Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 29 of 206
Found at i:8489721 original size:42 final size:42
Alignment explanation
Indices: 8489656--8489738 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
8489646 AAAAACAAGG
** **
8489656 AACACACGGTCGTGTCCTTGCCCGTATAACTCACTGACTTGA
1 AACACACGACCGTGTCCCAGCCCGTATAACTCACTGACTTGA
* * *
8489698 AACACACGACCGTGTCCCAGCCCGTGTAATTCTCTGACTTG
1 AACACACGACCGTGTCCCAGCCCGTATAACTCACTGACTTG
8489739 GGTCACACGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (42 bp):
AACACACGACCGTGTCCCAGCCCGTATAACTCACTGACTTGA
Found at i:8498885 original size:22 final size:23
Alignment explanation
Indices: 8498854--8498896 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
8498844 ATTTAGTTGT
8498854 AAAATAAAAAAATATTATTTTAA
1 AAAATAAAAAAATATTATTTTAA
*
8498877 AAAAT-AAAATATATTATTTT
1 AAAATAAAAAAATATTATTTT
8498897 GAGAGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATAAAAAAATATTATTTTAA
Found at i:8500603 original size:30 final size:30
Alignment explanation
Indices: 8500569--8500630 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
8500559 ACTTATTTTA
*
8500569 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
8500599 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
8500629 TT
1 TT
8500631 TCTTTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:8501317 original size:34 final size:33
Alignment explanation
Indices: 8501230--8501352 Score: 126
Period size: 34 Copynumber: 3.6 Consensus size: 33
8501220 TACCTTTAAT
* *
8501230 TCTAAATCTTAAACCTTAAACCTCGAACTTCGAA
1 TCTAAATCCTAAACCTTAAACTTCGAACTT-GAA
* *
8501264 TCTTGAA-CCCAAACCTTAAACTTCGAACTTGAA
1 TC-TAAATCCTAAACCTTAAACTTCGAACTTGAA
*
8501297 CTCTAAATCCTAAACTTTAAA-TTCTGAACTTGAA
1 -TCTAAATCCTAAACCTTAAACTTC-GAACTTGAA
8501331 TCTCAAAT-CTAAAACCTTAAAC
1 TCT-AAATCCT-AAACCTTAAAC
8501353 CCCAAACCGA
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
33 14 0.19
34 57 0.77
35 3 0.04
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (33 bp):
TCTAAATCCTAAACCTTAAACTTCGAACTTGAA
Found at i:8506444 original size:60 final size:60
Alignment explanation
Indices: 8506363--8506480 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
8506353 TTTCCAATTT
* * *
8506363 AAACATTCTCATTATTTCACATCCCAATCAATTCCAATTAATCATGATCACACTTCCGGA
1 AAACATTCTCATCATTCCACATCACAATCAATTCCAATTAATCATGATCACACTTCCGGA
* ** *
8506423 AAACA-TCATCATCATTCCACATTACAATCCGTTCCAATTAATCATGATCACATTTCCG
1 AAACATTC-TCATCATTCCACATCACAATCAATTCCAATTAATCATGATCACACTTCCG
8506481 ATTTTAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 2 0.04
60 48 0.96
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (60 bp):
AAACATTCTCATCATTCCACATCACAATCAATTCCAATTAATCATGATCACACTTCCGGA
Found at i:8507405 original size:21 final size:21
Alignment explanation
Indices: 8507379--8507428 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
8507369 CGCTATTGAA
* *
8507379 GAAGACGATGAAGATGAAGAC
1 GAAGACGAAGAAGACGAAGAC
*
8507400 GAAGACGAAGAAGACGAAGAT
1 GAAGACGAAGAAGACGAAGAC
*
8507421 GAAAACGA
1 GAAGACGA
8507429 CGACGTCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.32, T:0.06
Consensus pattern (21 bp):
GAAGACGAAGAAGACGAAGAC
Found at i:8507413 original size:33 final size:33
Alignment explanation
Indices: 8507350--8507423 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
8507340 GGTGAAGATT
* * * *
8507350 ACGATGACGATGAAGACGACGCTATTGAAGAAG
1 ACGATGAAGATGAAGACGAAGCGATAGAAGAAG
*
8507383 ACGATGAAGATGAAGACGAAGACGA-AGAAGACG
1 ACGATGAAGATGAAGACGAAG-CGATAGAAGAAG
*
8507416 AAGATGAA
1 ACGATGAA
8507424 AACGACGACG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.46, C:0.12, G:0.31, T:0.11
Consensus pattern (33 bp):
ACGATGAAGATGAAGACGAAGCGATAGAAGAAG
Found at i:8507431 original size:15 final size:15
Alignment explanation
Indices: 8507376--8507419 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
8507366 CGACGCTATT
* *
8507376 GAAGAAGACGATGAA
1 GAAGAAGACGAAGAC
*
8507391 GATGAAGACGAAGAC
1 GAAGAAGACGAAGAC
8507406 GAAGAAGACGAAGA
1 GAAGAAGACGAAGA
8507420 TGAAAACGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.52, C:0.09, G:0.34, T:0.05
Consensus pattern (15 bp):
GAAGAAGACGAAGAC
Found at i:8509835 original size:28 final size:28
Alignment explanation
Indices: 8509795--8509849 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
8509785 AGCATTAATG
*
8509795 GTGCAATTGACTGCTAGATGGAAGTTTA
1 GTGCAATTGACTGCCAGATGGAAGTTTA
*
8509823 GTGCAATTGACTGCCGGATGGAAGTTT
1 GTGCAATTGACTGCCAGATGGAAGTTT
8509850 TGGTATTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (28 bp):
GTGCAATTGACTGCCAGATGGAAGTTTA
Found at i:8516816 original size:43 final size:43
Alignment explanation
Indices: 8516768--8516851 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
8516758 CAATAATCTC
* * *
8516768 TGGTCTATAGCGGCGTTTTTTGGAAAAGCGTCGCTAAAGGTTA
1 TGGTCTATACCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTTA
* *
8516811 TGGTCTTTACCGGCGTTTGTAGGTAAAGCGTCGCTAAAGGT
1 TGGTCTATACCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGT
8516852 CACGACTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.32
Consensus pattern (43 bp):
TGGTCTATACCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTTA
Found at i:8520493 original size:12 final size:13
Alignment explanation
Indices: 8520468--8520500 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8520458 CAGCTCTCAT
8520468 ATAAGAAGAGAAA
1 ATAAGAAGAGAAA
8520481 ATAAGAA-AGAAA
1 ATAAGAAGAGAAA
8520493 ATAA-AAGA
1 ATAAGAAGA
8520501 AACTTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 10 0.53
13 7 0.37
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (13 bp):
ATAAGAAGAGAAA
Found at i:8538839 original size:25 final size:25
Alignment explanation
Indices: 8538792--8538839 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8538782 TACACTAATA
* *
8538792 AGAGTTTAAGTGTGAAACTAAAAAT
1 AGAGTTTAAGTGGGAAACGAAAAAT
8538817 AGAGTTTAAGTGGGAGAA-GAAAA
1 AGAGTTTAAGTGGGA-AACGAAAA
8538840 GCCAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.27, T:0.23
Consensus pattern (25 bp):
AGAGTTTAAGTGGGAAACGAAAAAT
Found at i:8541562 original size:25 final size:24
Alignment explanation
Indices: 8541526--8541582 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
8541516 AAATTTCAGA
8541526 ATTTATAATTTTTATAAACT-TATAT
1 ATTT-TAATTTTT-TAAACTATATAT
* *
8541551 ATTTTAATTTTTTTAGATTATATAT
1 ATTTTAA-TTTTTTAAACTATATAT
8541576 ATTTTAA
1 ATTTTAA
8541583 ATCTCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTAATTTTTTAAACTATATAT
Found at i:8545258 original size:402 final size:400
Alignment explanation
Indices: 8544471--8545276 Score: 1423
Period size: 402 Copynumber: 2.0 Consensus size: 400
8544461 TTAGGGACTA
* * *
8544471 AATTGATCAAATCCTAAAATTTCTGGGTAAAACTGTAAAATCTAAAAAAGGGACACGTAGTCATG
1 AATTGATCAAATCCTAAAATTTCTGGGCAAAACTGTAAAATCTAAAAAAGGGACACATAGTAATG
* * *
8544536 TGATTGGACCGTGTGGAAAGCTCTAGACTGTGTGGAAGGGATACACGGCCATGTCACAAACTGTG
66 TGATTGGACCATGTGGAAAGCCCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTGTG
8544601 GCCATGTGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTAG
131 GCCATGTGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTAG
* *
8544666 GGTTTCAAGGGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTATGTGGAAGATTGTGT
196 GGTTTCAAGGGGACATGGATATGTAATGGGTTGTGTGGTCCACACGCCTATGTGGAAGATCGTGT
* * * *
8544731 GGCCCTATCTTAGGCATAGTTTTACCTCGATTAACTTGTAAAAGAACACACACCTGTCATTGGGA
261 GGCCCTATCCTAGACATAGTTTTACCTCGATTAACTTGTAAAAGAACACACACCTATCATTAGGA
*
8544796 TCTCCAGCGACGTTCCTCACGTTCAAATCTGGTCTGAGGTACTTAAACGGGTCATTCAAACGACA
326 TCTCCAGCGACGTTCCTCACGTTCAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACGACA
*
8544861 TTTACTCAAT
391 TTTACGCAAT
*
8544871 AATTGATCAAATCCTAAAATTTTTGGGCAAAACTGTAAAATCTAAAAAAAAGGGACACATAGTAA
1 AATTGATCAAATCCTAAAATTTCTGGGCAAAACTGTAAAATCT--AAAAAAGGGACACATAGTAA
8544936 TGTGATTGGACCATGTGGAAAGCCCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTG
64 TGTGATTGGACCATGTGGAAAGCCCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTG
8545001 TGGCCATGTGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCT
129 TGGCCATGTGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCT
*
8545066 AGGGTTTCAAGGGGACATGGATATGTGATGGGTTGTGTGGTCCACACGCCTATGTGGAAGATCGT
194 AGGGTTTCAAGGGGACATGGATATGTAATGGGTTGTGTGGTCCACACGCCTATGTGGAAGATCGT
*
8545131 GTGGCCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTATCATTAG
259 GTGGCCCTATCCTAGACATAGTTTTACCTCGATTAACTTGTAAAAGAACACACACCTATCATTAG
* *
8545196 GATCTCCAGGGACGTTCCTCACGTTCAAATCTGGTCTGAGGTACCTAAACGGGTCCTTCAAACGA
324 GATCTCCAGCGACGTTCCTCACGTTCAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACGA
8545261 CATTTACGCAAT
389 CATTTACGCAAT
8545273 AATT
1 AATT
8545277 AATAACGAAT
Statistics
Matches: 385, Mismatches: 19, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
400 41 0.11
402 344 0.89
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (400 bp):
AATTGATCAAATCCTAAAATTTCTGGGCAAAACTGTAAAATCTAAAAAAGGGACACATAGTAATG
TGATTGGACCATGTGGAAAGCCCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTGTG
GCCATGTGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTAG
GGTTTCAAGGGGACATGGATATGTAATGGGTTGTGTGGTCCACACGCCTATGTGGAAGATCGTGT
GGCCCTATCCTAGACATAGTTTTACCTCGATTAACTTGTAAAAGAACACACACCTATCATTAGGA
TCTCCAGCGACGTTCCTCACGTTCAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACGACA
TTTACGCAAT
Found at i:8546651 original size:33 final size:33
Alignment explanation
Indices: 8546614--8546686 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
8546604 CCTAAACACC
8546614 ACCCAAATGACATTACAGGCCCAAACGGCCCAA
1 ACCCAAATGACATTACAGGCCCAAACGGCCCAA
8546647 ACCCAAATGACATTACAGGCCCAAACGGCCCAA
1 ACCCAAATGACATTACAGGCCCAAACGGCCCAA
8546680 ACCCAAA
1 ACCCAAA
8546687 CCAACCATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.41, C:0.37, G:0.14, T:0.08
Consensus pattern (33 bp):
ACCCAAATGACATTACAGGCCCAAACGGCCCAA
Found at i:8548178 original size:18 final size:18
Alignment explanation
Indices: 8548140--8548178 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8548130 TTCACAAATG
*
8548140 TATATACATACTTATATA
1 TATATACATACTTATACA
* *
8548158 TATATATATACTTTTACA
1 TATATACATACTTATACA
8548176 TAT
1 TAT
8548179 TAAAATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (18 bp):
TATATACATACTTATACA
Found at i:8570698 original size:31 final size:31
Alignment explanation
Indices: 8570636--8570718 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
8570626 TTAACGACCA
* *
8570636 AGTGACTTAAATAAAAACTTTAGAGTGGTTT
1 AGTGACTTAAATAAAAACTTTAGAATAGTTT
*
8570667 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAACTTTAGAATAGTTT
* * * *
8570698 AATGGCTTAAATGAAACCTTT
1 AGTGACTTAAATAAAAACTTT
8570719 CGTATAATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTAGAATAGTTT
Found at i:8577784 original size:64 final size:64
Alignment explanation
Indices: 8577683--8577810 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
8577673 AAATGTTAGC
* * *
8577683 ATATAATTAGCTCCACCTTTCGAAGGCATTTTGGATGACCCCCACAGATCAAAATGAATATACT
1 ATATAAGTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAAAATGAATATACT
* *
8577747 ATATAAGTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATGTACT
1 ATATAAGTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAAAATGAATATACT
8577811 TTAACATTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (64 bp):
ATATAAGTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAAAATGAATATACT
Found at i:8579523 original size:24 final size:24
Alignment explanation
Indices: 8579495--8579544 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8579485 ATGTCTACTT
*
8579495 ATAGGCTTGTAAA-ACCATATTCTA
1 ATAGGATTG-AAACACCATATTCTA
*
8579519 ATAGGATTGAAACACCTTATTCTA
1 ATAGGATTGAAACACCATATTCTA
8579543 AT
1 AT
8579545 CAATATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (24 bp):
ATAGGATTGAAACACCATATTCTA
Found at i:8579854 original size:14 final size:13
Alignment explanation
Indices: 8579831--8579872 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8579821 TAATCTTTGA
8579831 TTTATTATTTTAT
1 TTTATTATTTTAT
8579844 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
8579857 TTTAATTTTTTTAT
1 TTT-ATTATTTTAT
8579871 TT
1 TT
8579873 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:8579870 original size:18 final size:18
Alignment explanation
Indices: 8579830--8579872 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8579820 TTAATCTTTG
8579830 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
8579847 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
8579866 -TTTATTT
1 ATTTATTT
8579873 GACTTGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 13 0.59
19 5 0.23
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:8582424 original size:3 final size:3
Alignment explanation
Indices: 8582416--8582452 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8582406 TAGTTTACTC
8582416 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8582453 AAGCTTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8586229 original size:24 final size:24
Alignment explanation
Indices: 8586213--8586264 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8586203 AATCAAAGTC
8586213 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
8586237 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
8586261 AAAT
1 AAAT
8586265 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:8591226 original size:23 final size:23
Alignment explanation
Indices: 8591196--8591268 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
8591186 GTTATTGATT
8591196 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
* * *
8591219 AGTGGTAGCTACGGCTACAAATT
1 AGTGGTAGCTTCGGCTACATATC
*
8591242 AGTTGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
8591265 AGTG
1 AGTG
8591269 TGGCACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:8598619 original size:24 final size:24
Alignment explanation
Indices: 8598604--8598655 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8598594 AATCAAAGTC
8598604 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
8598628 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
8598652 AAAT
1 AAAT
8598656 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:8602583 original size:15 final size:15
Alignment explanation
Indices: 8602560--8602592 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8602550 TTTCACAATC
8602560 AAATAAAATATTAAA
1 AAATAAAATATTAAA
*
8602575 AAATTAAATATTAAA
1 AAATAAAATATTAAA
8602590 AAA
1 AAA
8602593 CACAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAATATTAAA
Found at i:8608434 original size:3 final size:3
Alignment explanation
Indices: 8608426--8608474 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8608416 ATAGAAATAG
8608426 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8608474 A
1 A
8608475 TCAAACCTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8610189 original size:44 final size:44
Alignment explanation
Indices: 8610126--8610326 Score: 144
Period size: 44 Copynumber: 4.6 Consensus size: 44
8610116 TTATGGTAGA
* * *
8610126 TTTAATCCGAC-CTACTGCAACTTCAAAGG-TATAGGATTCATCAT
1 TTTAATCCG-CTCCACTGCAACTTCAAAGGAGATAAGATTCAT-AT
* * * *
8610170 TTTAATCCGCTCCACTGCAACTTC-AGGGAGATAGGATTAATAGC
1 TTTAATCCGCTCCACTGCAACTTCAAAGGAGATAAGATTCATA-T
* * * * *
8610214 TTCAGTCTGCTCCACTGCAACTT-TAGGGAGATAAGATTGC-TAT
1 TTTAATCCGCTCCACTGCAACTTCAAAGGAGATAAGATT-CATAT
* ** * *
8610257 CTTCAATTTGCTCCACTGCAACTTCAGA-GAGATAAGATCCATCAT
1 -TTTAATCCGCTCCACTGCAACTTCAAAGGAGATAAGATTCAT-AT
*
8610302 TTTAATCCGCTCCACTGTAACTTCA
1 TTTAATCCGCTCCACTGCAACTTCA
8610327 GGGAGATGGG
Statistics
Matches: 127, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
43 6 0.05
44 119 0.94
45 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
TTTAATCCGCTCCACTGCAACTTCAAAGGAGATAAGATTCATAT
Found at i:8610324 original size:132 final size:133
Alignment explanation
Indices: 8610139--8610393 Score: 354
Period size: 132 Copynumber: 1.9 Consensus size: 133
8610129 AATCCGACCT
* *
8610139 ACTGCAACTTCAAAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAAAGGTATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
* * * *
8610204 GATTAATAGCTTCAGTCTGCTCCACTGCAACTT-TAGGGAGATAAGA-TTGCTATCTTCAATTTG
66 GATTAATAGCTTCAATCTGCTCCACTACAA-TTCCAGGGAGATAAGATTTGCCATCTTCAATTTG
8610267 CTCC
130 CTCC
* * *
8610271 ACTGCAACTTCAGAGAG-ATAAGATCCATCATTTTAATCCGCTCCACTGTAACTTCAGGGAGATG
1 ACTGCAACTTCAAAG-GTATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
* * * *
8610335 GGATTATTGGCTTTAATCTGCTCCACTACAATTCCAGTGAGATAAGATTTGCCATCTTC
65 GGATTAATAGCTTCAATCTGCTCCACTACAATTCCAGGGAGATAAGATTTGCCATCTTC
8610394 TTCAATCCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
131 2 0.02
132 94 0.88
133 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (133 bp):
ACTGCAACTTCAAAGGTATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
GATTAATAGCTTCAATCTGCTCCACTACAATTCCAGGGAGATAAGATTTGCCATCTTCAATTTGC
TCC
Found at i:8610350 original size:44 final size:43
Alignment explanation
Indices: 8610170--8610383 Score: 189
Period size: 44 Copynumber: 4.9 Consensus size: 43
8610160 GATTCATCAT
* *
8610170 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATAGC
* * * * *
8610214 TTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATAGC
* * * * *
8610258 TTCAATTTGCTCCACTGCAACTTCAGAGAGATAAGATCCATCA-T
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAT-AGC
* * ** *
8610302 TTTAATCCGCTCCACTGTAACTTCAGGGAGATGGGATTATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TAGC
* *
8610346 TTTAATCTGCTCCACTACAA-TTCCAGTGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTT-CAGGGAGATAAGATT
8610384 TGCCATCTTC
Statistics
Matches: 134, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
43 3 0.02
44 130 0.97
45 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGC
Found at i:8615074 original size:2 final size:2
Alignment explanation
Indices: 8615067--8615103 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8615057 TTCTTTCTCC
8615067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8615104 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8622979 original size:21 final size:22
Alignment explanation
Indices: 8622954--8622998 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8622944 ATCACCCAAT
8622954 ATATATACACATAC-A-TTCATA
1 ATATATACA-ATACTATTTCATA
*
8622975 ATATATAGAATACTATTTCATA
1 ATATATACAATACTATTTCATA
8622997 AT
1 AT
8622999 GTTGATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 8 0.38
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATATACAATACTATTTCATA
Found at i:8633093 original size:106 final size:106
Alignment explanation
Indices: 8632906--8633118 Score: 354
Period size: 106 Copynumber: 2.0 Consensus size: 106
8632896 ATCACTTCAA
* *
8632906 TTTGTTGGCTAAATAATAGAAAAACGGCAATTACTAGTAATTTTAGTCTTCGTGGATATGATATT
1 TTTGTTGGCTAAATAATAGAAAAACGGCAATTACAAGTAATTTTAGTCTTCGTGAATATGATATT
* *
8632971 CCTTACTCACCGTAACTATACTATTGTTTGATAGGTGCGCT
66 CCCTACTCACCATAACTATACTATTGTTTGATAGGTGCGCT
* * *
8633012 TTTGTTGGTTAAATAATAGAAAAACGGTAATTACAAGTACTTTTAGTCTTCGTGAATATGATATT
1 TTTGTTGGCTAAATAATAGAAAAACGGCAATTACAAGTAATTTTAGTCTTCGTGAATATGATATT
*
8633077 CCCTACTCATCATAACTATACTATTGTTTGATAGGTGCGCT
66 CCCTACTCACCATAACTATACTATTGTTTGATAGGTGCGCT
8633118 T
1 T
8633119 ACCTTAGTCG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (106 bp):
TTTGTTGGCTAAATAATAGAAAAACGGCAATTACAAGTAATTTTAGTCTTCGTGAATATGATATT
CCCTACTCACCATAACTATACTATTGTTTGATAGGTGCGCT
Found at i:8642238 original size:13 final size:13
Alignment explanation
Indices: 8642222--8642247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8642212 CTACAATTTT
8642222 TTTTGCAATGTTG
1 TTTTGCAATGTTG
8642235 TTTTGCAATGTTG
1 TTTTGCAATGTTG
8642248 GGTATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
TTTTGCAATGTTG
Found at i:8643120 original size:22 final size:22
Alignment explanation
Indices: 8643092--8643137 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
8643082 AATTTTCCAA
8643092 TAATCATAGAAATAACATACTT
1 TAATCATAGAAATAACATACTT
* *
8643114 TAATCATAGAAATAATATATTT
1 TAATCATAGAAATAACATACTT
8643136 TA
1 TA
8643138 GATGCTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (22 bp):
TAATCATAGAAATAACATACTT
Found at i:8644770 original size:15 final size:15
Alignment explanation
Indices: 8644747--8644776 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8644737 TAGTCCGATG
8644747 GGATAATTTTAATTC
1 GGATAATTTTAATTC
*
8644762 GGATTATTTTAATTC
1 GGATAATTTTAATTC
8644777 TCAGCTTTTG
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:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
GGATAATTTTAATTC
Found at i:8667874 original size:29 final size:29
Alignment explanation
Indices: 8667842--8667904 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
8667832 TAAATTTTAG
*
8667842 AAAAATTATTAAATTTTAATAAAAAT-ATA
1 AAAAATTATAAAATTTT-ATAAAAATCATA
*
8667871 AAAAATTGTAAAATTTTATAAAAATCATA
1 AAAAATTATAAAATTTTATAAAAATCATA
8667900 AAAAA
1 AAAAA
8667905 ATTTTAATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAATTATAAAATTTTATAAAAATCATA
Found at i:8668122 original size:10 final size:10
Alignment explanation
Indices: 8668107--8668132 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8668097 TTCTTACAAC
8668107 TTTATAAAAT
1 TTTATAAAAT
8668117 TTTATAAAAT
1 TTTATAAAAT
8668127 TTTATA
1 TTTATA
8668133 TTTCTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTATAAAAT
Found at i:8668165 original size:11 final size:11
Alignment explanation
Indices: 8668149--8668176 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8668139 TATATTTTAT
8668149 ATTTTTTTCTA
1 ATTTTTTTCTA
8668160 ATTTTTTTCTA
1 ATTTTTTTCTA
8668171 ATTTTT
1 ATTTTT
8668177 AATATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTTTTTCTA
Found at i:8668402 original size:91 final size:90
Alignment explanation
Indices: 8668249--8668457 Score: 271
Period size: 91 Copynumber: 2.3 Consensus size: 90
8668239 AATTTTTAAT
* ** * *
8668249 AAAAGTAGGGGCTTAATTGATTTTTTTTTAAGTTTGAGGGTCTTTTTTATTCATTTTGAAAGTTC
1 AAAAGTAGGGGCTTAATTGCTTTTTTTAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTC
*
8668314 AAATAAT-CAATTGAGTGC-AAAAAA
66 AAAT-ATCCAAATGAGTGCAAAAAAA
8668338 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGG-CATTTTTGATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGCTTTTTTT-AAAA-GTTTGAGGGTC-TTTTTGATGCATTTTGAAAG
*
8668402 TTCAAGTATCCAAATGAGTGCAAAAAAA
63 TTCAAATATCCAAATGAGTGCAAAAAAA
**
8668430 AAAAACAGGGGCTTAATTGCTTCTTTTT
1 AAAAGTAGGGGCTTAATTGCTT-TTTTT
8668458 TTTTTTAAGT
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
89 26 0.25
90 5 0.05
91 43 0.41
92 26 0.25
93 5 0.05
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (90 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTC
AAATATCCAAATGAGTGCAAAAAAA
Found at i:8668614 original size:19 final size:20
Alignment explanation
Indices: 8668579--8668617 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8668569 AATTAGAAGC
8668579 TTAAACAATAATATAGAATT
1 TTAAACAATAATATAGAATT
8668599 TTAAA-AAT-ATATTAGAATT
1 TTAAACAATAATA-TAGAATT
8668618 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 10 0.56
20 5 0.28
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAACAATAATATAGAATT
Found at i:8670014 original size:36 final size:36
Alignment explanation
Indices: 8669968--8670048 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
8669958 AATTGTGACG
* *
8669968 TTTAATGTTTAAAATTATGGTCTTTTAAATTCAAAT
1 TTTATTGTTTAAAATTATGATCTTTTAAATTCAAAT
8670004 TTTATTGTTTAAAATTATGATCTTTTAAATTCAAAT
1 TTTATTGTTTAAAATTATGATCTTTTAAATTCAAAT
8670040 TTTATTGTT
1 TTTATTGTT
8670049 GATGGGATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.54
Consensus pattern (36 bp):
TTTATTGTTTAAAATTATGATCTTTTAAATTCAAAT
Found at i:8670685 original size:30 final size:31
Alignment explanation
Indices: 8670625--8670689 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
8670615 TGATGGGGTT
* *
8670625 TAAAATTAAAATAAAATAAAATAATAGATGA
1 TAAAATTAAAATAAAAGAAAACAATAGATGA
*
8670656 TAAAA-TAAAATATAAGAAAACCAAT-GATGA
1 TAAAATTAAAATAAAAGAAAA-CAATAGATGA
8670686 -AAAA
1 TAAAA
8670690 CTCTAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 4 0.13
30 18 0.60
31 8 0.27
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (31 bp):
TAAAATTAAAATAAAAGAAAACAATAGATGA
Found at i:8676540 original size:4 final size:4
Alignment explanation
Indices: 8676531--8676565 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
8676521 TATAGATTGT
*
8676531 ATAC ATAC ATAC ATAC ATAC ATAC ATTC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
8676566 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:8691785 original size:43 final size:43
Alignment explanation
Indices: 8691737--8691869 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
8691727 CCACATGGAC
* * * *
8691737 GTGTCTCTTGACCATGTAAGACACACAACCTGGCCACACGGGCT
1 GTGTCTCTTGGCCGTGTGAGACACACGACCTGGCCACACGGG-T
*
8691781 -TGTCTCTTGGCCGTGTGAGACACACGACCTAGCCACACGGGT
1 GTGTCTCTTGGCCGTGTGAGACACACGACCTGGCCACACGGGT
* *
8691823 GTGTCAT-TTGGCCGTGTGAGACACACGGCCTGGCTACACGGGT
1 GTGTC-TCTTGGCCGTGTGAGACACACGACCTGGCCACACGGGT
8691866 GTGT
1 GTGT
8691870 GTCCTCAGTA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 77 0.97
44 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.23
Consensus pattern (43 bp):
GTGTCTCTTGGCCGTGTGAGACACACGACCTGGCCACACGGGT
Found at i:8693724 original size:18 final size:19
Alignment explanation
Indices: 8693689--8693725 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
8693679 ATTTATTCGT
8693689 ATTTAAAGTATTACATAAA
1 ATTTAAAGTATTACATAAA
8693708 ATTT-AAGTCATTA-ATAAA
1 ATTTAAAGT-ATTACATAAA
8693726 TTATGTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTTAAAGTATTACATAAA
Found at i:8695499 original size:2 final size:2
Alignment explanation
Indices: 8695457--8695485 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8695447 GAAATACAAA
8695457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8695486 ATGGAATCTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8697230 original size:31 final size:31
Alignment explanation
Indices: 8697195--8697255 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
8697185 TGAATCAAAA
* *
8697195 TTTTGTCTCTTGATATATGGAAAGTCAAAGG
1 TTTTGCCTCTTGATATATGGAAAGCCAAAGG
*
8697226 TTTTGCCTCTTGATCTATGGAAAGCCAAAG
1 TTTTGCCTCTTGATATATGGAAAGCCAAAG
8697256 TTCCAGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (31 bp):
TTTTGCCTCTTGATATATGGAAAGCCAAAGG
Found at i:8718371 original size:2 final size:2
Alignment explanation
Indices: 8718364--8718401 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8718354 ATTGATAACC
8718364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8718402 TAACTAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8718817 original size:21 final size:21
Alignment explanation
Indices: 8718793--8718832 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8718783 CACCGGGCTT
8718793 CAACACCCTCA-CCATCTCCCC
1 CAACACCCTCATCC-TCTCCCC
8718814 CAACACCCTCATCCTCTCC
1 CAACACCCTCATCCTCTCC
8718833 GCCGCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.23, C:0.60, G:0.00, T:0.17
Consensus pattern (21 bp):
CAACACCCTCATCCTCTCCCC
Found at i:8726924 original size:18 final size:16
Alignment explanation
Indices: 8726887--8726916 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8726877 TTTATAATAC
8726887 TTTATATTATATTATT
1 TTTATATTATATTATT
8726903 TTTATA-TATATTAT
1 TTTATATTATATTAT
8726917 GTAATTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATTATATTATT
Found at i:8729099 original size:22 final size:23
Alignment explanation
Indices: 8729072--8729123 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
8729062 GATTAGTGAT
8729072 TTAATATAAATATAA-ATATATAA
1 TTAATAT-AATATAACATATATAA
* *
8729095 -TAATATTATTTAACATATATAA
1 TTAATATAATATAACATATATAA
8729117 TTAATAT
1 TTAATAT
8729124 GATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAATATAATATAACATATATAA
Found at i:8734433 original size:25 final size:22
Alignment explanation
Indices: 8734386--8734449 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
8734376 TATATTTTTA
8734386 TTAATTTTTATATATTATCATT
1 TTAATTTTTATATATTATCATT
*
8734408 TTAATTATTTTTATATTATC---
1 TTAATT-TTTATATATTATCATT
8734428 -TAATTTTT-TATATTATCTATT
1 TTAATTTTTATATATTATC-ATT
8734449 T
1 T
8734450 AATATCTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
17 9 0.26
18 3 0.09
19 5 0.14
22 6 0.17
23 12 0.34
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TTAATTTTTATATATTATCATT
Found at i:8734438 original size:23 final size:23
Alignment explanation
Indices: 8734381--8734427 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8734371 GTCTTTATAT
8734381 TTTTATTAATTTTTATATATTATCA
1 TTTTATT-A-TTTTATATATTATCA
8734406 TTTTAATTATTTT-TATATTATC
1 TTTT-ATTATTTTATATATTATC
8734428 TAATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 5 0.24
26 3 0.14
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTATTATTTTATATATTATCA
Found at i:8736133 original size:26 final size:28
Alignment explanation
Indices: 8736078--8736133 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
8736068 CTCTTTTATG
*
8736078 TATATAAATAAAATAATAAATATGTGAT
1 TATATAAATAAAATAATAAATATGTAAT
8736106 TATAT-AATAAAAT-ATAAAATAT-TAAT
1 TATATAAATAAAATAAT-AAATATGTAAT
8736132 TA
1 TA
8736134 AAAAAGATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (28 bp):
TATATAAATAAAATAATAAATATGTAAT
Found at i:8737566 original size:34 final size:35
Alignment explanation
Indices: 8737523--8737601 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
8737513 GGTAGCAATC
* *
8737523 AATATGCTTATAAAAGTTCGGTACAATAG-AAAAT
1 AATATGCTTATAAAAGATCGATACAATAGTAAAAT
* * *
8737557 AATATGCTTATAACAGATCGATTCAGTAGTAAAAT
1 AATATGCTTATAAAAGATCGATACAATAGTAAAAT
8737592 -ATATGCTTAT
1 AATATGCTTAT
8737602 CATGTGTTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 34 0.87
35 5 0.13
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (35 bp):
AATATGCTTATAAAAGATCGATACAATAGTAAAAT
Found at i:8740809 original size:2 final size:2
Alignment explanation
Indices: 8740802--8740838 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
8740792 AACTCAAAGA
8740802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8740839 GTATTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8741957 original size:21 final size:22
Alignment explanation
Indices: 8741918--8741958 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8741908 TTTTATTTTA
8741918 ATATTTTCAAAACTATTAAGAT
1 ATATTTTCAAAACTATTAAGAT
8741940 ATATCTTT-AAAA-TATTAAG
1 ATAT-TTTCAAAACTATTAAG
8741959 TAAGATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (22 bp):
ATATTTTCAAAACTATTAAGAT
Found at i:8743131 original size:20 final size:20
Alignment explanation
Indices: 8743088--8743131 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8743078 GTGTTTATAT
* * *
8743088 TTTTTTAATTTAATTTTTAA
1 TTTTTTAAGTTAAATTTGAA
*
8743108 TTTTTTAAGTTAAATTTGAC
1 TTTTTTAAGTTAAATTTGAA
8743128 TTTT
1 TTTT
8743132 AGTTTTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTTAAGTTAAATTTGAA
Found at i:8750396 original size:44 final size:43
Alignment explanation
Indices: 8750348--8750572 Score: 208
Period size: 44 Copynumber: 5.2 Consensus size: 43
8750338 GTTTTAATCC
8750348 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATT-GTAGCTTTTGTCT
* * *
8750392 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC----GATCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTGTA-GCTTTTG-TCT
* * ** * * * *
8750433 ACTCTACTGCAACTTCAAAGAGATAAGATCTGT-GGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAGGAT-TGTAGCTTTT-GTCT
**
8750477 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATT-GTAGCTTTTGTCT
** *
8750521 GCTCCACTGCAACTTCAGGGAGATAGGATTGTTTCCTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTG-TAGCTTTTGTCT
8750565 GCTCCACT
1 GCTCCACT
8750573 ATTGCTTTGG
Statistics
Matches: 147, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
40 2 0.01
41 27 0.18
42 2 0.01
43 4 0.03
44 108 0.73
45 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTGTAGCTTTTGTCT
Found at i:8750882 original size:44 final size:43
Alignment explanation
Indices: 8750822--8751024 Score: 178
Period size: 44 Copynumber: 4.7 Consensus size: 43
8750812 GATGCGATCT
* *
8750822 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGT-GTTTTAATCC
* * ** *
8750866 GCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGT-TTTAATCC
* * *** *
8750910 GCTCCACCGCAACTTCAGGGAGATAAGA-CT-TGATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGTTTTAATCC
* * *
8750951 GCTCTACTGCAACTTCAGAGATATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGT-GTTTTAATCC
* * *
8750995 GCTCCATTGCAACTTGAGGGAGATAGGATC
1 GCTCCACTGCAACTTCAGGGAGATAAGATC
8751025 GGTTTCTTTC
Statistics
Matches: 123, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
41 28 0.23
42 3 0.02
43 3 0.02
44 89 0.72
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGTTTTAATCC
Found at i:8751030 original size:129 final size:128
Alignment explanation
Indices: 8750800--8751109 Score: 512
Period size: 129 Copynumber: 2.4 Consensus size: 128
8750790 CCGTTGTAGA
8750800 GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
1 GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
* * *
8750865 CGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTTTGTCTGCTCCACCGCAACTTCAGG
66 CGCTCCACTGCAACTTCAGGGAGATAGGATCAGTTTCTTTCGTCTGCTCCACCACAACTT-AGG
*
8750929 GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGATATAAGATCTGTGGTTTTAATC
1 GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
* * * * **
8750994 CGCTCCATTGCAACTTGAGGGAGATAGGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
66 CGCTCCACTGCAACTTCAGGGAGATAGGATCAGTTTCTTTCGTCTGCTCCACCACAACTTAGG
*
8751057 GAGATAAGACTTGATGCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
1 GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
8751110 ATAATGTATA
Statistics
Matches: 169, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
128 54 0.32
129 115 0.68
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (128 bp):
GAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
CGCTCCACTGCAACTTCAGGGAGATAGGATCAGTTTCTTTCGTCTGCTCCACCACAACTTAGG
Found at i:8751218 original size:50 final size:50
Alignment explanation
Indices: 8751157--8751400 Score: 182
Period size: 50 Copynumber: 4.9 Consensus size: 50
8751147 GGGGAACACA
* *
8751157 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAG
** * * ** * ** ***
8751207 ATTCGTTGTTGTGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAG
* * * ** * *
8751257 ATTCGTCGTCGTAGCTTTAATCTACTCCACTGCACCGCCAGAGAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAG
* * ** * * ** * *
8751307 ATTCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAG
* * *
8751357 ATTCACCGTTGTAGCTTTAATCTGTTCCACTGCACCGCTAGGGA
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
8751401 TATGGGTAAC
Statistics
Matches: 135, Mismatches: 59, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
50 135 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGCAAG
Found at i:8751271 original size:100 final size:100
Alignment explanation
Indices: 8751120--8751400 Score: 404
Period size: 100 Copynumber: 2.8 Consensus size: 100
8751110 ATAATGTATA
* * *
8751120 GCTTCAATCCTTTTAAACTGCAATGTCGGGGAA-CACA-ATTCACCGTTGTAGCTTCAATCTGTT
1 GCTTCAAT-CTTTTTAATTGCAATGTCGGGGAAGCA-AGATTCACCGTTGTAGCTTTAATCTGTT
**
8751183 CCACTGCACCGCCAGGGAAGTAAGATTCGTTGTTGTG
64 CCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
* ** * **
8751220 GCTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAGATTCGTCGTCGTAGCTTTAATCTACTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCC
*
8751285 ACTGCACCGCCAGAGAAGTAAGATTCGCCGTTGTG
66 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
*
8751320 GCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCC
*
8751385 ACTGCACCGCTAGGGA
66 ACTGCACCGCCAGGGA
8751401 TATGGGTAAC
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
99 22 0.14
100 136 0.86
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (100 bp):
GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCC
ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTG
Found at i:8752656 original size:13 final size:14
Alignment explanation
Indices: 8752640--8752681 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
8752630 TTCTTTTTCA
8752640 TTATTCTTT-TTTT
1 TTATTCTTTCTTTT
8752653 TTATT-TTTCTTTT
1 TTATTCTTTCTTTT
* *
8752666 TTTTTGTTTCTTTT
1 TTATTCTTTCTTTT
8752680 TT
1 TT
8752682 CAAGTGAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 3 0.12
13 13 0.50
14 10 0.38
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.86
Consensus pattern (14 bp):
TTATTCTTTCTTTT
Found at i:8752662 original size:16 final size:17
Alignment explanation
Indices: 8752628--8752670 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
8752618 GGCCTCTCCT
8752628 TTTTCTTTTTCATTATTC
1 TTTT-TTTTTCATTATTC
*
8752646 TTTTTTTTT-ATTTTTC
1 TTTTTTTTTCATTATTC
8752662 TTTTTTTTT
1 TTTTTTTTT
8752671 GTTTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.62
17 5 0.21
18 4 0.17
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTCATTATTC
Found at i:8760059 original size:25 final size:25
Alignment explanation
Indices: 8760025--8760076 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
8760015 GTTTATCCAT
8760025 ATGCGAGTTGGGGATAAACAAAATC
1 ATGCGAGTTGGGGATAAACAAAATC
8760050 ATGCGAGTTGGGGATAAACAAAATC
1 ATGCGAGTTGGGGATAAACAAAATC
8760075 AT
1 AT
8760077 ACATCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (25 bp):
ATGCGAGTTGGGGATAAACAAAATC
Found at i:8764262 original size:20 final size:19
Alignment explanation
Indices: 8764229--8764269 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
8764219 AATCTTTTAG
*
8764229 ATTTTTAATATTTTTAAAA
1 ATTTTTAATATTTTCAAAA
*
8764248 ATTTTATAATTTTTTCAAAA
1 ATTTT-TAATATTTTCAAAA
8764268 AT
1 AT
8764270 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTTAATATTTTCAAAA
Found at i:8764290 original size:18 final size:19
Alignment explanation
Indices: 8764269--8764305 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8764259 TTTTCAAAAA
8764269 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
8764287 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
8764306 AAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:8764312 original size:19 final size:20
Alignment explanation
Indices: 8764274--8764314 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
8764264 AAAAATATAA
* *
8764274 ATTTTAGAATTTTTATAAAT
1 ATTTTAGAATTTTAAAAAAT
8764294 ATTTT-GAATTTTAAAAAAT
1 ATTTTAGAATTTTAAAAAAT
8764313 AT
1 AT
8764315 ATTTTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTTAGAATTTTAAAAAAT
Found at i:8780488 original size:44 final size:45
Alignment explanation
Indices: 8780395--8780494 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
8780385 AATCTCGACT
* *
8780395 TTCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TTCATTTTCAAATGCTTATCAAATATAAGCATTGTATTAACCAAA
*
8780440 -TCATTTTCAAATGCTTATCAAATAT-AGCATCTAGT-TTAA-TAAA
1 TTCATTTTCAAATGCTTATCAAATATAAGCAT-T-GTATTAACCAAA
8780483 TTCATTTT-AAAT
1 TTCATTTTCAAAT
8780495 TGTAAATGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
43 11 0.22
44 36 0.73
45 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (45 bp):
TTCATTTTCAAATGCTTATCAAATATAAGCATTGTATTAACCAAA
Found at i:8781051 original size:13 final size:13
Alignment explanation
Indices: 8781033--8781093 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
8781023 ACACTCAAAT
*
8781033 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
* *
8781046 TTCTCAAAAACAT
1 TTCTCAAAAGCAC
*
8781059 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
8781072 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
8781085 TTCTCAAAA
1 TTCTCAAAA
8781094 ATAATAAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.28
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:8787325 original size:29 final size:29
Alignment explanation
Indices: 8787264--8787326 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8787254 CAAAGTATTA
*
8787264 AATAATTTATTAAAATAATAAATTATATC
1 AATAATTTATTAAAATAATAAATTAGATC
*
8787293 AATAATTTATT-ATATGAATAAATATAGAT-
1 AATAATTTATTAAAAT-AATAAAT-TAGATC
8787322 AATAA
1 AATAA
8787327 AATATGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 23 0.77
30 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (29 bp):
AATAATTTATTAAAATAATAAATTAGATC
Found at i:8787403 original size:22 final size:20
Alignment explanation
Indices: 8787350--8787403 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
8787340 AATAATATTG
*
8787350 AAAAATATAATATTTTAAATT
1 AAAAATA-AATATTTTAAAAT
8787371 AAAATATTAAATATTTTTAAAAAT
1 AAAA-A-TAAATA-TTTT-AAAAT
8787395 AAAAATAAA
1 AAAAATAAA
8787404 ATTAATTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.14
22 9 0.32
23 7 0.25
24 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATAAATATTTTAAAAT
Found at i:8787405 original size:23 final size:21
Alignment explanation
Indices: 8787350--8787405 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
8787340 AATAATATTG
* *
8787350 AAAAATATAATATTTTAAATT
1 AAAAATAAAATATTTTAAAAT
*
8787371 AAAATATTAAATATTTTTAAAAAT
1 AAAA-ATAAAATA-TTTT-AAAAT
8787395 AAAAATAAAAT
1 AAAAATAAAAT
8787406 TAATTATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 6 0.21
23 10 0.36
24 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATAAAATATTTTAAAAT
Found at i:8789852 original size:19 final size:20
Alignment explanation
Indices: 8789817--8789855 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8789807 AATACATCTA
8789817 TAATATAATATAGACAATAT
1 TAATATAATATAGACAATAT
8789837 TAATA-AATATTA-ACAATAT
1 TAATATAATA-TAGACAATAT
8789856 AGATAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
TAATATAATATAGACAATAT
Found at i:8792556 original size:152 final size:152
Alignment explanation
Indices: 8792280--8792586 Score: 596
Period size: 152 Copynumber: 2.0 Consensus size: 152
8792270 CGGGACGCTC
8792280 TTTCGAGCTGTGGTGTGTTTGCAACAGATGCAAGACCACAACCAATTCGGGAACCTTGTATTTGT
1 TTTCGAGCTGTGGTGTGTTTGCAACAGATGCAAGACCACAACCAATTCGGGAACCTTGTATTTGT
8792345 AACAGCCTGATTTTTAGTGATGTCAAAAATAGTGGTTCGAGACCACCAAATTCGGTAAATAAGCT
66 AACAGCCTGATTTTTAGTGATGTCAAAAATAGTGGTTCGAGACCACCAAATTCGGTAAATAAGCT
8792410 CGTAATTTTTTATTATTTAATA
131 CGTAATTTTTTATTATTTAATA
*
8792432 TTTCGAGCTGTGGTGTGTTTGCAACAGATGCAGGACCACAACCAATTCGGGAACCTTGTATTTGT
1 TTTCGAGCTGTGGTGTGTTTGCAACAGATGCAAGACCACAACCAATTCGGGAACCTTGTATTTGT
*
8792497 AACAGCCTGATTTTTAGTGATGTCGAAAATAGTGGTTCGAGACCACCAAATTCGGTAAATAAGCT
66 AACAGCCTGATTTTTAGTGATGTCAAAAATAGTGGTTCGAGACCACCAAATTCGGTAAATAAGCT
8792562 CGTAATTTTTTATTATTTAATA
131 CGTAATTTTTTATTATTTAATA
8792584 TTT
1 TTT
8792587 ATGAGTCAAA
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 153 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (152 bp):
TTTCGAGCTGTGGTGTGTTTGCAACAGATGCAAGACCACAACCAATTCGGGAACCTTGTATTTGT
AACAGCCTGATTTTTAGTGATGTCAAAAATAGTGGTTCGAGACCACCAAATTCGGTAAATAAGCT
CGTAATTTTTTATTATTTAATA
Found at i:8806905 original size:21 final size:20
Alignment explanation
Indices: 8806868--8806906 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8806858 TAAGTTTTAT
*
8806868 AAATTTTTAAAACATTAATA
1 AAATTTTAAAAACATTAATA
*
8806888 AAATTTATAAAAATATTAA
1 AAATTT-TAAAAACATTAA
8806907 AATTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTTAAAAACATTAATA
Found at i:8806925 original size:17 final size:16
Alignment explanation
Indices: 8806884--8806936 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
8806874 TTAAAACATT
*
8806884 AATAAAATTTATAAAAA
1 AATAAAAATTA-AAAAA
* *
8806901 TATTAAAATTCAAAAAA
1 AATAAAAATT-AAAAAA
*
8806918 AATAAAAATTAATAAA
1 AATAAAAATTAAAAAA
8806934 AAT
1 AAT
8806937 CATTTTAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 8 0.28
17 20 0.69
18 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAAAAATTAAAAAA
Found at i:8812730 original size:30 final size:29
Alignment explanation
Indices: 8812691--8812757 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
8812681 ACAAATAAAA
*
8812691 GCCGTTTTTTTCCAAAATTTATCGAAATGG
1 GCCGATTTTTT-CAAAATTTATCGAAATGG
* ** *
8812721 GCCGATTTTTTGATTATTTATCGGAATGG
1 GCCGATTTTTTCAAAATTTATCGAAATGG
8812750 GCC-ATTTT
1 GCCGATTTT
8812758 CCGCGAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 5 0.16
29 17 0.53
30 10 0.31
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.43
Consensus pattern (29 bp):
GCCGATTTTTTCAAAATTTATCGAAATGG
Found at i:8816297 original size:34 final size:36
Alignment explanation
Indices: 8816259--8816326 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
8816249 TTTATTTTTC
8816259 CTTTTTTTGAAAT-C-GTTTATACATACAAATATTT
1 CTTTTTTTGAAATACTGTTTATACATACAAATATTT
* *
8816293 CTTTTTTTTAAATACTGTTTATACATACATATAT
1 CTTTTTTTGAAATACTGTTTATACATACAAATAT
8816327 ATATATGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 12 0.40
35 1 0.03
36 17 0.57
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.51
Consensus pattern (36 bp):
CTTTTTTTGAAATACTGTTTATACATACAAATATTT
Found at i:8816881 original size:23 final size:22
Alignment explanation
Indices: 8816839--8816883 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
8816829 TTTCTGTAAA
*
8816839 TATATTTATTTTATCATTTTAT
1 TATATTTATTATATCATTTTAT
*
8816861 TATATTTACTTATATCCTTTTAT
1 TATATTTA-TTATATCATTTTAT
8816884 AATTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTTATTATATCATTTTAT
Found at i:8817063 original size:19 final size:21
Alignment explanation
Indices: 8817041--8817083 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
8817031 TACGTAATTA
*
8817041 TTTACTATT-GTTTTTA-TTT
1 TTTACTATTAGTTTCTACTTT
*
8817060 TTTATTATTAGTTTCTACTTT
1 TTTACTATTAGTTTCTACTTT
8817081 TTT
1 TTT
8817084 CTCTTTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 6 0.30
21 6 0.30
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTACTATTAGTTTCTACTTT
Found at i:8820193 original size:22 final size:23
Alignment explanation
Indices: 8820149--8820193 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
8820139 GAAAGGCTAA
* *
8820149 AAAAACTTACTACAAGAGTAGAC
1 AAAAACTTACTAAAAGAGAAGAC
*
8820172 AAAAACTT-CTAAAAGTGAAGAC
1 AAAAACTTACTAAAAGAGAAGAC
8820194 TTATTAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (23 bp):
AAAAACTTACTAAAAGAGAAGAC
Found at i:8821997 original size:127 final size:127
Alignment explanation
Indices: 8821842--8822070 Score: 338
Period size: 128 Copynumber: 1.8 Consensus size: 127
8821832 AAAACTTTGT
8821842 ATTTTAAAATTTTAAAAGGATATTTTGC-TATTTAAATTTAACGAGAAAA-TCGAAACCCCGTAA
1 ATTTTAAAATTTTAAAAGGATATTTTGCTTATTTAAATTTAACGAGAAAACT-GAAACCCCGTAA
*
8821905 GTTAGGGTACAG-TTTCTTGAATTCCCAAAAACGTGAAATTTTGCCTTATATCGAGATTTCTTTC
65 GTTAGGGTA-AGATTTCTTGAATTCCC-AAAACGCGAAATTTTGCCTTATATCGAGATTTCTTTC
* ** **
8821969 ATTTTGAAATTTTAAAAGGATATTTTGCTTATTTAGGTTTATTGAGAAAACTGAAACCCCGTAAG
1 ATTTTAAAATTTTAAAAGGATATTTTGCTTATTTAAATTTAACGAGAAAACTGAAACCCCGTAAG
* *
8822034 TTAGGGTATGATTTCTTGAATTTCCAAAACGCGAAAT
66 TTAGGGTAAGATTTCTTGAATTCCCAAAACGCGAAAT
8822071 ATTGTGTTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
127 39 0.43
128 51 0.56
129 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (127 bp):
ATTTTAAAATTTTAAAAGGATATTTTGCTTATTTAAATTTAACGAGAAAACTGAAACCCCGTAAG
TTAGGGTAAGATTTCTTGAATTCCCAAAACGCGAAATTTTGCCTTATATCGAGATTTCTTTC
Found at i:8823454 original size:22 final size:22
Alignment explanation
Indices: 8823429--8823474 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8823419 TTTGTTTTGA
*
8823429 CTTTATTTATTTACTTTT-TTTT
1 CTTTATCT-TTTACTTTTATTTT
*
8823451 CTTTCTCTTTTACTTTTATTTT
1 CTTTATCTTTTACTTTTATTTT
8823473 CT
1 CT
8823475 ATTCTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (22 bp):
CTTTATCTTTTACTTTTATTTT
Found at i:8823462 original size:21 final size:23
Alignment explanation
Indices: 8823438--8823479 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
8823428 ACTTTATTTA
8823438 TTTACTTTT-TTTTCT-TTCTCT
1 TTTACTTTTATTTTCTATTCTCT
8823459 TTTACTTTTATTTTCTATTCT
1 TTTACTTTTATTTTCTATTCT
8823480 TCATCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTACTTTTATTTTCTATTCTCT
Found at i:8823558 original size:3 final size:3
Alignment explanation
Indices: 8823550--8823617 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
8823540 ATTTTTTAGC
*
8823550 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8823598 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
8823618 TACTTATTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8829196 original size:35 final size:37
Alignment explanation
Indices: 8829156--8829227 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
8829146 TACGTATGAT
8829156 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
* *
8829191 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
8829228 TAAAGCTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 10 0.30
36 3 0.09
37 20 0.61
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
Found at i:8829243 original size:46 final size:46
Alignment explanation
Indices: 8829191--8829315 Score: 144
Period size: 52 Copynumber: 2.6 Consensus size: 46
8829181 TAAGTGTAGC
*
8829191 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG-CTAAAGCTAT
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCGAAA-CTAT
*
8829237 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAACTAT
1 CACTTATCAC-TTT--GTT-T--CTTGATCAGATAAGTGTAGCCGAAACTAT
**
8829289 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTTTCTTGATCAGA
8829316 AGTACTCAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
46 20 0.30
47 3 0.04
49 3 0.04
50 1 0.01
51 3 0.04
52 33 0.49
53 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCGAAACTAT
Found at i:8829270 original size:52 final size:53
Alignment explanation
Indices: 8829208--8829309 Score: 172
Period size: 52 Copynumber: 1.9 Consensus size: 53
8829198 CACTTTGTTT
*
8829208 CTTGATCAGATAAGTGTAG-CTAAAGCTATCACTTATCACTTT-TCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAA-CTATCACTTATCACTTTGTCACTTGTCA
8829260 CTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCACTTG
1 CTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCACTTG
8829310 ATCAGAAGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 36 0.77
53 11 0.23
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (53 bp):
CTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCACTTTGTCACTTGTCA
Found at i:8840498 original size:5 final size:5
Alignment explanation
Indices: 8840488--8840550 Score: 72
Period size: 5 Copynumber: 12.6 Consensus size: 5
8840478 ATATATATAT
* * * * * *
8840488 ATTCC ATTCC ATACC ATTCC ACTCC ATTCC ATACT ATTCC ATTTC ATACC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
8840538 ATTCC ATTCC ATT
1 ATTCC ATTCC ATT
8840551 TCATCAAGCA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTCC
Found at i:8840554 original size:20 final size:20
Alignment explanation
Indices: 8840488--8840550 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
8840478 ATATATATAT
8840488 ATTCCATTCCATACCATTCC
1 ATTCCATTCCATACCATTCC
* *
8840508 ACTCCATTCCATACTATTCC
1 ATTCCATTCCATACCATTCC
* * *
8840528 ATTTCATACCATTCCATTCC
1 ATTCCATTCCATACCATTCC
8840548 ATT
1 ATT
8840551 TCATCAAGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTCCATTCCATACCATTCC
Found at i:8841582 original size:51 final size:50
Alignment explanation
Indices: 8841456--8841901 Score: 283
Period size: 51 Copynumber: 8.8 Consensus size: 50
8841446 TCATTCGATA
* * * **
8841456 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AATTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTAT-CAATT
* * * *
8841506 CACGTTGTAGCTTTCACATAGTACTACACATGTAACCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AATTTATCAATT
* * * * *
8841557 CATGTAGTAGCCTTCACACAGTACTACACATATGTGACTAAAGCTTT-TCAGTA
1 CACGTAGTAGCCTTCACATAGTACTACAC--ATGTGACCAAA--TTTATCAATT
* * * *
8841610 CACATAGTAGCCTTCACTTAGTACTACACATGTAACCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AATTTATCAATT
* * * * ** *
8841661 CATGTAGTAGCCTTCACACT-GTACTACACAAGTGACCAAAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACA-TAGTACTACACATGTGACCAAA-TTTATCAATT
** * * * * * *
8841712 CATATTGTAGACGTCACTTAGTACTACACATGTGACCATTATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AATTTATCAATT
* * * * ** *
8841763 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAA-TTTATCAATT
* * * * * *
8841814 CACATTGTAGCCTTCACTTAGTACTACACATGTGACC---TTTCGTTCCAGTA
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAATTT--AT-CAATT
* * *
8841864 CGCGTAGTAGCCTACACATAGTACTACACACGTGACCA
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCA
8841902 TCACTTTCAC
Statistics
Matches: 303, Mismatches: 76, Indels: 33
0.74 0.18 0.08
Matches are distributed among these distances:
47 2 0.01
49 1 0.00
50 73 0.24
51 179 0.59
52 9 0.03
53 36 0.12
54 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTATCAATT
Found at i:8841847 original size:102 final size:102
Alignment explanation
Indices: 8841456--8841901 Score: 540
Period size: 102 Copynumber: 4.4 Consensus size: 102
8841446 TCATTCGATA
* * * * * * *
8841456 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTTGTAGCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTGTAGCCT
*
8841519 TCACATAGTACTACACATGTAACCATCATTTATCAATT
65 TCACTTAGTACTACACATGTAACCATCATTTATCAATT
* * * * * *
8841557 CATGTAGTAGCCTTCACACAGTACTACACATATGTGACTAAAGCTTTTCAGTACACATAGTAGCC
1 CACGTAGTAGCCTTCACACAGTACTACAC--ACGTGACCAAAGCTTCTCGGTACACATTGTAGCC
8841622 TTCACTTAGTACTACACATGTAACCATCATTTATCAATT
64 TTCACTTAGTACTACACATGTAACCATCATTTATCAATT
* * * * * *
8841661 CATGTAGTAGCCTTCACACTGTACTACACAAGTGACCAAAGCTTCTCGGTACATATTGTAGACGT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTT
* * *
8841726 CACTTAGTACTACACATGTGACCATTATTTATCGATT
66 CACTTAGTACTACACATGTAACCATCATTTATCAATT
8841763 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTT
* * * * * *
8841828 CACTTAGTACTACACATGTGACCTTTC-GTT-CCAGTA
66 CACTTAGTACTACACATGTAACC-ATCATTTATCAATT
* * *
8841864 CGCGTAGTAGCCTACACATAGTACTACACACGTGACCA
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
8841902 TCACTTTCAC
Statistics
Matches: 300, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
101 64 0.21
102 146 0.49
103 6 0.02
104 80 0.27
105 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTT
CACTTAGTACTACACATGTAACCATCATTTATCAATT
Found at i:8844368 original size:29 final size:29
Alignment explanation
Indices: 8844300--8844359 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
8844290 TTCTAAGCTT
8844300 CATATTCCATCATAAAACATCAAAATTTA
1 CATATTCCATCATAAAACATCAAAATTTA
8844329 CATATTCCATCATAAAACATCAAAATTTA
1 CATATTCCATCATAAAACATCAAAATTTA
8844358 CA
1 CA
8844360 CTTTTCATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (29 bp):
CATATTCCATCATAAAACATCAAAATTTA
Found at i:8847078 original size:44 final size:44
Alignment explanation
Indices: 8846930--8847098 Score: 168
Period size: 44 Copynumber: 3.9 Consensus size: 44
8846920 AGTTCGTACA
* ** * * *
8846930 ATGCCAACGTCTCAGATTTGGTCTTACATGTAA-TC-AAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAGTCTCAA-ATCG
*
8846973 ATG-CAACTGTCCCAGATAG-GGTCTTACACGAAAGTCTCAAATCG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGAAAGTCTCAAATCG
*
8847017 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAGTCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAGTCTCAAATCG
* * * *
8847061 ATGCTAACGTCCTAGACGTAGTCTTACAC-AAAATCTCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAGTCTCA
8847099 TACCGGAATC
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
42 4 0.04
43 31 0.29
44 66 0.62
45 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAGTCTCAAATCG
Found at i:8847098 original size:87 final size:86
Alignment explanation
Indices: 8846930--8847098 Score: 193
Period size: 87 Copynumber: 1.9 Consensus size: 86
8846920 AGTTCGTACA
* ** *
8846930 ATGCCAACGTCTCAGATTTGGTCTTACATGTAATCAAATATCGATGCAACTGTCCCAGATAGGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCAACTGTCCCAGATA-GGT
*
8846995 CTTACACGAAAGTCTCAAATCG
65 CTTACACGAAAATCTCAAATCG
* *
8847017 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAGTCTCAA-ATCGATGCTAAC-GTCCTAGACGT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAA-TC-AAATATCGATGC-AACTGTCCCAGA--T
8847080 A-GTCTTACAC-AAAATCTCA
61 AGGTCTTACACGAAAATCTCA
8847099 TACCGGAATC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
87 37 0.53
88 26 0.37
89 5 0.07
90 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCAACTGTCCCAGATAGGTC
TTACACGAAAATCTCAAATCG
Found at i:8850770 original size:21 final size:21
Alignment explanation
Indices: 8850746--8850797 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
8850736 GCGGTGGCAA
* * *
8850746 TGAGATTAGTTACTGTTGCGG
1 TGAGATTAGATACTGTAGCAG
* *
8850767 TGAGATTGGATATTGTAGCAG
1 TGAGATTAGATACTGTAGCAG
8850788 TGAGATTAGA
1 TGAGATTAGA
8850798 AACAATGGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.35
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAG
Found at i:8852828 original size:16 final size:16
Alignment explanation
Indices: 8852788--8852828 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8852778 GGCTTTTACT
8852788 TATATATTTTCAAAAA
1 TATATATTTTCAAAAA
*
8852804 TATAAATTTTCAATAAA
1 TATATATTTTCAA-AAA
8852821 T-TATATTT
1 TATATATTT
8852829 AAAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATATTTTCAAAAA
Found at i:8853302 original size:16 final size:16
Alignment explanation
Indices: 8853281--8853315 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8853271 TAAATTACTG
*
8853281 ATTACAACTCTATTTC
1 ATTACAACCCTATTTC
*
8853297 ATTACAGCCCTATTTC
1 ATTACAACCCTATTTC
8853313 ATT
1 ATT
8853316 CACCTCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTACAACCCTATTTC
Found at i:8859581 original size:12 final size:12
Alignment explanation
Indices: 8859564--8859596 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8859554 CGATGCCTTG
8859564 GAGAAGTTCTAC
1 GAGAAGTTCTAC
8859576 GAGAAGTTCTAC
1 GAGAAGTTCTAC
8859588 GAGAA-TTCT
1 GAGAAGTTCT
8859597 TACTTTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (12 bp):
GAGAAGTTCTAC
Found at i:8859927 original size:16 final size:16
Alignment explanation
Indices: 8859906--8859970 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
8859896 TTCACTGTAT
* *
8859906 TGGAATAGAAACATAA
1 TGGAATAGAAGCGTAA
*
8859922 TGGAATAGAGGCGTAA
1 TGGAATAGAAGCGTAA
8859938 TGGAATAGAAGCGTAA
1 TGGAATAGAAGCGTAA
*
8859954 TGGAATAGAGGCGTAA
1 TGGAATAGAAGCGTAA
8859970 T
1 T
8859971 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.20
Consensus pattern (16 bp):
TGGAATAGAAGCGTAA
Found at i:8859942 original size:32 final size:32
Alignment explanation
Indices: 8859906--8859970 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
8859896 TTCACTGTAT
8859906 TGGAATAGAAACATAATGGAATAGAGGCGTAA
1 TGGAATAGAAACATAATGGAATAGAGGCGTAA
* *
8859938 TGGAATAGAAGCGTAATGGAATAGAGGCGTAA
1 TGGAATAGAAACATAATGGAATAGAGGCGTAA
8859970 T
1 T
8859971 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.20
Consensus pattern (32 bp):
TGGAATAGAAACATAATGGAATAGAGGCGTAA
Found at i:8860223 original size:16 final size:15
Alignment explanation
Indices: 8860195--8860234 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
8860185 TTAACATAAC
8860195 TATAATTAAATATAT
1 TATAATTAAATATAT
8860210 TATAATTAAA-ATA-
1 TATAATTAAATATAT
*
8860223 TATAATTTAATA
1 TATAATTAAATA
8860235 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATTAAATATAT
Found at i:8860343 original size:16 final size:16
Alignment explanation
Indices: 8860299--8860345 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
8860289 TACTATAAAA
*
8860299 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
8860315 TATTATT-AAATATAT
1 TATAATTAAAATATAT
8860330 TATAATTAAAATATAT
1 TATAATTAAAATATAT
8860346 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:8860465 original size:18 final size:17
Alignment explanation
Indices: 8860444--8860478 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8860434 TTATTATTAA
*
8860444 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8860462 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8860479 TCTTAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8860585 original size:18 final size:17
Alignment explanation
Indices: 8860564--8860598 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8860554 TTATTATTAA
*
8860564 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8860582 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8860599 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8860728 original size:120 final size:120
Alignment explanation
Indices: 8860184--8860719 Score: 932
Period size: 120 Copynumber: 4.5 Consensus size: 120
8860174 TTAATCATAT
* * *
8860184 TTTAACATAACTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
8860249 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
*
8860304 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
8860369 TAATATTCTTATAAGAATTTACTCAAATCATAATATATGATACTATAAAAGATGA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
*
8860424 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
8860489 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
8860544 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
8860609 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
*
8860664 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATA-AGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATA-ATTTAATAAAATT
8860720 TAAAATAATT
Statistics
Matches: 399, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 1 0.00
120 396 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
Found at i:8860729 original size:54 final size:54
Alignment explanation
Indices: 8860542--8860730 Score: 139
Period size: 54 Copynumber: 3.3 Consensus size: 54
8860532 TATAAAAGAT
* *
8860542 AATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA-ATTTAATAA
1 AATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATA-AGATTTAATAA
* * ** * * *
8860596 AATTCT-TAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
1 AATT-TAAAATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATAAGAT--T-T--AAT
*
8860660 AT
53 AA
*
8860662 AATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATAAGATTTAATAA
1 AATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATAAGATTTAATAA
8860716 AATTTAAAATAATTA
1 AATTTAAAATAATTA
8860731 TAATAATAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
54 32 0.32
55 5 0.05
56 1 0.01
57 5 0.05
59 14 0.14
61 13 0.13
63 5 0.05
64 1 0.01
65 5 0.05
66 20 0.20
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (54 bp):
AATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATAAGATTTAATAA
Found at i:8860778 original size:13 final size:13
Alignment explanation
Indices: 8860760--8860802 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
8860750 ATGAATTTGT
8860760 ATAATTTAAAATA
1 ATAATTTAAAATA
*
8860773 ATAATTATTAAAT-
1 ATAATT-TAAAATA
8860786 ATAATTTAATAATA
1 ATAATTTAA-AATA
8860800 ATA
1 ATA
8860803 TATAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 2 0.08
13 15 0.60
14 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAATTTAAAATA
Found at i:8860900 original size:92 final size:91
Alignment explanation
Indices: 8860733--8861032 Score: 514
Period size: 91 Copynumber: 3.3 Consensus size: 91
8860723 AATAATTATA
*
8860733 ATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAA-TAATTATTAAATATAATTTAATA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA-TATTAAATATAATTTAATA
* *
8860797 ATAATATATAATTTCATAAATTTCTTG
65 ATGATATATAATTTCATAAAATTCTTG
8860824 ATAATAAA-TTTCTTATATGAATTTATATAATTTAAAAAATAATTAATATTAAATATAATTTAAT
1 ATAATAAATTTTCTTATATGAATTTATATAATTT--AAAATAATTAATATTAAATATAATTTAAT
8860888 AATGATATATAATTTCATAAAATTCTTG
64 AATGATATATAATTTCATAAAATTCTTG
8860916 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
*
8860981 TGATATATAATTTCATAAAATTCTTA
66 TGATATATAATTTCATAAAATTCTTG
*
8861007 ATAATAAATGTTCTTATATGAATTTA
1 ATAATAAATTTTCTTATATGAATTTA
8861033 CTAAAATCAT
Statistics
Matches: 200, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
90 24 0.12
91 89 0.44
92 59 0.29
93 28 0.14
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
TGATATATAATTTCATAAAATTCTTG
Found at i:8864128 original size:6 final size:6
Alignment explanation
Indices: 8864117--8864152 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8864107 AAATAGAACT
8864117 TTAACA TTAACA TTAACA TTAACA TTAACA TTAACA
1 TTAACA TTAACA TTAACA TTAACA TTAACA TTAACA
8864153 ATGAATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAACA
Found at i:8864239 original size:16 final size:16
Alignment explanation
Indices: 8864192--8864239 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
8864182 TACAAAATAC
*
8864192 TTGTTTTTTAATCAAG
1 TTGTTTTTTAATCAAT
8864208 TTGTTTTTTAATCAAT
1 TTGTTTTTTAATCAAT
8864224 TTGTTTTTTAATCAAT
1 TTGTTTTTTAATCAAT
8864240 CATAATAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.60
Consensus pattern (16 bp):
TTGTTTTTTAATCAAT
Found at i:8864277 original size:66 final size:63
Alignment explanation
Indices: 8864159--8864279 Score: 163
Period size: 66 Copynumber: 1.9 Consensus size: 63
8864149 AACAATGAAT
* *
8864159 ATTTGTTTTTTAATCAACAATGTTACAAAATACTTGTTTTTTAATCAAGTTGTTTTTTAATCA
1 ATTTGTTTTTTAATCAACAATATAACAAAATACTTGTTTTTTAATCAAGTTGTTTTTTAATCA
* *
8864222 ATTTGTTTTTTAATCAATC-ATAATAACAATGAATATTTGTTTTTTAATCACGTTGTTT
1 ATTTGTTTTTTAATCAA-CAAT-ATAACAA--AATACTTGTTTTTTAATCAAGTTGTTT
8864280 ACTTGATTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
63 19 0.38
64 6 0.12
66 25 0.50
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (63 bp):
ATTTGTTTTTTAATCAACAATATAACAAAATACTTGTTTTTTAATCAAGTTGTTTTTTAATCA
Found at i:8871315 original size:106 final size:100
Alignment explanation
Indices: 8871148--8871563 Score: 478
Period size: 106 Copynumber: 4.1 Consensus size: 100
8871138 TTTTTTAATT
* * * * *
8871148 ATTTTATAGTTATTTTGTTAATAATTTATTATTAGGTTATAAATCGGT-GTGTTTAGTTTTGTGT
1 ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTAT-AATTGTTAGTGTTTAGTTTAGTGT
* *
8871212 TTTGGGATTTTTTATTAATGTAATTTTT-TAA-ATA
65 TTTGTGATTTTTTAGTAATGTAATTTTTATAACATA
* * *
8871246 ATTTTATAGTTATTTTGTTAGTAATTTATAATTAGGTTATAACTTGTTAGTATTTAGTTTAGTGA
1 ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAA-TTGTTAGTGTTTAGTTTAGTGT
* * *
8871311 TTTGTGGTTTTTTAGTAATTTAATTTTTCAAAAAAAACATA
65 TTTGTGATTTTTTAGTAATGTAATTTTT-----ATAACATA
* * * *
8871352 ATTTTGTAGTTATTTTGTTAATAATTTACGATTAGGTTATAAATTGTTAGTGGTTAGTTTAGTGT
1 ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTAT-AATTGTTAGTGTTTAGTTTAGTGT
* * * *
8871417 TTTGTGATTTTTTAGTGATGTAAATGTTTTTTAAAAAATT
65 TTTGTGATTTTTTAGTAATGT-AA---TTTTTATAACATA
*
8871457 ATTTTATAATTATTTTGTTAGTAATTTATGATTAGGTTATAATTGTTAGTGTTTAGTTTAGTGTT
1 ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAATTGTTAGTGTTTAGTTTAGTGTT
* **
8871522 TTGTGATTTTTTATTAATGTAATTTTTATAATGTA
66 TTGTGATTTTTTAGTAATGTAATTTTTATAACATA
8871557 ATTTTAT
1 ATTTTAT
8871564 TTGATTTTTA
Statistics
Matches: 269, Mismatches: 35, Indels: 26
0.82 0.11 0.08
Matches are distributed among these distances:
97 2 0.01
98 41 0.15
99 37 0.14
100 16 0.06
103 2 0.01
104 42 0.16
105 44 0.16
106 76 0.28
107 4 0.01
110 5 0.02
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.55
Consensus pattern (100 bp):
ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAATTGTTAGTGTTTAGTTTAGTGTT
TTGTGATTTTTTAGTAATGTAATTTTTATAACATA
Found at i:8871553 original size:14 final size:15
Alignment explanation
Indices: 8871529--8871561 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8871519 GTTTTGTGAT
8871529 TTTTTATTAATGTAA
1 TTTTTATTAATGTAA
8871544 TTTTTA-TAATGTAA
1 TTTTTATTAATGTAA
8871558 TTTT
1 TTTT
8871562 ATTTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTTATTAATGTAA
Found at i:8872263 original size:18 final size:18
Alignment explanation
Indices: 8872237--8872271 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8872227 ATATTTTGTT
*
8872237 ATTAGATATCGATACCAA
1 ATTAAATATCGATACCAA
8872255 ATTAAATATCGATACCA
1 ATTAAATATCGATACCA
8872272 TTTTGACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.29
Consensus pattern (18 bp):
ATTAAATATCGATACCAA
Found at i:8874401 original size:267 final size:266
Alignment explanation
Indices: 8873924--8874460 Score: 948
Period size: 267 Copynumber: 2.0 Consensus size: 266
8873914 ACTAGTGAGT
*
8873924 AATTTTCTCTTTTCCATAATTTTCTATCGGTTCTTGATCTATACGATAATTTATTTCAATTATCA
1 AATTTTCTCTTTTCCACAATTTTCTATCGGTTCTTGATCTATACGATAATTTATTTCAATTATCA
* *
8873989 ATCCCAAGTACATTATAAACGTCCATTTGATGCATATGACTTTTTTATTGACATTTTTCATAATT
66 ATCCCAAGTACATTATAAAAGTCCATTTGATGCATATGAATTTTTTATTGACATTTTTCATAATT
*
8874054 GCCCTAAAATTTTACATTTTATTCAATTTAGTCCCTAAAACTGAAACAAGCTCATTTTTTTCTTA
131 GCCCTAAAATTTTACATTTTATTCAATTTAGTCCCTAAAACCGAAACAAGCTCATTTTTTTCTTA
* *
8874119 ATTAAGCCCAAAAATATTATGCCTAACTCATTATTATCCTAAAAAACCCTCAAGTCACAAAATTT
196 ATTAAGCCAAAAAATATTATGCCTAACTCATTATCATCCTAAAAAACCCTCAAGTCACAAAATTT
*
8874184 ATAAGA
261 ACAAGA
* *
8874190 AATTTTCTTTTTTCCACAATTTTCTATCGGTTCTTGATCTATACTATAATTTATTTCAATTATCA
1 AATTTTCTCTTTTCCACAATTTTCTATCGGTTCTTGATCTATACGATAATTTATTTCAATTATCA
*
8874255 GTCCTCAAGTACATTATAAAAGTCCATTTGATGCATATGAATTTTTTATTGACATTTTTCATAAT
66 ATCC-CAAGTACATTATAAAAGTCCATTTGATGCATATGAATTTTTTATTGACATTTTTCATAAT
*
8874320 TTCCCTAAAATTTTACATTTTATTCAATTTAGTCCCTAAAACCGAAACAAGCTCATTTTTTTCTT
130 TGCCCTAAAATTTTACATTTTATTCAATTTAGTCCCTAAAACCGAAACAAGCTCATTTTTTTCTT
* *
8874385 AATTAAGCCAAAAAATATTATGCCTAATTCATTATCATCCTAAAAACCCCTCAAGTCACAAAATT
195 AATTAAGCCAAAAAATATTATGCCTAACTCATTATCATCCTAAAAAACCCTCAAGTCACAAAATT
8874450 TACAAGA
260 TACAAGA
8874457 AATT
1 AATT
8874461 AATTCCATTC
Statistics
Matches: 257, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
266 65 0.25
267 192 0.75
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (266 bp):
AATTTTCTCTTTTCCACAATTTTCTATCGGTTCTTGATCTATACGATAATTTATTTCAATTATCA
ATCCCAAGTACATTATAAAAGTCCATTTGATGCATATGAATTTTTTATTGACATTTTTCATAATT
GCCCTAAAATTTTACATTTTATTCAATTTAGTCCCTAAAACCGAAACAAGCTCATTTTTTTCTTA
ATTAAGCCAAAAAATATTATGCCTAACTCATTATCATCCTAAAAAACCCTCAAGTCACAAAATTT
ACAAGA
Found at i:8875661 original size:2 final size:2
Alignment explanation
Indices: 8875656--8875696 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8875646 TTATATAGTG
8875656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8875697 GTTAAGTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.