCCCCAGTTGATGTTGGAATTCAACCTGATACGACAT
64 TATCA-ATTAGATCCTGCACAGGTAATATCCCCAGTTGATGTTAGAATTCAACCTAATATG--A-
* * * *
4517586 ACAGTGAAGAACAGATCAAAATTATATCTCAGGAAGTTAAATATTTGAGAAATCAAGGTATAGCT
125 ACAGTGAAG-A-TGATCAAAACTATATCTCAGGAAGTTAAAGATTTGAGAAATAAAGGTATAGCT
* ** * * * *
4517651 TTAGTTAAAGGTCTTTGGTAATGACACAGAATCAGAGAGGTTGCCTGGGAACCAGAAGAAGCTAT
188 TTAGTTAAAGTTCTTTGGTAACAACACGGAATAAAAGAGGATGCCTGGGAACCAGAAGAAGCTAT
* * * *
4517716 GAAAGTGCAATACTTAAACTTATTTTTTGGTAAGATACTCAGGGACGAAACTTCCCTTAGGGGGA
253 GAAAGTGCAA-ACTTGAACTTATTTTCTGGTAAGATATTAAGGGACGAAA-TT-CCTTAGGGGGA
** * *
4517781 GTTTTGTAACAGCGCGTTTGTAGTGAAGTTGGAGAAGTGGTTTCGGGACCACAAA-TCTGACGAA
315 GAGTTGTAACAGC-CGTTTATAGTGAA-TTGG-GAAGTGGTTTCGAGACCACAAATTC-GACGAA
* ** ** * *
4517845 GCTTTATAGGGTCAAAAGTGTCGAATTTTGA-TATAATAGAAAGAGCTGAGCGAGAAAAAGTT-T
376 GCTTTGTAGGGTTGAAAGTGTCGAA-TTCCATTATAATGGAAAGAGCTGAGCAAGAAAAAGTTAT
* * * * * *
4517908 TCCTGTGTTGATTTGATTTGAGAAACCGAAGAGAAGTTCAAAGTGATATGTGATAGCTTGAAAGT
440 T--TGTGTTGATTTGATTTGAGAAACTGAAGAAAAGGTCAAAGTGATACGTGATAACTTGAAAGC
* * * * *
4517973 AGCTTTTGATTGACATAAATCTTACACAGATTTGAAAAGAAAAGATATTGAATTTCAAGTGGCGT
503 AGCTTTTGATCGACAAAAATCTTACACAGATCTGAAAAGAAAAGATATTGAATTTCAAGTAGCGA
* *
4518038 CATAGTATTTTTTGAAAGTATTGCCTTGGAAGAAAATTCTTTGATTTGGTCAAATGGAAAGCTTA
568 CACAGTATTTTTTGAAAGTATTGCCTTGGAAGAAAATTCTTTGATTTGGTCAAAAGGAAAGCTTA
** * * **
4518103 GTTTATGGTTTATCTGGCCATTTGAGATCATTGGGAGAACTAGGCTAGTATTTTATTG
633 GTTTATGGTTTATCAAGCCATTTGAGATCATTGAGAGAACTAGGCCAGTAGCTTATTG
* * * * * * *
4518161 GTTATCTTTTCCATTAGAGTTAGAAACGATTCATAATTTATTCAACGTATCGATGTTAAGTCGGT
1 GTTAGCTTTGCCATCAGAGTTAGAAAAGATTCATAATGTATTCAACATACCGATGTTAAG-CGGT
** * * *
4518226 ATCGGTTAGATTCTGCACGGGTAATATCCCCAGTTGATG-TAGACATTCAACCTGATATG-AC-G
65 ATCAATTAGATCCTGCACAGGTAATATCCCCAGTTGATGTTAGA-ATTCAACCTAATATGAACAG
* * * *
4518288 T-ACAG-T-ATCAGAACTATATCTCAAGAAGTTAAAGAATTGAGAAATAAAAGTATAGCTTTAGT
129 TGA-AGATGATCAAAACTATATCTCAGGAAGTTAAAGATTTGAGAAATAAAGGTATAGCTTTAGT
* * * * * * * *
4518350 TAAAGTTCTTTGGCAACAACACGGAATAAAAGAAGATGCATAGGAACCAAAAAAAGATATGAAAT
193 TAAAGTTCTTTGGTAACAACACGGAATAAAAGAGGATGCCTGGGAACCAGAAGAAGCTATGAAAG
* * **
4518415 TGCAACACTTGAGCTTATTTTCTGGTAAGATTTTTGGGGACGAATATTCCTATAGGGGGAGAGTT
258 TGCAA-ACTTGAACTTATTTTCTGGTAAGATATTAAGGGACGAA-ATTCCT-TAGGGGGAGAGTT
* *
4518480 GTAATAGCCATTT-TCAGTGGAATTGGGATAGTGGTTTCGAGACCACAAATTCGACGAAGCTTTG
320 GTAACAGCCGTTTAT-AGT-GAATTGGGA-AGTGGTTTCGAGACCACAAATTCGACGAAGCTTTG
* * * * *
4518544 TATGGTTGAAAGTGTCGAAGTCCATTATACTGGACAGAGTTGAGCAAGAAAAAGTTATTTGGTGT
382 TAGGGTTGAAAGTGTCGAATTCCATTATAATGGAAAGAGCTGAGCAAGAAAAAGTTATTT-GTGT
* * *
4518609 TGATTTGATTTGAGAAACTGAAGAAAAGGTCAAACTGATACATGATAACTTGACAGCAG-TTTTG
446 TGATTTGATTTGAGAAACTGAAGAAAAGGTCAAAGTGATACGTGATAACTTGAAAGCAGCTTTT-
* *
4518673 GATCGATAAAAATCTTACGCTA-ATCTGAAAAGAAAAGATATTGAATTTCAAGTAAGCGACACAG
510 GATCGACAAAAATCTTACAC-AGATCTGAAAAGAAAAGATATTGAATTTCAAGT-AGCGACACAG
* *
4518737 TA-TTTTTGAAAGTGTTGCCTTGGAAGAAAGTTCTTTGATTTGGTCGAAAAGGAAAGCTTAGTTT
573 TATTTTTTGAAAGTATTGCCTTGGAAGAAAATTCTTTGATTTGGTC-AAAAGGAAAGCTTAGTTT
* * *
4518801 GTGGTTTATCAAGCCATTTGAGATCATTGAGAGAATTGGGCCAGTAGCTTATTG
637 ATGGTTTATCAAGCCATTTGAGATCATTGAGAGAACTAGGCCAGTAGCTTATTG
* *
4518855 GTTAGCTTTGCCATCAGAGTTAGAAAAGATTCATAATGTATTCCACATACCGATGTTACGCGGTA
1 GTTAGCTTTGCCATCAGAGTTAGAAAAGATTCATAATGTATTCAACATACCGATGTTAAGCGGTA
* * * *
4518920 TCAATTAGATCCTTCACATGTAATATCCCCTGTTGATGTTGGAATTCAACCTAATATGATAAACA
66 TCAATTAGATCCTGCACAGGTAATATCCCCAGTTGATGTTAGAATTCAACCTAATATG---AACA
* * * *
4518985 GTGAAGAACTGATCAAAATTCTAGCTCAGGAAGTGAAAGATTTGAGAAATAAAGGTATAGCTTTA
128 GTGAAG-A-TGATCAAAACTATATCTCAGGAAGTTAAAGATTTGAGAAATAAAGGTATAGCTTTA
* * * *
4519050 GTTAAAGTTCTTTGGTAACAACATGAAATTAAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAA
191 GTTAAAGTTCTTTGGTAACAACACGGAATAAAAGAGGATGCCTGGGAACCAGAAGAAGCTATGAA
* *
4519115 AGTGCAGAAATTGAACTTATTTTCTAGTAAGATATTAAGGGACGAAAATTCCTTTAGGGGGAGAG
256 AGTGCA-AACTTGAACTTATTTTCTGGTAAGATATTAAGGGACG-AAATTCC-TTAGGGGGAGAG
* * * * * *
4519180 TTGTAACAGCCCGTTTATAGTGAAATCAGAGCAGTGGTTT-TAGGACCAAAAATTCGACAAAGCT
318 TTGTAACAG-CCGTTTATAGTG-AAT-TGGGAAGTGGTTTCGA-GACCACAAATTCGACGAAGCT
* * *
4519244 TTGTAGGGTTGAAAGTGTCAAATTCCATTAAAATGGAAATAGCTGAGCAAGAAAAAGTTATTTCG
379 TTGTAGGGTTGAAAGTGTCGAATTCCATTATAATGGAAAGAGCTGAGCAAGAAAAAGTTATTT-G
4519309 TGTTGATTTGATTTGAGAAACTGAAGAAAAGGTCAAAGTGATACGTGAT
443 TGTTGATTTGATTTGAGAAACTGAAGAAAAGGTCAAAGTGATACGTGAT
4519358 TGTAACATCC
Statistics
Matches: 1001, Mismatches: 160, Indels: 72
0.81 0.13 0.06
Matches are distributed among these distances:
692 10 0.01
693 277 0.28
694 288 0.29
695 1 0.00
697 3 0.00
698 8 0.01
699 3 0.00
701 1 0.00
702 164 0.16
703 242 0.24
704 4 0.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (690 bp):
GTTAGCTTTGCCATCAGAGTTAGAAAAGATTCATAATGTATTCAACATACCGATGTTAAGCGGTA
TCAATTAGATCCTGCACAGGTAATATCCCCAGTTGATGTTAGAATTCAACCTAATATGAACAGTG
AAGATGATCAAAACTATATCTCAGGAAGTTAAAGATTTGAGAAATAAAGGTATAGCTTTAGTTAA
AGTTCTTTGGTAACAACACGGAATAAAAGAGGATGCCTGGGAACCAGAAGAAGCTATGAAAGTGC
AAACTTGAACTTATTTTCTGGTAAGATATTAAGGGACGAAATTCCTTAGGGGGAGAGTTGTAACA
GCCGTTTATAGTGAATTGGGAAGTGGTTTCGAGACCACAAATTCGACGAAGCTTTGTAGGGTTGA
AAGTGTCGAATTCCATTATAATGGAAAGAGCTGAGCAAGAAAAAGTTATTTGTGTTGATTTGATT
TGAGAAACTGAAGAAAAGGTCAAAGTGATACGTGATAACTTGAAAGCAGCTTTTGATCGACAAAA
ATCTTACACAGATCTGAAAAGAAAAGATATTGAATTTCAAGTAGCGACACAGTATTTTTTGAAAG
TATTGCCTTGGAAGAAAATTCTTTGATTTGGTCAAAAGGAAAGCTTAGTTTATGGTTTATCAAGC
CATTTGAGATCATTGAGAGAACTAGGCCAGTAGCTTATTG
Found at i:4520653 original size:45 final size:41
Alignment explanation
Indices: 4520575--4520673 Score: 108
Period size: 45 Copynumber: 2.3 Consensus size: 41
4520565 AATATGTGTT
* ** * *
4520575 TTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATATATGTTA
1 TTCGTGTAAGACCACGTCTAGGACATTGACATCG-TAT-T-TGA
*
4520619 TTACGTGTAAGACCATGTCTAGGACATTGACATCGTATTTGA
1 TT-CGTGTAAGACCACGTCTAGGACATTGACATCGTATTTGA
4520661 TTCGTGTAAGACC
1 TTCGTGTAAGACC
4520674 CTATCTGAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
41 11 0.23
42 4 0.08
43 1 0.02
44 5 0.10
45 27 0.56
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
TTCGTGTAAGACCACGTCTAGGACATTGACATCGTATTTGA
Found at i:4549607 original size:702 final size:700
Alignment explanation
Indices: 4548096--4551568 Score: 3763
Period size: 702 Copynumber: 4.9 Consensus size: 700
4548086 GGGTGTTATA
* * *
4548096 GGGAACCACAAGAAGCTATGAAAGTGCAATAGTT-AACTTATTTTCTAGTAAGATTTTTTGGGAT
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTTTTAGGGAT
* * * * * * *
4548160 AAAAATTCCTTTTGGGGGGAGAATTGTAATAGCCCATTTTCAGTGTAGACGGAACAATGGTTTCC
66 GAAAATTCC-TTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTC-GAATAATGGTTTCC
* * * * *
4548225 TGACCATAAATTCGATGAAGCTTTGTA-GAGTCGAAAGTGTCGAAAGTGTCAAATTTCTTTATAA
129 TGACCACAAATTCAACGAAGCTTTGTATG-GTCGAAAGTGTCG-AA---T----TTT-GTTATAC
* * * * * * *
4548289 TGGATAGAACTGAGTGAGAAAAAGTTATTAGGTGTTGATTTGATTTGAGAAACCTAAGAAAA-AG
184 TGGACAGAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTAAGAAATC-AA-AAAATGG
* * *
4548353 TCAAAGTGATACATGATAGCTTGGAAGCAGTTTTGGATCAATAAAAATCTTACGCTGATTTGAAA
247 TCAAAGTGATACGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACG-TGATTTGAAA
* * * *
4548418 AGAAAAGATATTGAATTTCAAGTCAACAACATATTATTTCTGAAAGTATTGCCTTGGAAGAAATT
311 AGAAAAGATATTGAATTTCAAGTC-ACGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGT
* * *
4548483 TCTTTGATTTGGTCAAAAAGGAAAGCCTT-TTCCGTGGTTTATC-AGGCCGTTTGAGATCATTGA
375 TCTTTGATTTGGTCGAAAAGGAAAG-CTTAGTCTGTGGTTTATCGA-GCCGTTTGAGATCATTGA
* * * *
4548546 GAGAATTGGGCCAATAACTTATTGGTTAGCTTTGTCGTCA-ATGTTAGAAAAGATTCATAATGTA
438 GAGAATTGGGCTAGTAGCTTATTGGTTAGCTTTGCCGTCAGA-GTTAGAAAAGATTCATAATGTA
* * *
4548610 TTCCACATATCGATGTTACGACAGTATCAATTATATCCTTCACAAGTAATATCCCAAGTTGATGT
502 TTCCACATATCGATGTTACGATAGTATCAATTAGATCCTTCACAGGTAATATCCCAAGTTGATGT
* *
4548675 TGGAATTCAACCTGATATGACATACAGTGAATG-ACTGATCAAAATTCTAGCTCGGGAAGTTAAA
567 TGAAATTCAACCTGATATGACGTACAGTGAA-GAACTGATCAAAATTCTAGCTCGGGAAGTTAAA
* * * * * ** *
4548739 TATTTGAGAAATAAAGGTATAACTTTAGTTAAAGTTCTCTGGTAATGACATGGAATCGAAGAGG-
631 GAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGAGGC
4548803 TTGCCT
696 TT-CCT
** * * * ** * *
4548809 AAGAACCAGAAAAAGCTATGAAAGTGCAATACTTGAATTTATTTTCTGGTAAGATGCTCAAGGAT
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTTTTAGGGAT
* * * * * * *
4548874 GAAAATTTCTTTAGGGGAAGAGTCGTAACAACCCGTTTGT-AGTGAAGTCAGAGTAATGGTTTCA
66 GAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTT-TCAGTGAAGTC-GAATAATGGTTTCC
* * * * * *
4548938 GGACCACAAATTCAATGAAGCTTTGTAGGGTCGAAAGTGTCAAATTTTGTTATAGTGGATAGAGC
129 TGACCACAAATTCAACGAAGCTTTGTATGGTCGAAAGTGTCGAATTTTGTTATACTGGACAGAGC
*
4549003 TGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTTAGAAATCAAATAAATGGTCAAAGTGATA
194 TGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTAAGAAATCAAA-AAATGGTCAAAGTGATA
** * * *
4549068 CGTGATAGCTTGAAAAAAGCTTTGGATTGATAGAAATCTTACGTAGATTTGAAAAG-AAAGATAT
258 CGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGT-GATTTGAAAAGAAAAGATAT
* * * * * *
4549132 TGAATTTCAAGTGATGACATAGTATTTTTGAAAGCATTGCCTTGGAAGGAAGTTCTTTGATTTGG
322 TGAATTTCAAGTCACGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTGG
* * ** *
4549197 TCTAAAAGGAAAGCTTAGTATGTGGTTTATTAAGCCGTTTGAGATCATTGAGAGAATTGAGCTAG
387 TCGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGGCTAG
* * * * * *
4549262 TAGTTTATCGATTAACTTTGCTGTCAGAGTTAGAAAAGATTCATAATGTATTCAACATATCGATG
452 TAGCTTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACATATCGATG
* * ** * * * *
4549327 TTATGATGGTATCAATCGGATCC-TAAGCAGGTAATATCCTAATTTGATGTTGACATTCAACCTG
517 TTACGATAGTATCAATTAGATCCTTCA-CAGGTAATATCCCAAGTTGATGTTGAAATTCAACCTG
* * * * *
4549391 ATATGATGTATAGTGAAGAACCGATCAGAATTCTAGCTCGGAAAGTTAAAGAATTGAGAAATAAA
581 ATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAATAAA
* *
4549456 AGTATAGCTTTAGTTAAATTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCTT
646 AGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCCT
* * * * *
4549511 GGGAACCAGAAGAAGTTATGAAAGTGCAATACTTGAGCTTATTTTCTGGTAAGATTTTTGGGGAC
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTTTTAGGGAT
* ** * * * * ***
4549576 GAAAATTCCTTTAGGGGGAGAGTTGTAACAACCTGTTTTCTGTGAAATCGGGATAGTGGTTTTGA
66 GAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTC-GAATAATGGTTTCCT
* * * * * *
4549641 GACCACAAATTCAACAAAGCTTTGTATGGTCAAAAGTTTCGAATTCTGTTATATTGGACAGAGGT
130 GACCACAAATTCAACGAAGCTTTGTATGGTCGAAAGTGTCGAATTTTGTTATACTGGACAGAGCT
* * *
4549706 GAGCGAGAAAAAGTTATTCAGTGTTGATTTGATTCAAGAAACTGAAAAAA-GGAT-AAAGTGATA
195 GAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTAAGAAA-TCAAAAAATGG-TCAAAGTGATA
* * * * *
4549769 CATGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATGTTACCCTGATTTAAAAAGAAAATATAT
258 CGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTA-CGTGATTTGAAAAGAAAAGATAT
* * *
4549834 TGGATTTGAAGTCGGCGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTG
322 TGAATTTCAAGTC-ACGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTG
* * * * ** * * *
4549899 ATTGAAAAGGAAAACTTAGTTTGTGGTTTATCGAGATGTTTGAAATTATTAAGAGAATTGGGCTA
386 GTCGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGGCTA
* * * * * * ***
4549964 GTAGCTTATCGGTTAGCTTTGGCATAAGACG-TAGGAAAGATTCATAATGTATACCGTGTATCGA
451 GTAGCTTATTGGTTAGCTTTGCCGTCAGA-GTTAGAAAAGATTCATAATGTATTCCACATATCGA
** * *
4550028 TGTTACGAT-GATATTGATTAGATCCTTCACATGTAATATCCCCAA-TTGATGTTGAAATGCAAC
515 TGTTACGATAG-TATCAATTAGATCCTTCACAGGTAATAT-CCCAAGTTGATGTTGAAATTCAAC
* * * *
4550091 CTAATATGACGTACAGTGAAGAACTTATCACAATTCTAGCTTGGGAAGTTAAAGAATTGAGAAAT
578 CTGATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAAT
* * * ** *
4550156 AAAACTATAGCTTTAGCTAAAGTTCTCTAGCAATGACATGGAATAGAAGAGGCTGCCT
643 AAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCCT
* * * * * *
4550214 GGGAACTAGAAGAAGCTTTGAAAGTGTAATAGTTGAACTTATTTTCTAGTAAGATTTTTTGGAAT
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTTTTAGGGAT
* * * *
4550279 GAAAATTCCTTTAAGGGGAGAGTTGTAATAGCCCATTTTCAGTGAAGTCGAAACAAAGGTTTCCT
66 GAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCG-AATAATGGTTTCCT
* ** * * *
4550344 GATCACAAACCCAACGAAGCTTTGCATGGTCGAAAGTGTCGAATTTCGTTAAACTGGACAGAGCT
130 GACCACAAATTCAACGAAGCTTTGTATGGTCGAAAGTGTCGAATTTTGTTATACTGGACAGAGCT
* * * * * * *
4550409 AAGCGAGAAAAAGTTATTCAGTGTTGACTTGATTTAAAAAATCGAAGAATAGGTTAAAGTGATAC
195 GAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTAAGAAATCAAAAAAT-GGTCAAAGTGATAC
* * * * *
4550474 GTGATAGCTTGAAAGAAATTTTGGATCAATAAAAATCTTATGCTGATTTGAAAAGAAAAGATCTT
259 GTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACG-TGATTTGAAAAGAAAAGATATT
* *
4550539 GAATTTCAAGTCAGCGACACAGT-TTTCTGAAAGTATTG-TTTAGGAAGAAAGTTCTTTGATTTT
323 GAATTTCAAGTCA-CGACACAGTATTTCTGAAAGTATTGCCTT-GGAAGAAAGTTCTTTGATTTG
* * * * * * * *
4550602 TTCGAAAAAGAAAGCTTAGTCTGTGGTTTATTGGGCCGCTTGAGATGATTGAGAGATTTGGGCCA
386 GTCGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGGCTA
* * * *
4550667 GTAACTTATTTGTTAGCTTTACCATCAGAGTTAGAAAAGATTCATAATGTATTCCACATATCGAT
451 GTAGCTTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACATATCGAT
* * * * * * *
4550732 GTTATGACAGTATCGATCAGATACTTCACAGGTAATATCCCCAGTTGATATTGAAATTCAACCTG
516 GTTACGATAGTATCAATTAGATCCTTCACAGGTAATATCCCAAGTTGATGTTGAAATTCAACCTG
* * * * *
4550797 ATATGACATATAGTGAAGAACTGGTCAAAATTCTAGCTCGGGAAGTTAAAGATTTGATAAAT-AA
581 ATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAATAAA
* * * * * *
4550861 AG-GTCGCTTTAGTTAAAGTTCGT-TGGTAATGACACAGAATCGAAGAAGCTTTCT
646 AGTATAGCTTTAGTTAAAGTTC-TCTGGCAATGACACAGAATAGAAGAGGCTTCCT
* * * * **** * * *
4550915 GGGAAACAGAAGTAGCTATTAAAGTGCAATACTTGAACTTATTTTCTATTAAGATACACAAGAAC
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTTTTAGGGAT
** ** * *
4550980 GAAAATTCCTTTAAAGGGAGAGTTGTAACAGTGCATTTTCAGTGAAGTCAGAATAGTGGTTTCTT
66 GAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTC-GAATAATGGTTTCCT
* * * ** * * * *
4551045 GACCACAAA-TCTGACGAAGTTTTCTATGGTTAAAAGTGTTGGATTTCGTTATACTAGACAGAGC
130 GACCACAAATTC-AACGAAGCTTTGTATGGTCGAAAGTGTCGAATTTTGTTATACTGGACAGAGC
* * * *
4551109 TGAGCGAGAAAAAGTTTTTCGGTGTTGATTTGATTTGAGGAACTGAAAAAATGGTCAAAGTGATA
194 TGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTT-AAGAAATCAAAAAATGGTCAAAGTGATA
* * * *
4551174 CGTGATAGTTTGAAAGCAGTTTTGGATCGACAAAAATCTTATGCAGATTTGAAAAGAAAAGATAT
258 CGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACG-TGATTTGAAAAGAAAAGATAT
* * * *
4551239 TGAATTTCAAGTCAGTGACACGGTATTTCTAAAAGTATTGCCTTGGAATAAAGTTCTTTGATTTG
322 TGAATTTCAAGTCA-CGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTG
* * * *
4551304 GCCGAAAAGGAAAGCTTAGTCCGTGGTTTATCGTGCTGTTTGAGATCATTGAGAGAATTGGGCTA
386 GTCGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGGCTA
* * * **
4551369 GTAGCTTATTGGTTAGCTTAGCCGTCAGAGTTAGAAGATATTCATAATGTATTCCATGTATCGAT
451 GTAGCTTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACATATCGAT
* * * *
4551434 GTTACAACT-GTATCAATTAGATCCTTTATAGGTAATATCTCC-AGTTGATTTTGAAATTCAACC
516 GTTACGA-TAGTATCAATTAGATCCTTCACAGGTAATATC-CCAAGTTGATGTTGAAATTCAACC
* * * *
4551497 TTATATGACGTACAGTGAAGAACCGATCAGAATTCTAGCTCGAGAAGTTAAAGAATTGAGAAATA
579 TGATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAATA
4551562 AAAGTAT
644 AAAGTAT
4551569 CGATTCTGTT
Statistics
Matches: 2297, Mismatches: 421, Indels: 93
0.82 0.15 0.03
Matches are distributed among these distances:
700 1 0.00
701 380 0.17
702 795 0.35
703 772 0.34
704 206 0.09
705 3 0.00
709 1 0.00
712 2 0.00
713 105 0.05
714 32 0.01
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (700 bp):
GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTTTTAGGGAT
GAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCGAATAATGGTTTCCTG
ACCACAAATTCAACGAAGCTTTGTATGGTCGAAAGTGTCGAATTTTGTTATACTGGACAGAGCTG
AGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTAAGAAATCAAAAAATGGTCAAAGTGATACGT
GATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGTGATTTGAAAAGAAAAGATATTGAA
TTTCAAGTCACGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTGGTCGA
AAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGGCTAGTAGC
TTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACATATCGATGTTAC
GATAGTATCAATTAGATCCTTCACAGGTAATATCCCAAGTTGATGTTGAAATTCAACCTGATATG
ACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAATAAAAGTAT
AGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCCT
Found at i:4550167 original size:703 final size:703
Alignment explanation
Indices: 4548096--4551568 Score: 3638
Period size: 703 Copynumber: 4.9 Consensus size: 703
4548086 GGGTGTTATA
* * * *** * *
4548096 GGGAACCACAAGAAGCTATGAAAGTGCAATAGTT-AACTTATTTTCTAGTAAGATTTTTTGGGAT
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTCTCAAGAAC
* ** * * * * * * * * *
4548160 AAAAATTCCTTTTGGGGGGAGAATTGTAATAGCCCATTTTCAGTGTAGACGGAACAATGGTTTCC
66 GAAAATTCC-TTTAAGGGGAGAGTTGTAACAACCCGTTTTCAGTGAAGTCGAAATAATGGTTTTC
* * * * * * *
4548225 TGACCATAAATTCGATGAAGCTTTGTA-GAGTCGAAAGTGTCGAAAGTGTCAAATTTCTTTATAA
130 AGACCACAAATTCAACGAAGCTTTGTATG-GTCAAAAGTGTCG-AA-T-TC-----T-GTTATAC
* * * * *
4548289 TGGATAGAACTGAGTGAGAAAAAGTTATT-AGGTGTTGATTTGATTTGAGAAACCT-AAGAAAAA
185 TGGACAGAGCTGAGCGAGAAAAAGTTATTCA-GTGTTGATTTGATTTAAGAAA-CTGAA-AAAAG
* * *
4548352 GTCAAAGTGATACATGATAGCTTGGAAGCAGTTTTGGATCAATAAAAATCTTACGCTGATTTGAA
247 GTCAAAGTGATACGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGCTGATTTGAA
* * * * *
4548417 AAGAAAAGATATTGAATTTCAAGTCAACAACATATTATTTCTGAAAGTATTGCCTTGGAAGAAAT
312 AAGAAAAGATATTGAATTTCAAGTCAGCGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAG
** * *
4548482 TTCTTTGATTTGGTCAAAAAGGAAAGCCTT-TTCCGTGGTTTATC-AGGCCGTTTGAGATCATTG
377 TTCTTTGATTTGGTTGAAAAGGAAAG-CTTAGTCTGTGGTTTATCGA-GCCGTTTGAGATCATTG
* * * *
4548545 AGAGAATTGGGCCAATAACTTATTGGTTAGCTTTGTCGTCA-ATGTTAGAAAAGATTCATAATGT
440 AGAGAATTGGGCTAGTAGCTTATTGGTTAGCTTTGCCGTCAGA-GTTAGAAAAGATTCATAATGT
* * *
4548609 ATTCCACATATCGATGTTACGA-CAGTATCAATTATATCCTTCACAAGTAATAT-CCCAAGTTGA
504 ATTCCACATATCGATGTTACGATGA-TATCAATTAGATCCTTCACAGGTAATATCCCCAA-TTGA
* *
4548672 TGTTGGAATTCAACCTGATATGACATACAGTGAATG-ACTGATCAAAATTCTAGCTCGGGAAGTT
567 TGTTGAAATTCAACCTGATATGACGTACAGTGAA-GAACTGATCAAAATTCTAGCTCGGGAAGTT
* * * * * ** *
4548736 AAATATTTGAGAAATAAAGGTATAACTTTAGTTAAAGTTCTCTGGTAATGACATGGAATCGAAGA
631 AAAGAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGA
4548801 GG-TTGCCT
696 GGCTT-CCT
** * * * * * *
4548809 AAGAACCAGAAAAAGCTATGAAAGTGCAATACTTGAATTTATTTTCTGGTAAGATGCTCAAGGAT
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTCTCAAGAAC
* * *
4548874 GAAAATTTCTTT-AGGGGAAGAGTCGTAACAACCCGTTTGT-AGTGAAGTC-AGAGTAATGG-TT
66 GAAAATTCCTTTAAGGGG-AGAGTTGTAACAACCCGTTT-TCAGTGAAGTCGA-AATAATGGTTT
* * * * * * *
4548935 TCAGGACCACAAATTCAATGAAGCTTTGTAGGGTCGAAAGTGTCAAATTTTGTTATAGTGGATAG
128 TCA-GACCACAAATTCAACGAAGCTTTGTATGGTCAAAAGTGTCGAATTCTGTTATACTGGACAG
* * *
4549000 AGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTTAGAAA-TCAAATAAATGGTCAAAGT
192 AGCTGAGCGAGAAAAAGTTATTCAGTGTTGATTTGATTTAAGAAACTGAAA-AAA-GGTCAAAGT
** * * *
4549064 GATACGTGATAGCTTGAAAAAAGCTTTGGATTGATAGAAATCTTACG-TAGATTTGAAAAG-AAA
255 GATACGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGCT-GATTTGAAAAGAAAA
* * * * * *
4549127 GATATTGAATTTCAAGTGA-TGACATAGTATTTTTGAAAGCATTGCCTTGGAAGGAAGTTCTTTG
319 GATATTGAATTTCAAGTCAGCGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTG
* **
4549191 ATTTGGTCT-AAAAGGAAAGCTTAGTATGTGGTTTATTAAGCCGTTTGAGATCATTGAGAGAATT
384 ATTTGGT-TGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATT
* * * * * * *
4549255 GAGCTAGTAGTTTATCGATTAACTTTGCTGTCAGAGTTAGAAAAGATTCATAATGTATTCAACAT
448 GGGCTAGTAGCTTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACAT
* * ** * * *
4549320 ATCGATGTTATGATGGTATCAATCGGATCC-TAAGCAGGTAATAT-CCTAATTTGATGTTGACAT
513 ATCGATGTTACGATGATATCAATTAGATCCTTCA-CAGGTAATATCCCCAA-TTGATGTTGAAAT
* * * * *
4549383 TCAACCTGATATGATGTATAGTGAAGAACCGATCAGAATTCTAGCTCGGAAAGTTAAAGAATTGA
576 TCAACCTGATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGA
* *
4549448 GAAATAAAAGTATAGCTTTAGTTAAATTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCTT
641 GAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCCT
* * * * *** *
4549511 GGGAACCAGAAGAAGTTATGAAAGTGCAATACTTGAGCTTATTTTCTGGTAAGATTTTTGGGGAC
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTCTCAAGAAC
* * * * ** * *
4549576 GAAAATTCCTTTAGGGGGAGAGTTGTAACAACCTGTTTTCTGTGAAATCGGGATAGTGGTTTTGA
66 GAAAATTCCTTTAAGGGGAGAGTTGTAACAACCCGTTTTCAGTGAAGTCGAAATAATGGTTTTCA
* * * *
4549641 GACCACAAATTCAACAAAGCTTTGTATGGTCAAAAGTTTCGAATTCTGTTATATTGGACAGAGGT
131 GACCACAAATTCAACGAAGCTTTGTATGGTCAAAAGTGTCGAATTCTGTTATACTGGACAGAGCT
*
4549706 GAGCGAGAAAAAGTTATTCAGTGTTGATTTGATTCAAGAAACTGAAAAAAGGAT-AAAGTGATAC
196 GAGCGAGAAAAAGTTATTCAGTGTTGATTTGATTTAAGAAACTGAAAAAAGG-TCAAAGTGATAC
* * * * *
4549770 ATGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATGTTACCCTGATTTAAAAAGAAAATATATT
260 GTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGCTGATTTGAAAAGAAAAGATATT
* * * *
4549835 GGATTTGAAGTCGGCGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTGA
325 GAATTTCAAGTCAGCGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTGG
* * ** * * *
4549900 TTGAAAAGGAAAACTTAGTTTGTGGTTTATCGAGATGTTTGAAATTATTAAGAGAATTGGGCTAG
390 TTGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGGCTAG
* * * * * * ***
4549965 TAGCTTATCGGTTAGCTTTGGCATAAGACG-TAGGAAAGATTCATAATGTATACCGTGTATCGAT
455 TAGCTTATTGGTTAGCTTTGCCGTCAGA-GTTAGAAAAGATTCATAATGTATTCCACATATCGAT
** * * *
4550029 GTTACGATGATATTGATTAGATCCTTCACATGTAATATCCCCAATTGATGTTGAAATGCAACCTA
519 GTTACGATGATATCAATTAGATCCTTCACAGGTAATATCCCCAATTGATGTTGAAATTCAACCTG
* * *
4550094 ATATGACGTACAGTGAAGAACTTATCACAATTCTAGCTTGGGAAGTTAAAGAATTGAGAAATAAA
584 ATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAATAAA
* * * ** *
4550159 ACTATAGCTTTAGCTAAAGTTCTCTAGCAATGACATGGAATAGAAGAGGCTGCCT
649 AGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCCT
* * * * * *** *
4550214 GGGAACTAGAAGAAGCTTTGAAAGTGTAATAGTTGAACTTATTTTCTAGTAAGATTTTTTGGAAT
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTCTCAAGAAC
* * * * * * *
4550279 GAAAATTCCTTTAAGGGGAGAGTTGTAATAGCCCATTTTCAGTGAAGTCGAAACAAAGGTTTCCT
66 GAAAATTCCTTTAAGGGGAGAGTTGTAACAACCCGTTTTCAGTGAAGTCGAAATAATGGTTTTCA
* ** * * *
4550344 GATCACAAACCCAACGAAGCTTTGCATGGTCGAAAGTGTCGAATT-TCGTTAAACTGGACAGAGC
131 GACCACAAATTCAACGAAGCTTTGTATGGTCAAAAGTGTCGAATTCT-GTTATACTGGACAGAGC
* * * * *
4550408 TAAGCGAGAAAAAGTTATTCAGTGTTGACTTGATTTAA-AAAATCGAAGAATAGGTTAAAGTGAT
195 TGAGCGAGAAAAAGTTATTCAGTGTTGATTTGATTTAAGAAACT-GAA-AAAAGGTCAAAGTGAT
* * * * *
4550472 ACGTGATAGCTTGAAAGAAATTTTGGATCAATAAAAATCTTATGCTGATTTGAAAAGAAAAGATC
258 ACGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGCTGATTTGAAAAGAAAAGATA
*
4550537 TTGAATTTCAAGTCAGCGACACAGT-TTTCTGAAAGTATTG-TTTAGGAAGAAAGTTCTTTGATT
323 TTGAATTTCAAGTCAGCGACACAGTATTTCTGAAAGTATTGCCTT-GGAAGAAAGTTCTTTGATT
* * * * * * *
4550600 T-TTTCGAAAAAGAAAGCTTAGTCTGTGGTTTATTGGGCCGCTTGAGATGATTGAGAGATTTGGG
387 TGGTT-GAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGG
* * * * *
4550664 CCAGTAACTTATTTGTTAGCTTTACCATCAGAGTTAGAAAAGATTCATAATGTATTCCACATATC
451 CTAGTAGCTTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACATATC
* * * * * * *
4550729 GATGTTATGA-CAGTATCGATCAGATACTTCACAGGTAATATCCCCAGTTGATATTGAAATTCAA
516 GATGTTACGATGA-TATCAATTAGATCCTTCACAGGTAATATCCCCAATTGATGTTGAAATTCAA
* * * * *
4550793 CCTGATATGACATATAGTGAAGAACTGGTCAAAATTCTAGCTCGGGAAGTTAAAGATTTGATAAA
580 CCTGATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAA
* * * * * *
4550858 T-AAAG-GTCGCTTTAGTTAAAGTTCGT-TGGTAATGACACAGAATCGAAGAAGCTTTCT
645 TAAAAGTATAGCTTTAGTTAAAGTTC-TCTGGCAATGACACAGAATAGAAGAGGCTTCCT
* * * * * *
4550915 GGGAAACAGAAGTAGCTATTAAAGTGCAATACTTGAACTTATTTTCTATTAAGATACACAAGAAC
1 GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTCTCAAGAAC
* *** * *
4550980 GAAAATTCCTTTAAAGGGAGAGTTGTAACAGTGCATTTTCAGTGAAGTC-AGAATAGTGG-TTTC
66 GAAAATTCCTTTAAGGGGAGAGTTGTAACAACCCGTTTTCAGTGAAGTCGA-AATAATGGTTTTC
* * * * * * * *
4551043 TTGACCACAAA-TCTGACGAAGTTTTCTATGGTTAAAAGTGTTGGATT-TCGTTATACTAGACAG
130 -AGACCACAAATTC-AACGAAGCTTTGTATGGTCAAAAGTGTCGAATTCT-GTTATACTGGACAG
* * * *
4551106 AGCTGAGCGAGAAAAAGTTTTTCGGTGTTGATTTGATTTGAGGAACTGAAAAAATGGTCAAAGTG
192 AGCTGAGCGAGAAAAAGTTATTCAGTGTTGATTTGATTTAAGAAACTGAAAAAA-GGTCAAAGTG
* * * *
4551171 ATACGTGATAGTTTGAAAGCAGTTTTGGATCGACAAAAATCTTATGCAGATTTGAAAAGAAAAGA
256 ATACGTGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGCTGATTTGAAAAGAAAAGA
* * * *
4551236 TATTGAATTTCAAGTCAGTGACACGGTATTTCTAAAAGTATTGCCTTGGAATAAAGTTCTTTGAT
321 TATTGAATTTCAAGTCAGCGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGAT
** * * *
4551301 TTGGCCGAAAAGGAAAGCTTAGTCCGTGGTTTATCGTGCTGTTTGAGATCATTGAGAGAATTGGG
386 TTGGTTGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGG
* * * **
4551366 CTAGTAGCTTATTGGTTAGCTTAGCCGTCAGAGTTAGAAGATATTCATAATGTATTCCATGTATC
451 CTAGTAGCTTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACATATC
* * * * * *
4551431 GATGTTACAACTG-TATCAATTAGATCCTTTATAGGTAATATCTCCAGTTGATTTTGAAATTCAA
516 GATGTTACGA-TGATATCAATTAGATCCTTCACAGGTAATATCCCCAATTGATGTTGAAATTCAA
* * * *
4551495 CCTTATATGACGTACAGTGAAGAACCGATCAGAATTCTAGCTCGAGAAGTTAAAGAATTGAGAAA
580 CCTGATATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAA
4551560 TAAAAGTAT
645 TAAAAGTAT
4551569 CGATTCTGTT
Statistics
Matches: 2296, Mismatches: 411, Indels: 115
0.81 0.15 0.04
Matches are distributed among these distances:
700 8 0.00
701 381 0.17
702 774 0.34
703 785 0.34
704 208 0.09
705 1 0.00
710 1 0.00
711 1 0.00
712 9 0.00
713 96 0.04
714 32 0.01
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (703 bp):
GGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGTAAGATTCTCAAGAAC
GAAAATTCCTTTAAGGGGAGAGTTGTAACAACCCGTTTTCAGTGAAGTCGAAATAATGGTTTTCA
GACCACAAATTCAACGAAGCTTTGTATGGTCAAAAGTGTCGAATTCTGTTATACTGGACAGAGCT
GAGCGAGAAAAAGTTATTCAGTGTTGATTTGATTTAAGAAACTGAAAAAAGGTCAAAGTGATACG
TGATAGCTTGAAAGCAGTTTTGGATCGATAAAAATCTTACGCTGATTTGAAAAGAAAAGATATTG
AATTTCAAGTCAGCGACACAGTATTTCTGAAAGTATTGCCTTGGAAGAAAGTTCTTTGATTTGGT
TGAAAAGGAAAGCTTAGTCTGTGGTTTATCGAGCCGTTTGAGATCATTGAGAGAATTGGGCTAGT
AGCTTATTGGTTAGCTTTGCCGTCAGAGTTAGAAAAGATTCATAATGTATTCCACATATCGATGT
TACGATGATATCAATTAGATCCTTCACAGGTAATATCCCCAATTGATGTTGAAATTCAACCTGAT
ATGACGTACAGTGAAGAACTGATCAAAATTCTAGCTCGGGAAGTTAAAGAATTGAGAAATAAAAG
TATAGCTTTAGTTAAAGTTCTCTGGCAATGACACAGAATAGAAGAGGCTTCCT
Found at i:4552030 original size:484 final size:484
Alignment explanation
Indices: 4551092--4552052 Score: 1297
Period size: 484 Copynumber: 2.0 Consensus size: 484
4551082 GTTGGATTTC
* * * * *
4551092 GTTATACTAGACAGAGCTGAGCGAGAAAAAGTTTTTCGGTGTTGATTTGATTTGAGGAACTGAAA
1 GTTATAATAGACAGAGCTAAGCGAGAAAAAGTTTTTCGGTGTTGATTTGATTTAAGAAACTCAAA
* * *
4551157 AAATGGTCAAAGTGATACGTGATAGTTTGAAAGCAGTTTTGGATCGACAAAAATCTTATGCAGAT
66 AAATGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAAAAATCTTACGCAGAT
* ** * *
4551222 TTGAAAAGAAAAGATATTGAATTTCAAGTCAGTGACACGGTATTTCTAAAAGTATTGCCTTGGAA
131 TTGAAAAGAAAAGATATTGAATTTCAAGTCAGCGACACAATATTTCTAAAAGGATTGCCTTAGAA
* ** * * * *
4551287 TAAAGTTCTTTGATTTGGCCGAAAAGGAAAGCTTAGTCCGTGGTTTATCGTGCTGTTTGAGATCA
196 GAAAGTTCTTCAATTTGGACAAAAAGGAAAGCTTAGTCCGTGGTTTATCGTGCTATTTAAGATCA
* * * * * * *
4551352 TTGAGAGAATTGGGCTAGTAGCTTATTGGTTAGCTTAGCCGTCAGAGTTAGAAGATATTCATAAT
261 TTGAGAGAACTAGGCCAGTAGCTTATCGGTTAGCTTAGCCGTCAGAGTTAGAAAAGATACATAAT
* * * * * *
4551417 GTATTCCATGTATCGATGTTACAACTGTATCAATTAGATCCTTTATAGGTAATATCTCCAGTTGA
326 GTATTCCATATATCGATGTTACAACAGTATCAATCAGATCCTTCACACGTAATATCTCCAGTTGA
* * * *
4551482 TTTTGAAATTCAACCTTATATGACGTACAGTGAAGAACCGATCAGAATTCTAGCTCGAGAAGTTA
391 TGTTGAAATTCAACCTAATATGACGAACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTTA
4551547 AAGAATTGAGAAATAAAAGTATCGATTCT
456 AAGAATTGAGAAATAAAAGTATCGATTCT
* *
4551576 GTTATAATAGATAGAGCTAAGTGAGAAAAAGTTATTT-GGTGTTGATTTGATTTAAGAAAC-CAA
1 GTTATAATAGACAGAGCTAAGCGAGAAAAAGTT-TTTCGGTGTTGATTTGATTTAAGAAACTCAA
* *
4551639 ATAAATGGTCAAAGTGATACGTGATAGCTT-AAATGCAGCTTTGGATTGACAGAAATCTTACGCA
65 A-AAATGGTCAAAGTGATACGTGATAGCTTGAAA-GCAGCTTTGGATCGACAAAAATCTTACGCA
* * *
4551703 GATTTGAATAGAAAAGATATTGAATTTCAAGTC-GACGACATAATATTTCTAAAAGGATTTCCTT
128 GATTTGAAAAGAAAAGATATTGAATTTCAAGTCAG-CGACACAATATTTCTAAAAGGATTGCCTT
*
4551767 AGAAGAAAGTTCTTCAATTTGGACAAAAAGGAAAGCTTAGTCTGTGGTTTATC-TGGCTATTTAA
192 AGAAGAAAGTTCTTCAATTTGGACAAAAAGGAAAGCTTAGTCCGTGGTTTATCGT-GCTATTTAA
* ***
4551831 GATCATTGAGAGAACTAGGCCATTAGCTTATCGGTTAGCTTTTTCGTCAGAGTTAGAAAAGATAC
256 GATCATTGAGAGAACTAGGCCAGTAGCTTATCGGTTAGCTTAGCCGTCAGAGTTAGAAAAGATAC
* * * * *
4551896 ATAATGTATTCCGTATATCGATGTTTCGACAGTTTCGATCAGATCCTTCACACGTAATAT-TCCT
321 ATAATGTATTCCATATATCGATGTTACAACAGTATCAATCAGATCCTTCACACGTAATATCTCC-
* *
4551960 AGTTGATGTTGAAATTCAACCTAATATGACGAACAGTGAAGAACCTATCAAAATTCTTGCTC-AG
385 AGTTGATGTTGAAATTCAACCTAATATGACGAACAGTGAAGAACCGATCAAAATTCTAGCTCGA-
*
4552024 GAAGTTAAAGAATTGAGACATAAAAGTAT
449 GAAGTTAAAGAATTGAGAAATAAAAGTAT
4552053 AGCTTTAGTT
Statistics
Matches: 413, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
483 12 0.03
484 398 0.96
485 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (484 bp):
GTTATAATAGACAGAGCTAAGCGAGAAAAAGTTTTTCGGTGTTGATTTGATTTAAGAAACTCAAA
AAATGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAAAAATCTTACGCAGAT
TTGAAAAGAAAAGATATTGAATTTCAAGTCAGCGACACAATATTTCTAAAAGGATTGCCTTAGAA
GAAAGTTCTTCAATTTGGACAAAAAGGAAAGCTTAGTCCGTGGTTTATCGTGCTATTTAAGATCA
TTGAGAGAACTAGGCCAGTAGCTTATCGGTTAGCTTAGCCGTCAGAGTTAGAAAAGATACATAAT
GTATTCCATATATCGATGTTACAACAGTATCAATCAGATCCTTCACACGTAATATCTCCAGTTGA
TGTTGAAATTCAACCTAATATGACGAACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTTA
AAGAATTGAGAAATAAAAGTATCGATTCT
Found at i:4567800 original size:40 final size:40
Alignment explanation
Indices: 4567750--4567932 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
4567740 GATTCGGATA
4567750 TATATATGGCACTTAGTGTGTG-ATTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGTGAATTCGA-ATAGCTTCGGC
* * *
4567790 TATATGTGGCACTTAGTGTGTGAATTGGAATATCTTCGGC
1 TATATATGGCACTTAGTGTGTGAATTCGAATAGCTTCGGC
* * * * *
4567830 TATATATGGCACTTAGTGTGCGAGA-CCAAGATAGGTTCAGC
1 TATATATGGCACTTAGTGTGTGA-ATTCGA-ATAGCTTCGGC
* * * * **
4567871 TATTTAAGGCGCTTAGTGTGCGAGATTATAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGTGA-ATTCGAATAGCTTCGGC
* *
4567912 TATGTATTGGCACCTAGTGTG
1 TATATA-TGGCACTTAGTGTG
4567933 CAAGATATTG
Statistics
Matches: 115, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 53 0.46
41 50 0.43
42 12 0.10
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGTGAATTCGAATAGCTTCGGC
Found at i:4570847 original size:23 final size:24
Alignment explanation
Indices: 4570799--4570864 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
4570789 ACAAAATTTG
*
4570799 GAAGTTCACAAAGAACCATATCAA
1 GAAGCTCACAAAGAACCATATCAA
* *
4570823 GAAGCTTACAAAGATCC-TATCAA
1 GAAGCTCACAAAGAACCATATCAA
*
4570846 GAAGCTCACAAAGAGCCAT
1 GAAGCTCACAAAGAACCAT
4570865 GTAACGGGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (24 bp):
GAAGCTCACAAAGAACCATATCAA
Found at i:4572485 original size:53 final size:54
Alignment explanation
Indices: 4572289--4572491 Score: 187
Period size: 53 Copynumber: 3.8 Consensus size: 54
4572279 GGGTTTAAGT
* * * **
4572289 ATACCAAGTAAGACCATGCCAATG-CATGG-AATTGTTAAGTTTTATAAGGCAAGG
1 ATACCATGTAAGACCATGTCAA-GACATGGCAA-TGGTAAGTTCGATAAGGCAAGG
* * * * * * *
4572343 AAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAAG
1 ATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCGATAAGGCAAGG
* * * *
4572398 ATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGG
1 ATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCGATAAGGCAAGG
* **
4572451 ATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 ATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
4572492 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 29, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
53 45 0.38
54 29 0.25
55 43 0.37
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
ATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCGATAAGGCAAGG
Found at i:4574678 original size:33 final size:33
Alignment explanation
Indices: 4574641--4574720 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
4574631 TGCAATACAA
*
4574641 CACTCCTCCCGGCTCATATCCACCACATTACTC
1 CACTCCTCCCGGCTCATATCCACCACAGTACTC
* * * *
4574674 CACT-CTCACAGGCTCGTATCCATCACAGTATTC
1 CACTCCTC-CCGGCTCATATCCACCACAGTACTC
*
4574707 CACTCATCCCGGCT
1 CACTCCTCCCGGCT
4574721 TAAGTTCATC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 3 0.08
33 33 0.87
34 2 0.05
ACGTcount: A:0.21, C:0.44, G:0.10, T:0.25
Consensus pattern (33 bp):
CACTCCTCCCGGCTCATATCCACCACAGTACTC
Found at i:4575296 original size:48 final size:48
Alignment explanation
Indices: 4575061--4575295 Score: 371
Period size: 48 Copynumber: 4.9 Consensus size: 48
4575051 AAACTTTGTA
* *
4575061 ATTAAAACGAGGAATAAACTTTGTAATATAAACTAGATACATTACAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* *
4575109 ATTAGAACGAGGAACAAAATTTGTAATATAAATTAGATACATTACAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* *
4575157 ATTAAAATGAGGAACAAACTTTGTAATATAAATTAGACACATTACAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
*
4575205 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTGCAAC
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* * * *
4575253 ATTAAAATGATGAACATACTTTGTAATATAAATTAGGTACATT
1 ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATT
4575296 GGATTACATT
Statistics
Matches: 172, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 172 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (48 bp):
ATTAAAACGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
Found at i:4581203 original size:25 final size:24
Alignment explanation
Indices: 4581161--4581227 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 24
4581151 TTAGTTTCTC
* *
4581161 AATAAA-ATTTAATAAAAATTATT
1 AATAAATAATTAATTAAAATTATT
* *
4581184 AATAATTCAATTAATTAAAAAT-TT
1 AATAAAT-AATTAATTAAAATTATT
4581208 AATAAATAA--AATTAAAATTA
1 AATAAATAATTAATTAAAATTA
4581228 AAAAATTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
21 9 0.26
23 7 0.20
24 8 0.23
25 11 0.31
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (24 bp):
AATAAATAATTAATTAAAATTATT
Found at i:4581905 original size:22 final size:24
Alignment explanation
Indices: 4581869--4581916 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
4581859 AATTTTATGC
4581869 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
4581891 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
4581915 TA
1 TA
4581917 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:4592446 original size:4 final size:4
Alignment explanation
Indices: 4592437--4592503 Score: 75
Period size: 4 Copynumber: 16.5 Consensus size: 4
4592427 AAAATTACAT
* *
4592437 TTTC TTTC TTT- TTTT TCTTC TAT- TTTC TTTC TTTC TTTC TTTC TTCTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC
4592485 ATTTC TTTC TTTC TTTC TT
1 -TTTC TTTC TTTC TTTC TT
4592504 CCTTATGTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
3 5 0.09
4 41 0.75
5 7 0.13
6 2 0.04
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:4592457 original size:12 final size:13
Alignment explanation
Indices: 4592436--4592495 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
4592426 TAAAATTACA
4592436 TTTTCTTTCT-TTT
1 TTTTC-TTCTATTT
4592449 TTTTCTTCTATTT
1 TTTTCTTCTATTT
*
4592462 TCTTTCTT-TCTTT
1 T-TTTCTTCTATTT
*
4592475 CTTTCTTCTCATTT
1 TTTTCTTCT-ATTT
*
4592489 CTTTCTT
1 TTTTCTT
4592496 TCTTTCTTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.25
13 14 0.35
14 16 0.40
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTCTTCTATTT
Found at i:4592489 original size:26 final size:26
Alignment explanation
Indices: 4592435--4592503 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
4592425 ATAAAATTAC
4592435 ATTTTCTTTC-TT-TTT-TTTCTTCT
1 ATTTTCTTTCTTTCTTTCTTTCTTCT
4592458 ATTTTCTTTCTTTCTTTCTTTCTTCT
1 ATTTTCTTTCTTTCTTTCTTTCTTCT
4592484 CA-TTTCTTTCTTTCTTTCTT
1 -ATTTTCTTTCTTTCTTTCTT
4592504 CCTTATGTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.24
24 2 0.05
25 3 0.07
26 26 0.62
27 1 0.02
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (26 bp):
ATTTTCTTTCTTTCTTTCTTTCTTCT
Found at i:4597885 original size:34 final size:35
Alignment explanation
Indices: 4597842--4597912 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 35
4597832 TTGAGACTTG
*
4597842 AAAATTTTGAAGGTGAAGA-CATTTTTTAAACCTC
1 AAAATTTTGAAGATGAAGACCATTTTTTAAACCTC
* * *
4597876 AAAATTTTGAAGATGACGACCTTTTTTTGAACCTC
1 AAAATTTTGAAGATGAAGACCATTTTTTAAACCTC
4597911 AA
1 AA
4597913 CTAATTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (35 bp):
AAAATTTTGAAGATGAAGACCATTTTTTAAACCTC
Found at i:4598380 original size:6 final size:6
Alignment explanation
Indices: 4598368--4598430 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
4598358 CAAAGAAGAA
*
4598368 AAGGAG AAAGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG
* *
4598416 AAGAAG AAGAAG AAG
1 AAGGAG AAGGAG AAG
4598431 ACCCTCCTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:4598431 original size:6 final size:6
Alignment explanation
Indices: 4598347--4598431 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
4598337 ATGGTTAACT
* * *
4598347 GAAGAA GAAGACA -AAGAA GAA-AA GGAGAA -AGAGAA GGAGAA GGAGAA
1 GAAGAA GAAGA-A GAAGAA GAAGAA GAAGAA GA-AGAA GAAGAA GAAGAA
* * * *
4598394 GGAGAA GGAGAA GGAGAA GGAGAA GAAGAA GAAGAA GA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GA
4598432 CCCTCCTGCT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
5 5 0.07
6 64 0.91
7 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.40, T:0.00
Consensus pattern (6 bp):
GAAGAA
Found at i:4598485 original size:21 final size:21
Alignment explanation
Indices: 4598461--4598520 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
4598451 CAACGTGGCA
* * *
4598461 AGTTAATTGGCCACGTCAGTT
1 AGTTAACTAGCCACGTCAGCT
*
4598482 AGTTAACTAGCCACATCAGCT
1 AGTTAACTAGCCACGTCAGCT
4598503 AGTTAACTAGCCACGTCA
1 AGTTAACTAGCCACGTCA
4598521 ACTGTCCCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (21 bp):
AGTTAACTAGCCACGTCAGCT
Found at i:4600065 original size:25 final size:24
Alignment explanation
Indices: 4600023--4600074 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
4600013 CACAAACGCA
4600023 GCTCTTTATGAGCGTCCTAATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
* ** *
4600048 GCTCTTTGTGAGTTTCCTGATATG
1 GCTCTTTATGAGCGTCCTAATATG
4600072 GCT
1 GCT
4600075 TACTTGAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:4603399 original size:6 final size:5
Alignment explanation
Indices: 4603349--4603398 Score: 73
Period size: 5 Copynumber: 9.4 Consensus size: 5
4603339 TGTGTGCTCC
4603349 TTATT TTATT TTATCT TTATCT TTATCT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTAT-T TTAT-T TTATT TTATT TTATT TTATT
4603397 TT
1 TT
4603399 TTCACAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 27 0.61
6 17 0.39
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:4610488 original size:2 final size:2
Alignment explanation
Indices: 4610481--4610509 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4610471 AAATCTTCCT
4610481 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4610510 CAGTTTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4620413 original size:47 final size:48
Alignment explanation
Indices: 4620342--4620434 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 48
4620332 TGAATAGTGT
* * *
4620342 CACCAAAATCGCAGATAAACTGCCA-ATAATCAATATCGTGGACAAGC
1 CACCAAAATCGCAAATAAACTGCCACATAATCAAAATCGTGAACAAGC
* *
4620389 CACCAAAATCGCAAATATATTGCCACATAATCAAAATCGTGAACAA
1 CACCAAAATCGCAAATAAACTGCCACATAATCAAAATCGTGAACAA
4620435 TGTCACATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 22 0.55
48 18 0.45
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (48 bp):
CACCAAAATCGCAAATAAACTGCCACATAATCAAAATCGTGAACAAGC
Found at i:4623811 original size:68 final size:69
Alignment explanation
Indices: 4623701--4624229 Score: 362
Period size: 68 Copynumber: 7.8 Consensus size: 69
4623691 ACGTGATTTA
* * * ** * *
4623701 AGCGTGATCTTAAATCACCGTGCTATGTAAATTAGTTGTGATCTTAAAACAATAG-GCTGTAAGA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
4623765 TAGG
66 TAGG
* * * * * *
4623769 AGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCATGATCTTAAATCAA-CGAACTGTAAGA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
*
4623833 TATG
66 TAGG
* ** * * * *
4623837 AGCGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAG-TCTATAAAA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
4623901 TAAGG
66 T-AGG
* * ** ** * *
4623906 -GCGCGATCTTAAAT-TGACGTGCTATGTAAATTAGTTGTGATCTTAAATC-AGCGAGCTATAAG
1 AGCGCGATCTTAAATCAG-CGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAG
4623968 ATAGG
65 ATAGG
* * * * * * * * *
4623973 AGTGCGATCTTAAATCGGTGTGCTATAT-GAGTTAACCATGATATTAAATCAGT-GAATTGTAAG
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGA-TTAGCCGTGATCTTAAATCAATAGAACTGTAAG
4624036 ATAGG
65 ATAGG
* * ** * *
4624041 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTCAATTAGCAG-ACTATAAAA
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
**
4624105 TACA
66 TAGG
* * * * * * * * ** * **
4624109 AGTGTGATCTGAAAT-TGATGTGATATAG-AAATTAGTCACGATCTTAAATCAGT-GGGCTGTAA
1 AGCGCGATCTTAAATCAG-CGTGCTAT-GTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAA
4624171 GATAGG
64 GATAGG
** * *
4624177 AGCGTAATCTTAAATCAGTGTGCTATGTAGGTTAGCCGTGATCTTAAATCAAT
1 AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAAT
4624230 GGACTATAAA
Statistics
Matches: 353, Mismatches: 92, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
67 11 0.03
68 333 0.94
69 9 0.03
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (69 bp):
AGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAATAGAACTGTAAGA
TAGG
Found at i:4623947 original size:136 final size:136
Alignment explanation
Indices: 4623701--4624396 Score: 465
Period size: 136 Copynumber: 5.1 Consensus size: 136
4623691 ACGTGATTTA
** * * * *
4623701 AGCGTGATCTTAAATCACCGTGCTATGTAAATTAG-TTGTGATCTTAAAACAATAGGCTGTAAGA
1 AGCGTGATCTTAAATCGGCGTGCTATGTAGATTAGCCT-TGATCTTAAATCAATAGTCTGTAAGA
* * * * * *
4623765 TAGGAGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCATGATCTTAAATCAACGAACTGTA
65 TAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTATA
*
4623830 AGATATG
130 AGATAGG
* * *
4623837 AGCGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTATAAAAT
1 AGCGTGATCTTAAATCGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTGTAAGAT
* * ** * *
4623902 AAGG-GCGCGATCTTAAAT-TGACGTGCTATGTAAATTAGTTGTGATCTTAAATCAGCGAGCTAT
66 -AGGAGCGCGATCTTAAATCAG-CGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTAT
4623965 AAGATAGG
129 AAGATAGG
* * * * * * * * *
4623973 AGTGCGATCTTAAATCGGTGTGCTATAT-GAGTTAACCATGATATTAAATCAGTGAAT-TGTAAG
1 AGCGTGATCTTAAATCGGCGTGCTATGTAGA-TTAGCCTTGATCTTAAATCAAT-AGTCTGTAAG
* * *
4624036 ATAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTCAATTAGC-AGACTA
64 ATAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGA-ACTA
* **
4624100 TAAAATACA
128 TAAGATAGG
* * * ** * * * ** * * *
4624109 AGTGTGATCTGAAATTGATGTGATATAG-AAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGA
1 AGCGTGATCTTAAATCGGCGTGCTAT-GTAGATTAGCCTTGATCTTAAATCAATAGTCTGTAAGA
** * * * *
4624173 TAGGAGCGTAATCTTAAATCAGTGTGCTATGTAGGTTAGCCGTGATCTTAAATCAATGGACTATA
65 TAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTATA
* *
4624238 AAACAAGG
130 AGA-TAGG
** * * * * * * * * * * *
4624246 -GCGCAATCTTAAATTGGTGTACTATGTAAATTAGTCGTGATATTAAATTAGCT-GGCTGTAAGG
1 AGCGTGATCTTAAATCGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCA-ATAGTCTGTAAGA
** * * ** * * * * * * * *
4624309 TATAAGTGTGATCTTAAATTGGCATGCTATGTAGGTGAGTCGTGATATTAAATTAGCAAACTATA
65 TAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTATA
*
4624374 AAATAGG
130 AGATAGG
*
4624381 GGCGTGATCTTAAATC
1 AGCGTGATCTTAAATC
4624397 ACTAACTCTA
Statistics
Matches: 441, Mismatches: 103, Indels: 32
0.77 0.18 0.06
Matches are distributed among these distances:
135 11 0.02
136 420 0.95
137 10 0.02
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (136 bp):
AGCGTGATCTTAAATCGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTGTAAGAT
AGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAACGAACTATAA
GATAGG
Found at i:4624257 original size:204 final size:202
Alignment explanation
Indices: 4623704--4624329 Score: 601
Period size: 204 Copynumber: 3.1 Consensus size: 202
4623694 TGATTTAAGC
* * *** * * *
4623704 GTGATCTTAAA-TCACCGTGCTATGTAAATTAGTTGTGATCTTAAAACAATAGGCTGTAAGATAG
1 GTGATCTTAAATTGA-CGTGATATGTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAG
** * * *
4623768 GAGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCATGATCTTAAATCAACGAACTGTAAGA
65 GAGCGTGATCTTAAATCAGTGTGCTATGTAGGTTAACCATGATCTTAAATCAATGAACTGTAAGA
* * * * * ** *
4623833 TATGAGCGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTATA
130 -AAGGGCGCGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGCAGACTATA
* *
4623898 AAATAAGGGC
194 AAATAA-AGT
* * *** * * *
4623908 GCGATCTTAAATTGACGTGCTATGTAAATTAGTTGTGATCTTAAATCAGCGAGCTATAAGATAGG
1 GTGATCTTAAATTGACGTGATATGTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGG
* * * * * * *
4623973 AGTGCGATCTTAAATCGGTGTGCTATAT-GAGTTAACCATGATATTAAATCAGTGAATTGTAAGA
66 AGCGTGATCTTAAATCAGTGTGCTATGTAG-GTTAACCATGATCTTAAATCAATGAACTGTAAGA
* ** *
4624037 TAGGAGCGCGATCTTAAATCAGCGTGCTATGTAGATTAGCCGTGATCTTCAATTAGCAGACTATA
130 AAGG-GCGCGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGCAGACTATA
4624102 AAATACAAGT
194 AAATA-AAGT
* *
4624112 GTGATCTGAAATTGATGTGATATAG-AAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAG
1 GTGATCTTAAATTGACGTGATAT-GTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAG
* * * * * *
4624176 GAGCGTAATCTTAAATCAGTGTGCTATGTAGGTTAGCCGTGATCTTAAATCAATGGACTATAAAA
65 GAGCGTGATCTTAAATCAGTGTGCTATGTAGGTTAACCATGATCTTAAATCAATGAACTGTAAGA
* * * * * * * * *
4624241 CAAGGGCGCAATCTTAAATTGGTGTACTATGTAAATTAGTCGTGATATTAAATTAGCTGGCTGTA
130 -AAGGGCGCGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGCAGACTATA
**
4624306 AGGTATAAGT
194 AAATA-AAGT
4624316 GTGATCTTAAATTG
1 GTGATCTTAAATTG
4624330 GCATGCTATG
Statistics
Matches: 341, Mismatches: 74, Indels: 14
0.79 0.17 0.03
Matches are distributed among these distances:
203 2 0.01
204 331 0.97
205 8 0.02
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (202 bp):
GTGATCTTAAATTGACGTGATATGTAAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGG
AGCGTGATCTTAAATCAGTGTGCTATGTAGGTTAACCATGATCTTAAATCAATGAACTGTAAGAA
AGGGCGCGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATTAGCAGACTATAAA
ATAAAGT
Found at i:4624271 original size:68 final size:68
Alignment explanation
Indices: 4623720--4624293 Score: 316
Period size: 68 Copynumber: 8.4 Consensus size: 68
4623710 TTAAATCACC
* ** * * * * *
4623720 GTGCTATGTAAATTAGTTGTGATCTTAAAACAATAGG-CTGTAAGATAGGAGCGTGATCTTAAAT
1 GTGCTATGTAGATTAGCCGTGATCTTAAATCAAT-GGACTATAAAAAAGGAGCGCGATCTTAAAT
** *
4623784 CAGC
65 TGGT
* * * * * * * * * * *
4623788 ATCCTATGTAGATTAACCATGATCTTAAATCAACGAACTGTAAGATATGAGCGTGATCTTAAATT
1 GTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAAAAAGGAGCGCGATCTTAAATT
*
4623853 GGC
66 GGT
* * *
4623856 GTGCTATGTAGATTAGCCTTGATCTTAAATCAATAGTCTATAAAATAAGG-GCGCGATCTTAAAT
1 GTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAAA-AAGGAGCGCGATCTTAAAT
**
4623920 TGAC
65 TGGT
* ** * * *
4623924 GTGCTATGTAAATTAGTTGTGATCTTAAATC-A-GCGAGCTATAAGATAGGAGTGCGATCTTAAA
1 GTGCTATGTAGATTAGCCGTGATCTTAAATCAATG-GA-CTATAAAAAAGGAGCGCGATCTTAAA
*
4623987 TCGGT
64 TTGGT
* * * * * * * * * *
4623992 GTGCTATAT-GAGTTAACCATGATATTAAATCAGTGAATTGTAAGATAGGAGCGCGATCTTAAAT
1 GTGCTATGTAGA-TTAGCCGTGATCTTAAATCAATGGACTATAAAAAAGGAGCGCGATCTTAAAT
** *
4624056 CAGC
65 TGGT
* * *** * ** * * *
4624060 GTGCTATGTAGATTAGCCGTGATCTTCAATTAGCAGACTATAAAATACAAGTGTGATCTGAAATT
1 GTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAAAAAGGAGCGCGATCTTAAATT
*
4624125 GAT
66 GGT
* * * ** * * * * * **
4624128 GTGATATAG-AAATTAGTCACGATCTTAAATCAGTGGGCTGTAAGATAGGAGCGTAATCTTAAAT
1 GTGCTAT-GTAGATTAGCCGTGATCTTAAATCAATGGACTATAAAAAAGGAGCGCGATCTTAAAT
**
4624192 CAGT
65 TGGT
* *
4624196 GTGCTATGTAGGTTAGCCGTGATCTTAAATCAATGGACTATAAAACAAGG-GCGCAATCTTAAAT
1 GTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAAA-AAGGAGCGCGATCTTAAAT
4624260 TGGT
65 TGGT
* * * *
4624264 GTACTATGTAAATTAGTCGTGATATTAAAT
1 GTGCTATGTAGATTAGCCGTGATCTTAAAT
4624294 TAGCTGGCTG
Statistics
Matches: 381, Mismatches: 113, Indels: 24
0.74 0.22 0.05
Matches are distributed among these distances:
67 8 0.02
68 363 0.95
69 9 0.02
70 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (68 bp):
GTGCTATGTAGATTAGCCGTGATCTTAAATCAATGGACTATAAAAAAGGAGCGCGATCTTAAATT
GGT
Found at i:4634734 original size:46 final size:44
Alignment explanation
Indices: 4634594--4634813 Score: 178
Period size: 46 Copynumber: 4.8 Consensus size: 44
4634584 GGTAGTATGC
* *
4634594 CGATGTCATGTCCCAGACATGGTCTCACACTGGCTCATCTC-GTAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCTCAATAGT
* * * *
4634640 CGATGCATGTCTCGGACATGTCTTACACTGGCTTACTTCTTAA-GGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-T-C-TCTCAATAGT
* *
4634686 CGATGTATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAAT-GT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC---TCTCAATAGT
* *
4634732 CGATGCCATGTCCCAGACATGGTGTTACACTGGCTCTCAT-AATGTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-TCAA--TAGT
* *
4634780 CGATGCATGTCCCCGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC
4634814 ACAATAACCC
Statistics
Matches: 143, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
44 13 0.09
45 18 0.13
46 65 0.45
47 27 0.19
48 20 0.14
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCTCAATAGT
Found at i:4641198 original size:46 final size:45
Alignment explanation
Indices: 4641113--4641335 Score: 222
Period size: 46 Copynumber: 4.8 Consensus size: 45
4641103 GGTAAGATGC
* *
4641113 CGATGCCATGTCCCAGAGATGGTCTTACACTA-CCT-CATCTCATAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCA-AGT
* *
4641159 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AAGT
*
4641205 CGATGCATGTCCCACACATGTCTTACACTAGCTCTA-ATCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCAA-GT
* * * *
4641251 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCAT-T-ATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCAAGT
*
4641296 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACA
1 ---CGATGCATGTCCCAGACATGTCTTACACTAGCTTACA
4641336 ATAACCCGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 22
0.80 0.09 0.12
Matches are distributed among these distances:
44 11 0.07
45 18 0.12
46 71 0.47
47 31 0.21
48 19 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGT
Found at i:4641304 original size:94 final size:92
Alignment explanation
Indices: 4641111--4641331 Score: 279
Period size: 94 Copynumber: 2.4 Consensus size: 92
4641101 GGGGTAAGAT
* *
4641111 GCCGATGCCATGTCCCAGAGATGGTCTTACACTA-C-CTCATCTCATAGTCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTAATCTCATAGTCGATGCATGTCCCAG
4641174 ACATGTCTTACACTAGCTTACATCTCGAG
64 ACATGTCTTACACTAGCTTACATCTCGAG
*
4641203 GCCGATGCATGTCCCACACATGTCTTACACTAGCTCTAATCTCA-ATGTCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAATCTCATA-GTCGATG-CATGTCCCAG
* * * * *
4641267 ACATGGTCTTATACTGGCTTTCAT-TATGTG
64 ACAT-GTCTTACACTAGCTTACATCT-CGAG
*
4641297 GCCGATGCATGTCCTAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
4641332 TACAATAACC
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
90 11 0.10
91 14 0.12
92 22 0.19
93 15 0.13
94 51 0.45
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAATCTCATAGTCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTTACATCTCGAG
Found at i:4664148 original size:26 final size:26
Alignment explanation
Indices: 4664119--4664179 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
4664109 ATGTTTAAAT
*
4664119 ACAATCATAC-ATCACATAGGGGCAAA
1 ACAATCAT-CTATCACAGAGGGGCAAA
* *
4664145 ACAATCATCTTATCATAGAGGGGCATA
1 ACAATCATC-TATCACAGAGGGGCAAA
4664172 ACAATCAT
1 ACAATCAT
4664180 TTTATCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 8 0.27
27 21 0.70
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (26 bp):
ACAATCATCTATCACAGAGGGGCAAA
Found at i:4670027 original size:44 final size:44
Alignment explanation
Indices: 4669979--4670065 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
4669969 ATAAGATAGT
4669979 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAGA
1 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAGA
4670023 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAG
1 ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAG
4670066 CCATAGGTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (44 bp):
ACCCTTTAAAAACCATAAACACTTCATTGAATTTTCATTAGAGA
Found at i:4672265 original size:27 final size:27
Alignment explanation
Indices: 4672235--4672454 Score: 196
Period size: 27 Copynumber: 8.1 Consensus size: 27
4672225 TACCGTACAG
* *
4672235 GGGTGTTTCTGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
*
4672262 GGGTATTTCATTAATTTTATAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
*
4672288 GGGGTATTTCAGTAATTTTACAAATCGA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* *
4672316 GGGTATTTCAGTAATTTTACAAGTCG-
1 GGGTATTTCAGTAATTTTATAAATCGA
* * *
4672342 GGAGTATTTCGGTAATTTCATAAATCAA
1 GG-GTATTTCAGTAATTTTATAAATCGA
* * * *
4672370 TGGTATTTCGGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
* * * *
4672396 GGGGTATTTCAATAATTTCACAAATCAA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* * *
4672424 GGGTATCTC-GATAATTTTACAAATCGG
1 GGGTATTTCAG-TAATTTTATAAATCGA
4672451 GGGT
1 GGGT
4672455 CTTAACAATC
Statistics
Matches: 165, Mismatches: 21, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
26 4 0.02
27 158 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAATCGA
Found at i:4672291 original size:54 final size:54
Alignment explanation
Indices: 4672232--4672454 Score: 252
Period size: 54 Copynumber: 4.1 Consensus size: 54
4672222 TCCTACCGTA
* * * * * * *
4672232 CAGGGGTGTTTCTGTAATTTTATAAATCGAGGGTATTTCATTAATTTTATAAAT
1 CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
* * *
4672286 CAGGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAGT
1 CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
* * * * *
4672340 C-GGGAGTATTTCGGTAATTTCATAAATCAATGGTATTTCGGTAATTTCACAAAT
1 CAGGG-GTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
* *
4672394 CAGGGGTATTTCAATAATTTCACAAATCAAGGGTATCTC-GATAATTTTACAAAT
1 CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAG-TAATTTTACAAAT
*
4672448 CGGGGGT
1 CAGGGGT
4672455 CTTAACAATC
Statistics
Matches: 145, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
53 4 0.03
54 138 0.95
55 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (54 bp):
CAGGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCAGTAATTTTACAAAT
Found at i:4672358 original size:81 final size:80
Alignment explanation
Indices: 4672232--4672454 Score: 243
Period size: 81 Copynumber: 2.8 Consensus size: 80
4672222 TCCTACCGTA
* * *
4672232 CAGGGGTGTTTCTGTAATTTTATAAATCGAGGGTATTTC-ATTAATTTTATAAATCAGGGGTATT
1 CAGGGGTATTTCAGTAATTTTACAAATCG-GGGTATTTCGA-TAATTTTATAAATCAGGGGTATT
*
4672296 TCAGTAATTTTACAAAT
64 TCAGTAATTTCACAAAT
* * * **
4672313 C-GAGGGTATTTCAGTAATTTTACAAGTCGGGAGTATTTCGGTAATTTCATAAATCAATGGTATT
1 CAG-GGGTATTTCAGTAATTTTACAAATCGGG-GTATTTCGATAATTTTATAAATCAGGGGTATT
*
4672377 TCGGTAATTTCACAAAT
64 TCAGTAATTTCACAAAT
* * * * * *
4672394 CAGGGGTATTTCAATAATTTCACAAATCAAGGGTATCTCGATAATTTTACAAATCGGGGGT
1 CAGGGGTATTTCAGTAATTTTACAAATC-GGGGTATTTCGATAATTTTATAAATCAGGGGT
4672455 CTTAACAATC
Statistics
Matches: 116, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
80 3 0.03
81 110 0.95
82 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (80 bp):
CAGGGGTATTTCAGTAATTTTACAAATCGGGGTATTTCGATAATTTTATAAATCAGGGGTATTTC
AGTAATTTCACAAAT
Found at i:4672805 original size:18 final size:17
Alignment explanation
Indices: 4672775--4672809 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4672765 TTACCCACGC
4672775 GGGCCCACAGGCCCATT
1 GGGCCCACAGGCCCATT
*
4672792 GGGCCCATACGGCCCATT
1 GGGCCCACA-GGCCCATT
4672810 TAACCCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (17 bp):
GGGCCCACAGGCCCATT
Found at i:4674176 original size:11 final size:11
Alignment explanation
Indices: 4674160--4674191 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
4674150 CCAACTCCCC
4674160 ATTCAAATTCA
1 ATTCAAATTCA
*
4674171 ATTCAAATTTA
1 ATTCAAATTCA
4674182 ATTCAAATTC
1 ATTCAAATTC
4674192 TTATAGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTCAAATTCA
Found at i:4676167 original size:22 final size:22
Alignment explanation
Indices: 4676142--4676192 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
4676132 TTTGGCGCAA
4676142 AGCCATAGTCAAGATGGCACAG
1 AGCCATAGTCAAGATGGCACAG
** * * *
4676164 AGCCATTTTTAGGTTGGCACAG
1 AGCCATAGTCAAGATGGCACAG
4676186 AGCCATA
1 AGCCATA
4676193 ATCAGATTGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
AGCCATAGTCAAGATGGCACAG
Found at i:4676606 original size:27 final size:27
Alignment explanation
Indices: 4676576--4676627 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4676566 ACGATCATTT
*
4676576 TACCCTACAGGGGTATTTCGGTAATCC
1 TACCCCACAGGGGTATTTCGGTAATCC
4676603 TACCCCACAGGGGTATTTCGGTAAT
1 TACCCCACAGGGGTATTTCGGTAAT
4676628 TTTATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (27 bp):
TACCCCACAGGGGTATTTCGGTAATCC
Found at i:4676641 original size:27 final size:27
Alignment explanation
Indices: 4676583--4676768 Score: 162
Period size: 27 Copynumber: 6.9 Consensus size: 27
4676573 TTTTACCCTA
** **
4676583 CAGGGGTATTTCGGTAATCCTACCCCA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAT
*
4676610 CAGGGGTATTTCGGTAATTTTATAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* ** *
4676637 TAGGGGTATTTTTGTAATTTTACAAGT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * *
4676664 CA-AGATATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
** *
4676690 C-GGGTGTATTTTAGTAATTTTACAAGT
1 CAGGG-GTATTTCGGTAATTTTACAAAT
* *
4676717 CGGGGGTATTTCGGTAATTTCACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* *
4676744 CAAGGGTATTTCGATAATTTTACAA
1 CAGGGGTATTTCGGTAATTTTACAA
4676769 CCTGGGATAT
Statistics
Matches: 128, Mismatches: 27, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
26 23 0.18
27 102 0.80
28 3 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:4676699 original size:53 final size:53
Alignment explanation
Indices: 4676616--4676768 Score: 166
Period size: 53 Copynumber: 2.8 Consensus size: 53
4676606 CCCACAGGGG
* * *
4676616 TATTTCGGTAATTTTATAAATTAGGGGTATTTTTGTAATTTTACAAGTC-AAGA
1 TATTTCGGTAATTTTACAAA-TCGGGGTATTTTAGTAATTTTACAAGTCGAAGA
* ** *
4676669 TATTTTGGTAATTTTACAAATCGGGTGTATTTTAGTAATTTTACAAGTCGGGGG
1 TATTTCGGTAATTTTACAAATCGGG-GTATTTTAGTAATTTTACAAGTCGAAGA
* * *
4676723 TATTTCGGTAATTTCACAAATCAAGGGTA-TTTCGATAATTTTACAA
1 TATTTCGGTAATTTTACAAATC-GGGGTATTTTAG-TAATTTTACAA
4676769 CCTGGGATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
52 4 0.05
53 44 0.52
54 35 0.41
55 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (53 bp):
TATTTCGGTAATTTTACAAATCGGGGTATTTTAGTAATTTTACAAGTCGAAGA
Found at i:4676802 original size:80 final size:80
Alignment explanation
Indices: 4676623--4676803 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
4676613 GGGTATTTCG
* ** * * * *
4676623 GTAATTTTAT-AAATTAGGGGTATTTTTGTAATTTTACAAGTCAAGATATTTTGGTAATTTTACA
1 GTAATTTT-TCAAATTGGGGGTATTTCGGTAATTTCACAAATCAAGATATTTCGATAATTTTACA
*
4676687 AATCGGGTGTATTTTA
65 AATCGGGTATATTTTA
* * * *
4676703 GTAATTTTACAAGTCGGGGGTATTTCGGTAATTTCACAAATCAAGGGTATTTCGATAATTTTAC-
1 GTAATTTTTCAAATTGGGGGTATTTCGGTAATTTCACAAATCAA-GATATTTCGATAATTTTACA
*
4676767 AACCTGGG-ATATTTTA
65 AATC-GGGTATATTTTA
4676783 GTAATTTTTCAAATTGGGGGT
1 GTAATTTTTCAAATTGGGGGT
4676804 CTTAACGACC
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
80 63 0.77
81 19 0.23
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (80 bp):
GTAATTTTTCAAATTGGGGGTATTTCGGTAATTTCACAAATCAAGATATTTCGATAATTTTACAA
ATCGGGTATATTTTA
Found at i:4678544 original size:6 final size:6
Alignment explanation
Indices: 4678535--4678566 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4678525 CCAACTCCCC
4678535 ATTCAA ATTC-A ATTCAA ATTC-A ATTCAA ATTC
1 ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTC
4678567 TTATGACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (6 bp):
ATTCAA
Found at i:4678551 original size:11 final size:11
Alignment explanation
Indices: 4678535--4678566 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
4678525 CCAACTCCCC
4678535 ATTCAAATTCA
1 ATTCAAATTCA
4678546 ATTCAAATTCA
1 ATTCAAATTCA
4678557 ATTCAAATTC
1 ATTCAAATTC
4678567 TTATGACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAAATTCA
Found at i:4678785 original size:6 final size:6
Alignment explanation
Indices: 4678776--4678807 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4678766 CCAACTCCCC
4678776 ATTCAA ATTC-A ATTCAA ATTC-A ATTCAA ATTC
1 ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTC
4678808 TTATGACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (6 bp):
ATTCAA
Found at i:4678792 original size:11 final size:11
Alignment explanation
Indices: 4678776--4678807 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
4678766 CCAACTCCCC
4678776 ATTCAAATTCA
1 ATTCAAATTCA
4678787 ATTCAAATTCA
1 ATTCAAATTCA
4678798 ATTCAAATTC
1 ATTCAAATTC
4678808 TTATGACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAAATTCA
Found at i:4678879 original size:241 final size:241
Alignment explanation
Indices: 4678456--4678940 Score: 970
Period size: 241 Copynumber: 2.0 Consensus size: 241
4678446 ACTCCCCCAA
4678456 TTGGCTCCAACTTCTCCCATTTTCAAAAACTACACCAATCCCTCCACTGAATTTTCTCGTTGATT
1 TTGGCTCCAACTTCTCCCATTTTCAAAAACTACACCAATCCCTCCACTGAATTTTCTCGTTGATT
4678521 TACTCCAACTCCCCATTCAAATTCAATTCAAATTCAATTCAAATTCTTATGACCAATTCAACCAC
66 TACTCCAACTCCCCATTCAAATTCAATTCAAATTCAATTCAAATTCTTATGACCAATTCAACCAC
4678586 AGAGTTCCAGTCTAGTTCCAACACCTCCTTAGCTCAAGCAGCAAAATAAACATACAATTGCGCAC
131 AGAGTTCCAGTCTAGTTCCAACACCTCCTTAGCTCAAGCAGCAAAATAAACATACAATTGCGCAC
4678651 GCCATGCCTCGAACCTCAAACTCCTTGCCACACATGTAGTGCCACC
196 GCCATGCCTCGAACCTCAAACTCCTTGCCACACATGTAGTGCCACC
4678697 TTGGCTCCAACTTCTCCCATTTTCAAAAACTACACCAATCCCTCCACTGAATTTTCTCGTTGATT
1 TTGGCTCCAACTTCTCCCATTTTCAAAAACTACACCAATCCCTCCACTGAATTTTCTCGTTGATT
4678762 TACTCCAACTCCCCATTCAAATTCAATTCAAATTCAATTCAAATTCTTATGACCAATTCAACCAC
66 TACTCCAACTCCCCATTCAAATTCAATTCAAATTCAATTCAAATTCTTATGACCAATTCAACCAC
4678827 AGAGTTCCAGTCTAGTTCCAACACCTCCTTAGCTCAAGCAGCAAAATAAACATACAATTGCGCAC
131 AGAGTTCCAGTCTAGTTCCAACACCTCCTTAGCTCAAGCAGCAAAATAAACATACAATTGCGCAC
4678892 GCCATGCCTCGAACCTCAAACTCCTTGCCACACATGTAGTGCCACC
196 GCCATGCCTCGAACCTCAAACTCCTTGCCACACATGTAGTGCCACC
4678938 TTG
1 TTG
4678941 CCACTAGATC
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 244 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.28
Consensus pattern (241 bp):
TTGGCTCCAACTTCTCCCATTTTCAAAAACTACACCAATCCCTCCACTGAATTTTCTCGTTGATT
TACTCCAACTCCCCATTCAAATTCAATTCAAATTCAATTCAAATTCTTATGACCAATTCAACCAC
AGAGTTCCAGTCTAGTTCCAACACCTCCTTAGCTCAAGCAGCAAAATAAACATACAATTGCGCAC
GCCATGCCTCGAACCTCAAACTCCTTGCCACACATGTAGTGCCACC
Found at i:4682625 original size:46 final size:46
Alignment explanation
Indices: 4682524--4682617 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
4682514 TGTAACCCGC
* * * *
4682524 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGGCATGCGCAA
* *
4682570 CCATAAGTGAACTCGGACTCAACTCAACGAATTC-GG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGGCATGCGCAA
4682614 CCAT
1 CCAT
4682618 CCTAGTGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 9 0.21
45 2 0.05
46 31 0.74
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGGCATGCGCAA
Found at i:4690142 original size:93 final size:93
Alignment explanation
Indices: 4690030--4690201 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
4690020 CGCCCATAAG
*
4690030 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
4690094 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
4690123 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4690188 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
4690202 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:4690196 original size:46 final size:46
Alignment explanation
Indices: 4690023--4690198 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
4690013 TGTAACCCGC
* *
4690023 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
4690069 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
4690119 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
4690162 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
4690199 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:4703270 original size:6 final size:6
Alignment explanation
Indices: 4703259--4703288 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4703249 AAATGAAATG
4703259 TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
4703289 AAATAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:4703518 original size:12 final size:12
Alignment explanation
Indices: 4703501--4703525 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4703491 GAATGTTATG
4703501 TTTTAATATATT
1 TTTTAATATATT
4703513 TTTTAATATATT
1 TTTTAATATATT
4703525 T
1 T
4703526 GAAAGTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTAATATATT
Found at i:4707439 original size:49 final size:49
Alignment explanation
Indices: 4707134--4707421 Score: 440
Period size: 49 Copynumber: 5.9 Consensus size: 49
4707124 TATATAATCC
* * * *
4707134 AATGTACCTAATTTA-AATTACAAAGTTTGTTCCTCA-TTTTAATGTTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCC-AAGTTTTAATGTTGT
*
4707182 AATGTACCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
4707231 AATGTATCTAATTTATGA-CAACAAAGTTTGTTCCAAGTTTTAATGTTGT
1 AATGTATCTAATTTATGATC-ACAAAGTTTGTTCCAAGTTTTAATGTTGT
* * *
4707280 AATGTATTTAATTTATGATCACAAAGTTTATTCTAAGTTTTAATGTTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
*
4707329 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATATTGT
1 AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
4707378 AATGTATCTAATTTATGA-CTACAAAGTTTGTTCCAAGTTTTAAT
1 AATGTATCTAATTTATGATC-ACAAAGTTTGTTCCAAGTTTTAAT
4707422 ATTACAATTA
Statistics
Matches: 224, Mismatches: 11, Indels: 9
0.92 0.05 0.04
Matches are distributed among these distances:
48 18 0.08
49 205 0.92
50 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (49 bp):
AATGTATCTAATTTATGATCACAAAGTTTGTTCCAAGTTTTAATGTTGT
Found at i:4710175 original size:49 final size:49
Alignment explanation
Indices: 4710141--4710253 Score: 154
Period size: 49 Copynumber: 2.3 Consensus size: 49
4710131 CATGCCAATT
* * *
4710141 AAATTATATAAAAAATAAATCTAATAAACCTAAAACACATATGACAAAC
1 AAATTACATAAAAAATAAATCTAATAAACCTAAAACAAACATGACAAAC
* * * * *
4710190 AAATTACATAAAGATTAAATCTAATAAACCTAAAACACACATGAAAAAT
1 AAATTACATAAAAAATAAATCTAATAAACCTAAAACAAACATGACAAAC
4710239 AAATTACATAAAAAA
1 AAATTACATAAAAAA
4710254 AATAAAACAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.62, C:0.13, G:0.03, T:0.22
Consensus pattern (49 bp):
AAATTACATAAAAAATAAATCTAATAAACCTAAAACAAACATGACAAAC
Found at i:4715944 original size:15 final size:15
Alignment explanation
Indices: 4715926--4715956 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4715916 ATAACTAAAG
4715926 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
4715941 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
4715956 A
1 A
4715957 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:4730901 original size:22 final size:22
Alignment explanation
Indices: 4730876--4730920 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4730866 TTTACATAGG
4730876 AACTTACTAAGCTATATAGCTT
1 AACTTACTAAGCTATATAGCTT
4730898 AACTTACTAAGCTATATAGCTT
1 AACTTACTAAGCTATATAGCTT
4730920 A
1 A
4730921 CTCCGCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (22 bp):
AACTTACTAAGCTATATAGCTT
Found at i:4733242 original size:14 final size:14
Alignment explanation
Indices: 4733223--4733255 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4733213 AAACCCAGAA
4733223 CTTGCTCTACCATT
1 CTTGCTCTACCATT
4733237 CTTGCTCTACCATT
1 CTTGCTCTACCATT
*
4733251 ATTGC
1 CTTGC
4733256 CCTTTCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.09, T:0.42
Consensus pattern (14 bp):
CTTGCTCTACCATT
Found at i:4735087 original size:7 final size:7
Alignment explanation
Indices: 4735075--4735140 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
4735065 ATTTACTTAT
4735075 TATAATA
1 TATAATA
4735082 TATAATA
1 TATAATA
4735089 TAATATATA
1 T-ATA-ATA
4735098 TACTTAATA
1 TA--TAATA
*
4735107 -ATTAAGA
1 TA-TAATA
4735114 TATAATA
1 TATAATA
4735121 TTATAATA
1 -TATAATA
4735129 TTATAATA
1 -TATAATA
4735137 TATA
1 TATA
4735141 TTTTTTAACT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:4735102 original size:30 final size:31
Alignment explanation
Indices: 4735062--4735140 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 31
4735052 TTTTATTTAT
*
4735062 TATATTTACTTATTATAATATATA-ATATAA
1 TATATATACTTATTATAATATATAGATATAA
4735092 TATATATACTTA--ATAAT-TA-AGATATAA
1 TATATATACTTATTATAATATATAGATATAA
*
4735119 TAT-TATA-ATATTATAATATATA
1 TATATATACTTATTATAATATATA
4735141 TTTTTTAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 16 0.38
28 7 0.17
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
TATATATACTTATTATAATATATAGATATAA
Found at i:4735127 original size:8 final size:8
Alignment explanation
Indices: 4735072--4735137 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
4735062 TATATTTACT
4735072 TATTATAA
1 TATTATAA
4735080 TA-TATAA
1 TATTATAA
*
4735087 TATAAT-A
1 TATTATAA
4735094 TATATACTTAA
1 TAT-TA--TAA
*
4735105 TAAT-TAA
1 TATTATAA
*
4735112 GA-TATAA
1 TATTATAA
4735119 TATTATAA
1 TATTATAA
4735127 TATTATAA
1 TATTATAA
4735135 TAT
1 TAT
4735138 ATATTTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:4763984 original size:3 final size:3
Alignment explanation
Indices: 4763976--4764003 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4763966 CAACATTCTA
4763976 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
4764004 TATGGAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Done.