Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold158
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: 3161772
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 138004 characters in sequence are not A, C, G, or T
File 7 of 9
Found at i:2013833 original size:41 final size:41
Alignment explanation
Indices: 2013767--2013863 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
2013757 TATGGGTCTG
* * * **
2013767 CTCATACAAGTTGTCAGTCGGAACATAGCTACATTGTACTA
1 CTCACACAAGCTGTCAGTCGAAACATAGCTACACGGTACTA
2013808 CTCACACAAGCTGTCAGTCGAAACATAGCTACACGGTACTA
1 CTCACACAAGCTGTCAGTCGAAACATAGCTACACGGTACTA
2013849 CTCACACAAGCTGTC
1 CTCACACAAGCTGTC
2013864 GAGTATCCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
CTCACACAAGCTGTCAGTCGAAACATAGCTACACGGTACTA
Found at i:2026296 original size:12 final size:12
Alignment explanation
Indices: 2026271--2026309 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2026261 ACTCGCTTCT
* *
2026271 TTACTTACTCAC
1 TTACTTGCTTAC
*
2026283 TTACTTGTTTAC
1 TTACTTGCTTAC
2026295 TTACTTGCTTAC
1 TTACTTGCTTAC
2026307 TTA
1 TTA
2026310 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:2026872 original size:12 final size:12
Alignment explanation
Indices: 2026847--2026885 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2026837 ACTAGCTTCT
* *
2026847 TTACTTACTCAC
1 TTACTTGCTTAC
*
2026859 TTACTTGTTTAC
1 TTACTTGCTTAC
2026871 TTACTTGCTTAC
1 TTACTTGCTTAC
2026883 TTA
1 TTA
2026886 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:2028107 original size:4 final size:4
Alignment explanation
Indices: 2028090--2028132 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
2028080 ACTCGCTTCT
* **
2028090 TTAC TTAC TAAC TTAC TTGT TTAC TTAC TTAC TTAC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
2028133 AACAACTCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (4 bp):
TTAC
Found at i:2028114 original size:20 final size:20
Alignment explanation
Indices: 2028089--2028127 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2028079 TACTCGCTTC
2028089 TTTACTTACTAACTTACTTG
1 TTTACTTACTAACTTACTTG
*
2028109 TTTACTTACTTACTTACTT
1 TTTACTTACTAACTTACTT
2028128 ACTTAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTACTTACTAACTTACTTG
Found at i:2029488 original size:4 final size:4
Alignment explanation
Indices: 2029471--2029513 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
2029461 ACTCGCTTCT
* **
2029471 TTAC TTAC TAAC TTAC TTGT TTAC TTAC TTAC TTAC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
2029514 AATAACTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (4 bp):
TTAC
Found at i:2029495 original size:20 final size:20
Alignment explanation
Indices: 2029470--2029508 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2029460 TACTCGCTTC
2029470 TTTACTTACTAACTTACTTG
1 TTTACTTACTAACTTACTTG
*
2029490 TTTACTTACTTACTTACTT
1 TTTACTTACTAACTTACTT
2029509 ACTTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTACTTACTAACTTACTTG
Found at i:2032809 original size:4 final size:4
Alignment explanation
Indices: 2032792--2032830 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
2032782 ACTCGCTTCT
* **
2032792 TTAC TTAC TCAC TTAC TTGT TTAC TTAC TTAC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
2032831 AATAACTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.03, T:0.51
Consensus pattern (4 bp):
TTAC
Found at i:2032816 original size:20 final size:20
Alignment explanation
Indices: 2032791--2032829 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2032781 TACTCGCTTC
2032791 TTTACTTACTCACTTACTTG
1 TTTACTTACTCACTTACTTG
*
2032811 TTTACTTACTTACTTACTT
1 TTTACTTACTCACTTACTT
2032830 AAATAACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTACTTACTCACTTACTTG
Found at i:2034321 original size:11 final size:11
Alignment explanation
Indices: 2034305--2034333 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2034295 AAATTTTTGA
2034305 ACGAAATTTTC
1 ACGAAATTTTC
2034316 ACGAAATTTTC
1 ACGAAATTTTC
2034327 ACGAAAT
1 ACGAAAT
2034334 CATTTCGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (11 bp):
ACGAAATTTTC
Found at i:2034817 original size:12 final size:12
Alignment explanation
Indices: 2034792--2034830 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2034782 ACTCGCTTCT
* *
2034792 TTACTTACTCAC
1 TTACTTGCTTAC
*
2034804 TTACTTGTTTAC
1 TTACTTGCTTAC
2034816 TTACTTGCTTAC
1 TTACTTGCTTAC
2034828 TTA
1 TTA
2034831 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:2036306 original size:4 final size:4
Alignment explanation
Indices: 2036289--2036327 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
2036279 ACTCCCTTCT
* **
2036289 TTAC TTAC TCAC TTAC TTGT TTAC TTAC TTAC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
2036328 AATAACTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.03, T:0.51
Consensus pattern (4 bp):
TTAC
Found at i:2036313 original size:20 final size:20
Alignment explanation
Indices: 2036288--2036326 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2036278 TACTCCCTTC
2036288 TTTACTTACTCACTTACTTG
1 TTTACTTACTCACTTACTTG
*
2036308 TTTACTTACTTACTTACTT
1 TTTACTTACTCACTTACTT
2036327 AAATAACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTACTTACTCACTTACTTG
Found at i:2036652 original size:50 final size:50
Alignment explanation
Indices: 2036527--2036768 Score: 204
Period size: 50 Copynumber: 4.7 Consensus size: 50
2036517 TGATAGTACA
* * * *
2036527 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTCAGTA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCA-TATCGG
* *
2036576 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * * ** *
2036626 TGCCCATGCCATGTCTCAGACATGGTCTTAC-GGGGAACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-AGTTCTCATATCGG
* * ** *
2036676 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---GG
* *
2036732 TGCCAATGCCATCTCCCAGACATTGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
2036769 TCTCATTCCC
Statistics
Matches: 157, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
47 2 0.01
48 7 0.04
49 35 0.22
50 75 0.48
51 2 0.01
53 2 0.01
56 34 0.22
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:2038354 original size:12 final size:12
Alignment explanation
Indices: 2038329--2038367 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2038319 ACTCGCTTCT
* *
2038329 TTACTTACTCAC
1 TTACTTGCTTAC
*
2038341 TTACTTGTTTAC
1 TTACTTGCTTAC
2038353 TTACTTGCTTAC
1 TTACTTGCTTAC
2038365 TTA
1 TTA
2038368 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:2049813 original size:30 final size:30
Alignment explanation
Indices: 2049778--2049846 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
2049768 ATGCAGGGGT
* *
2049778 CACACGGCCGTGTGACTCACACGGTTGAGA
1 CACACGCCCGTATGACTCACACGGTTGAGA
*
2049808 CACACGCCCGTATGACTCACATGGTTGAGA
1 CACACGCCCGTATGACTCACACGGTTGAGA
2049838 CACACGCCC
1 CACACGCCC
2049847 ATGTCTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.16
Consensus pattern (30 bp):
CACACGCCCGTATGACTCACACGGTTGAGA
Found at i:2050778 original size:35 final size:35
Alignment explanation
Indices: 2050732--2050812 Score: 153
Period size: 35 Copynumber: 2.3 Consensus size: 35
2050722 ACTAAACTAT
2050732 ATTTTGACCATGTTGAGATCAACTTATCACATACC
1 ATTTTGACCATGTTGAGATCAACTTATCACATACC
*
2050767 ATTTTGACCATGTTTAGATCAACTTATCACATACC
1 ATTTTGACCATGTTGAGATCAACTTATCACATACC
2050802 ATTTTGACCAT
1 ATTTTGACCAT
2050813 TTAAAGATAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (35 bp):
ATTTTGACCATGTTGAGATCAACTTATCACATACC
Found at i:2051109 original size:17 final size:17
Alignment explanation
Indices: 2051087--2051143 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
2051077 ATTTCCGACA
2051087 AGCTTCCAACCCGATCG
1 AGCTTCCAACCCGATCG
2051104 AGCTTCCAACCCGATCG
1 AGCTTCCAACCCGATCG
**
2051121 AGCTTCCAACATGATCG
1 AGCTTCCAACCCGATCG
2051138 AGCTTC
1 AGCTTC
2051144 TAACAATCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.21
Consensus pattern (17 bp):
AGCTTCCAACCCGATCG
Found at i:2053361 original size:3 final size:3
Alignment explanation
Indices: 2053353--2053389 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2053343 TTATGTTTTC
2053353 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
2053390 ATTTTAACCT
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:2055655 original size:3 final size:3
Alignment explanation
Indices: 2055647--2055682 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2055637 TTATGTTTTC
2055647 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
2055683 CCTTTAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2067272 original size:22 final size:23
Alignment explanation
Indices: 2067242--2067286 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2067232 TAAGAAAAAT
* *
2067242 AAGAAAAATTTTTAAAA-AATAA
1 AAGAAAAATATTCAAAATAATAA
*
2067264 AAGATAAATATTCAAAATAATAA
1 AAGAAAAATATTCAAAATAATAA
2067287 CTAAATCGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
AAGAAAAATATTCAAAATAATAA
Found at i:2083791 original size:21 final size:21
Alignment explanation
Indices: 2083766--2083808 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2083756 TGTAATTAAA
*
2083766 TAATTATGAGT-GAAAAATAAT
1 TAATT-TGAGTCGAAAAAGAAT
*
2083787 TAATTTGGGTCGAAAAAGAAT
1 TAATTTGAGTCGAAAAAGAAT
2083808 T
1 T
2083809 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (21 bp):
TAATTTGAGTCGAAAAAGAAT
Found at i:2085978 original size:15 final size:15
Alignment explanation
Indices: 2085958--2085986 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2085948 GTATTGTTGC
2085958 TTGATAACACGGTGA
1 TTGATAACACGGTGA
2085973 TTGATAACACGGTG
1 TTGATAACACGGTG
2085987 TGTGAAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:2093657 original size:13 final size:14
Alignment explanation
Indices: 2093616--2093657 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
2093606 AATCCAAGTC
* *
2093616 AAATAAAACAATTA
1 AAATAAAATAACTA
2093630 AAAT-AAATAACTA
1 AAATAAAATAACTA
2093643 AAATAAAATAA-TA
1 AAATAAAATAACTA
2093656 AA
1 AA
2093658 TCAAAGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:2096338 original size:3 final size:3
Alignment explanation
Indices: 2096330--2096354 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2096320 TTTCAACATG
2096330 GTT GTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT G
2096355 GTATTCATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (3 bp):
GTT
Found at i:2104492 original size:26 final size:26
Alignment explanation
Indices: 2104416--2104492 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 26
2104406 GAGCGGGCCG
2104416 AAGTAGAACTTGTGAGATCTGACTTT
1 AAGTAGAACTTGTGAGATCTGACTTT
** ** * * * *
2104442 AAG-A-AAAATCAG-GTTATGCCATT
1 AAGTAGAACTTGTGAGATCTGACTTT
2104465 AAGTAGAACTTGTGAGATCTGACTTT
1 AAGTAGAACTTGTGAGATCTGACTTT
2104491 AA
1 AA
2104493 TTCCCAAAAA
Statistics
Matches: 32, Mismatches: 16, Indels: 6
0.59 0.30 0.11
Matches are distributed among these distances:
23 10 0.31
24 5 0.16
25 5 0.16
26 12 0.38
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (26 bp):
AAGTAGAACTTGTGAGATCTGACTTT
Found at i:2106670 original size:48 final size:48
Alignment explanation
Indices: 2106618--2106716 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
2106608 ATGGTTTTGC
2106618 TGTGTTGAATAAGATAGGAATGGATATGCCATTCATGTGAAACAAACA
1 TGTGTTGAATAAGATAGGAATGGATATGCCATTCATGTGAAACAAACA
* *
2106666 TGTGTTGAATAAGATAGGAATGGCTATGCCATTCATGTGAAATAAACA
1 TGTGTTGAATAAGATAGGAATGGATATGCCATTCATGTGAAACAAACA
2106714 TGT
1 TGT
2106717 TGTTATTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.29
Consensus pattern (48 bp):
TGTGTTGAATAAGATAGGAATGGATATGCCATTCATGTGAAACAAACA
Found at i:2107089 original size:21 final size:22
Alignment explanation
Indices: 2107056--2107096 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2107046 GTGCTTTGAT
*
2107056 TTTTTTTAATTATTTTGGATGA
1 TTTTTTTAATTATTCTGGATGA
*
2107078 TTTTTTT-CTTATTCTGGAT
1 TTTTTTTAATTATTCTGGAT
2107097 TGGTTGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (22 bp):
TTTTTTTAATTATTCTGGATGA
Found at i:2110557 original size:30 final size:30
Alignment explanation
Indices: 2110521--2110591 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 30
2110511 TAAATTGAAT
*
2110521 AAAAGTAAAATATTAGGGGCAATTTTGTAA
1 AAAAGTAAAATATTAGGGGAAATTTTGTAA
*
2110551 AAAAGTAAAATGTTAGGGGAAATTTTGTAA
1 AAAAGTAAAATATTAGGGGAAATTTTGTAA
2110581 AAAAGTCAAAA
1 AAAAGT-AAAA
2110592 ATGACTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 34 0.89
31 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.27
Consensus pattern (30 bp):
AAAAGTAAAATATTAGGGGAAATTTTGTAA
Found at i:2111348 original size:101 final size:101
Alignment explanation
Indices: 2111168--2111379 Score: 284
Period size: 101 Copynumber: 2.1 Consensus size: 101
2111158 ACTCGACAAC
* * * * *
2111168 TTGTGTGAGCAGCATTGTGTAGCTTCCATTCTGACTATCAGCTTTTGTTAGCAGGCCCATTTTAC
1 TTGTGTGAGCAACATTGTGTAGCTTCCATTCTGACCATCAGCCTATGTGAGCAGGCCCATTTTAC
* * *
2111233 TGTTCATATGAGCTACGACTATATGTTTACCACACT
66 AGCTCATATAAGCTACGACTATATGTTTACCACACT
* * *
2111269 TTGTGTGAGCAATATTGTGTAGCTTCCATT-TCGACCGTCAGCCTATGTGAGCGGGCCCATTTTA
1 TTGTGTGAGCAACATTGTGTAGCTTCCATTCT-GACCATCAGCCTATGTGAGCAGGCCCATTTTA
*
2111333 CAGCTCGA-ATAAGCTATGACTATATGTTTACCACACT
65 CAGCTC-ATATAAGCTACGACTATATGTTTACCACACT
2111370 TTGTGTGAGC
1 TTGTGTGAGC
2111380 TTTACCGAGT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
100 1 0.01
101 95 0.98
102 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (101 bp):
TTGTGTGAGCAACATTGTGTAGCTTCCATTCTGACCATCAGCCTATGTGAGCAGGCCCATTTTAC
AGCTCATATAAGCTACGACTATATGTTTACCACACT
Found at i:2118642 original size:6 final size:6
Alignment explanation
Indices: 2118601--2118641 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
2118591 AGGTTTCTAA
*
2118601 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGA AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
2118642 ATCCATTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:2118826 original size:26 final size:26
Alignment explanation
Indices: 2118787--2118848 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
2118777 ACATATTTTT
*
2118787 TCAAAATTTGACTAGGGGCAAAATCA
1 TCAAAATTTTACTAGGGGCAAAATCA
* *
2118813 TCAAAATTTTACTAGGGGTAAAATCG
1 TCAAAATTTTACTAGGGGCAAAATCA
2118839 TCAAAATTTT
1 TCAAAATTTT
2118849 GTAAGAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGCAAAATCA
Found at i:2118858 original size:26 final size:26
Alignment explanation
Indices: 2118787--2118861 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
2118777 ACATATTTTT
* * *
2118787 TCAAAATTTGACTAGGGGCAAAATCA
1 TCAAAATTTTACTAGAGGTAAAATCA
* *
2118813 TCAAAATTTTACTAGGGGTAAAATCG
1 TCAAAATTTTACTAGAGGTAAAATCA
*
2118839 TCAAAATTTT-GTAAGAGGTAAAA
1 TCAAAATTTTACT-AGAGGTAAAA
2118862 AAAGGATGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (26 bp):
TCAAAATTTTACTAGAGGTAAAATCA
Found at i:2121314 original size:32 final size:32
Alignment explanation
Indices: 2121278--2121338 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
2121268 CTTATTTGGA
2121278 TATTGCTTTCTCATAGCTTCCTCGGGTTCGGG
1 TATTGCTTTCTCATAGCTTCCTCGGGTTCGGG
* *
2121310 TATTGCTTTCTCATAGCTTTCTTGGGTTC
1 TATTGCTTTCTCATAGCTTCCTCGGGTTC
2121339 CCGAGTGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (32 bp):
TATTGCTTTCTCATAGCTTCCTCGGGTTCGGG
Found at i:2126107 original size:27 final size:27
Alignment explanation
Indices: 2126018--2126118 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
2126008 ATAATGGGCC
*
2126018 TAAAATGACCGAAATACCCTCAAAGGG
1 TAAAATGACTGAAATACCCTCAAAGGG
* *
2126045 TAAAATGAAC-GAAATACTCTCGAAGGG
1 TAAAATG-ACTGAAATACCCTCAAAGGG
*
2126072 TAAAATGACTGAAATACCCCCAAAGGG
1 TAAAATGACTGAAATACCCTCAAAGGG
**
2126099 TAAAATGACTGTTATACCCT
1 TAAAATGACTGAAATACCCT
2126119 TAAGAGTTGA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.03
27 60 0.94
28 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCAAAGGG
Found at i:2126311 original size:26 final size:26
Alignment explanation
Indices: 2126282--2126358 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
2126272 TTGCCACATA
* *
2126282 TACTGTTACTCGCAGCTTTGCTGCGT
1 TACTATTACTGGCAGCTTTGCTGCGT
*
2126308 TACTATTACTGGCAGCGTTGCTGCGT
1 TACTATTACTGGCAGCTTTGCTGCGT
*
2126334 TACTATTATTGGCAGCTTTGCTGCG
1 TACTATTACTGGCAGCTTTGCTGCG
2126359 ATATTGGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGCGT
Found at i:2126757 original size:32 final size:32
Alignment explanation
Indices: 2126718--2126795 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
2126708 ATTTTTCCTT
2126718 GAATATTTTAAACTGCTAGATTAGGAGATGAA
1 GAATATTTTAAACTGCTAGATTAGGAGATGAA
2126750 GAATATTTTAAACTGCTAGATTAGGAGATGAA
1 GAATATTTTAAACTGCTAGATTAGGAGATGAA
2126782 GAATATTTTAAACT
1 GAATATTTTAAACT
2126796 AATTACCGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.33
Consensus pattern (32 bp):
GAATATTTTAAACTGCTAGATTAGGAGATGAA
Found at i:2129689 original size:24 final size:22
Alignment explanation
Indices: 2129648--2129691 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
2129638 AATTTATCAA
*
2129648 ATTTCATATACATGTATCATCC
1 ATTTCATATACATATATCATCC
2129670 ATTTCATATATCTATATATCAT
1 ATTTCATATA-C-ATATATCAT
2129692 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCATATACATATATCATCC
Found at i:2135317 original size:42 final size:42
Alignment explanation
Indices: 2135257--2135355 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 42
2135247 ACGGCCTAGC
* * *
2135257 ACACGGCCTGGCACATGGGCGTGTGAGGCCATATCGAGTGTT
1 ACACGGCCTGGCACATGGGAGTGTAAGGCCATATCAAGTGTT
* * * *
2135299 ACACGGCCTGGCATATGGGATTTTAAGGCCATTTCAAGTGTT
1 ACACGGCCTGGCACATGGGAGTGTAAGGCCATATCAAGTGTT
* *
2135341 ACACAGCCTAGCACA
1 ACACGGCCTGGCACA
2135356 CGGGCATGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (42 bp):
ACACGGCCTGGCACATGGGAGTGTAAGGCCATATCAAGTGTT
Found at i:2142995 original size:17 final size:17
Alignment explanation
Indices: 2142951--2143010 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
2142941 CTACCTATCA
*
2142951 TTTTCACAGTCTATAG-
1 TTTTCACAGTCTTTAGT
* *
2142967 TTGTCCCAGTCTTTAGT
1 TTTTCACAGTCTTTAGT
*
2142984 TTTTCACAGTCTTTAAT
1 TTTTCACAGTCTTTAGT
2143001 TTTTCACAGT
1 TTTTCACAGT
2143011 GTATAGTTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
16 13 0.35
17 24 0.65
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (17 bp):
TTTTCACAGTCTTTAGT
Found at i:2144083 original size:22 final size:22
Alignment explanation
Indices: 2144057--2144101 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2144047 AGATCAACAC
2144057 AAATAT-AATCGCATACATATCA
1 AAATATCAATCGCA-ACATATCA
*
2144079 AAATATCAATCTCAACATATCA
1 AAATATCAATCGCAACATATCA
2144101 A
1 A
2144102 TCATCACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATATCAATCGCAACATATCA
Found at i:2149016 original size:47 final size:47
Alignment explanation
Indices: 2148947--2149038 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
2148937 ATTTAATAAT
*
2148947 ATCAAAATATCATCTAAAATAAATGAATAATAAATAAATAAAATTAA
1 ATCAAAAGATCATCTAAAATAAATGAATAATAAATAAATAAAATTAA
*
2148994 ATCAAAAGATCATCTAAAATAAATGAATAATAAATAATTAAAATT
1 ATCAAAAGATCATCTAAAATAAATGAATAATAAATAAATAAAATT
2149039 CGGGCGACCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (47 bp):
ATCAAAAGATCATCTAAAATAAATGAATAATAAATAAATAAAATTAA
Found at i:2155158 original size:128 final size:128
Alignment explanation
Indices: 2154992--2155249 Score: 466
Period size: 128 Copynumber: 2.0 Consensus size: 128
2154982 ATAAGGGAAA
2154992 CCCAAGCTTAGGCAGGCTTTCAATATAGCCAATCATCTTAAGGACATGAGGTCCCACTGGGCTTC
1 CCCAAGCTTA-GCAGGCTTTCAATATAGCCAATCATCTTAAGGACATGAGGTCCCACTGGGCTTC
2155057 CTTCAAGCAGCTTACATTGGAACA-GGGCCTTAGAGATATCAAACCTCTCTTGCCGTGCTTGCCC
65 CTTCAAGCAGCTTACATTGGAACAGGGGCC--AGAGATATCAAACCTCTCTTGCCGTGCTTGCCC
2155121 C
128 C
2155122 CCCAAGCTTA-CAGGCTTTCAATATAGCCAATCATCTTAAGGACATGAGGTCCCACTGGGCTTCC
1 CCCAAGCTTAGCAGGCTTTCAATATAGCCAATCATCTTAAGGACATGAGGTCCCACTGGGCTTCC
2155186 TTCAAGCAGCTTACATTGGAACAGGGGGCCAGAGATATCAAACCTCTCTTGCCGTGCTTGCCCC
66 TTCAAGCAGCTTACATTGGAACA-GGGGCCAGAGATATCAAACCTCTCTTGCCGTGCTTGCCCC
2155250 TGATAAAGTT
Statistics
Matches: 126, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
128 111 0.88
130 15 0.12
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (128 bp):
CCCAAGCTTAGCAGGCTTTCAATATAGCCAATCATCTTAAGGACATGAGGTCCCACTGGGCTTCC
TTCAAGCAGCTTACATTGGAACAGGGGCCAGAGATATCAAACCTCTCTTGCCGTGCTTGCCCC
Found at i:2161520 original size:13 final size:13
Alignment explanation
Indices: 2161483--2161513 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2161473 TTCTTGGCTT
2161483 TATA-CACCCTAG
1 TATATCACCCTAG
2161495 TATATCACCCTAG
1 TATATCACCCTAG
2161508 TATATC
1 TATATC
2161514 CTCCTAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (13 bp):
TATATCACCCTAG
Found at i:2179065 original size:17 final size:17
Alignment explanation
Indices: 2179043--2179077 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2179033 TTTAAGCGTC
*
2179043 CATCTCACATTGTCTTA
1 CATCTCACACTGTCTTA
2179060 CATCTCACACTGTCTTA
1 CATCTCACACTGTCTTA
2179077 C
1 C
2179078 CATAACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.37
Consensus pattern (17 bp):
CATCTCACACTGTCTTA
Found at i:2180406 original size:25 final size:25
Alignment explanation
Indices: 2180367--2180435 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
2180357 CTATGAATTG
* *
2180367 GTATGCTCACTCGAGCTGTAGATCA
1 GTATGCTCACACGAGCTGTAAATCA
* * **
2180392 GTATGCTCTCACGAGCTATAAATTG
1 GTATGCTCACACGAGCTGTAAATCA
*
2180417 GTATGCTCACACAAGCTGT
1 GTATGCTCACACGAGCTGT
2180436 GGGTCGTAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCA
Found at i:2183991 original size:43 final size:43
Alignment explanation
Indices: 2183913--2184011 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
2183903 TGTCCCAGAC
** ** *
2183913 ATGGTCTTACATGGAAATCTCGCATCGATGTCAATAGCCCAGCT
1 ATGGTCTTACA-CAAAATCTCAAATCGATGCCAATAGCCCAGCT
2183957 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
2184000 ATGGTCTTACAC
1 ATGGTCTTACAC
2184012 GAAACCACAC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 39 0.78
44 11 0.22
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:2184176 original size:31 final size:31
Alignment explanation
Indices: 2184135--2184218 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
2184125 ATCCAATGCT
*
2184135 CAAATC-AATTCGACAATGTATATCCATAAA
1 CAAATCAAATTCGGCAATGTATATCCATAAA
* * * *
2184165 CAATTCGAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATAAA
2184196 CAAATCAAATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
2184219 AACATATACA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 5 0.11
31 42 0.89
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATAAA
Found at i:2184226 original size:31 final size:30
Alignment explanation
Indices: 2184135--2184228 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 30
2184125 ATCCAATGCT
* ** *
2184135 CAAATCAATTCGACAATGTATATCCATAAA
1 CAAATCAATTCGGCAATGTATAAACATATA
* *
2184165 CAATTCGAATTCGGCAATGTAT-ATCTATATA
1 CAAATC-AATTCGGCAATGTATAAAC-ATATA
2184196 CAAATCAAATTCGGCAATGTATAAACATATA
1 CAAATC-AATTCGGCAATGTATAAACATATA
2184227 CA
1 CA
2184229 TTTAAATTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
30 6 0.11
31 45 0.85
32 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.29
Consensus pattern (30 bp):
CAAATCAATTCGGCAATGTATAAACATATA
Found at i:2192325 original size:22 final size:23
Alignment explanation
Indices: 2192282--2192325 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2192272 TTCTAGAACT
*
2192282 TATTTTAAATAAATAATTTAATA
1 TATTTTAAATAAATAATATAATA
2192305 TATTTT-AAT-AATATATATAAT
1 TATTTTAAATAAATA-ATATAAT
2192326 TCACTTGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTTAAATAAATAATATAATA
Found at i:2193499 original size:62 final size:59
Alignment explanation
Indices: 2193384--2193500 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 59
2193374 ATCCAATTAA
* * * * *
2193384 TATTAAATTAATATAATATTTATCAAGATAATTACTAGATTAAATTTAGTATTAATTCT
1 TATTAAATTAATAGAATATTTATCAAGATAAATACTACAATAAATTTAATATTAATTCT
* *
2193443 TATTTAATTAATAGAATATTTATCTACAAGATAAATATTACAATAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA--T-CAAGATAAATACTACAATAAATTTAATATTAA
2193501 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 20 0.42
61 1 0.02
62 27 0.56
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATCAAGATAAATACTACAATAAATTTAATATTAATTCT
Found at i:2193505 original size:17 final size:18
Alignment explanation
Indices: 2193476--2193522 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
2193466 CTACAAGATA
2193476 AATATTACAATAA-A-TTT
1 AATATTA-AATAACACTTT
2193493 AATATTAAGATAATCACTTT
1 AATATTAA-ATAA-CACTTT
2193513 AATATTAAAT
1 AATATTAAAT
2193523 TAGTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.04
17 11 0.42
19 3 0.12
20 11 0.42
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (18 bp):
AATATTAAATAACACTTT
Found at i:2195352 original size:50 final size:49
Alignment explanation
Indices: 2195218--2195362 Score: 143
Period size: 50 Copynumber: 2.9 Consensus size: 49
2195208 GATAATAACA
* * * *
2195218 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTT-TCCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAC
* * *
2195267 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAC
* **
2195315 GGTGCCCATGCCATGTCCCAGACATGGTCTT-CTATGGGACCTCTCATA
1 --TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTCATA
2195363 ACCTCAATAA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.05
49 37 0.47
50 38 0.48
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAC
Found at i:2205455 original size:41 final size:40
Alignment explanation
Indices: 2205405--2205600 Score: 248
Period size: 41 Copynumber: 4.7 Consensus size: 40
2205395 TAATCGTTAC
*
2205405 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAAT
1 ACGG-GGAATCAGCACTTAGCAACC-CCTTATAATCAATGAT
* * *
2205447 ACGGGGAATCAACACATAGCAACCCCTTTCACAATCAATGAT
1 ACGGGGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGAT
2205489 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGG-GGAATCAGCACTTAGCAACC-CCTTATAATCAATGAT
* * *
2205531 ACGGGGAATCAGCACATAGCAACCCCTATTTGATCAATGAT
1 ACGGGGAATCAGCACTTAGCAACCCCT-TATAATCAATGAT
* *
2205572 TCGGGGAATCTGCACTTAGCAACCCCTTA
1 ACGGGGAATCAGCACTTAGCAACCCCTTA
2205601 CATCCAAAGA
Statistics
Matches: 135, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
40 6 0.04
41 74 0.55
42 33 0.24
43 20 0.15
44 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (40 bp):
ACGGGGAATCAGCACTTAGCAACCCCTTATAATCAATGAT
Found at i:2205547 original size:84 final size:83
Alignment explanation
Indices: 2205405--2205600 Score: 299
Period size: 84 Copynumber: 2.4 Consensus size: 83
2205395 TAATCGTTAC
2205405 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAAC
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAAC
2205470 CCCT-TTCACAATCAATGAT
66 CCCTATT--CAATCAATGAT
* *
2205489 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAAC
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAAC
**
2205554 CCCTATTTGATCAATGAT
66 CCCTATTCAATCAATGAT
* *
2205572 TCGG-GGAATCTGCACTTAGCAACC-CCTTA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTA
2205601 CATCCAAAGA
Statistics
Matches: 105, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
81 5 0.05
82 19 0.18
83 12 0.11
84 67 0.64
85 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (83 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAAC
CCCTATTCAATCAATGAT
Found at i:2208064 original size:20 final size:20
Alignment explanation
Indices: 2208039--2208077 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2208029 TATTTTCTTC
2208039 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
2208059 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
2208078 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:2208422 original size:50 final size:49
Alignment explanation
Indices: 2208336--2208474 Score: 134
Period size: 50 Copynumber: 2.8 Consensus size: 49
2208326 TACTACAAAT
* * ** * *
2208336 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTAC-TGGGACCTCTCATATCAGTGCCAAC
** * * *
2208386 GCGTTGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTAC-TGGGACCTCTCATATCAGTGCCAAC
* *
2208436 GCCATGTCCTAGACAAGGTCTTAACTGGGACCTCTCATA
1 GCCATGTCCCAGACATGGTCTT-ACTGGGACCTCTCATA
2208475 ACCTCAATAA
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
50 68 0.97
51 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACTGGGACCTCTCATATCAGTGCCAAC
Found at i:2209103 original size:13 final size:13
Alignment explanation
Indices: 2209087--2209112 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2209077 AATCGCCTAG
2209087 CAAAAGTTATTTA
1 CAAAAGTTATTTA
2209100 CAAAAGTTATTTA
1 CAAAAGTTATTTA
2209113 ACTTAATTTC
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CAAAAGTTATTTA
Found at i:2214238 original size:36 final size:36
Alignment explanation
Indices: 2214189--2214257 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
2214179 GGCCTAACAC
* *
2214189 ACGGGCACGGACTGGGACACAAGCATAGATTGGAAA
1 ACGGGCACAGACTGGGACACAAGCACAGATTGGAAA
*
2214225 ACGGGCACAGACTGGGACACAGGCACAGATTGG
1 ACGGGCACAGACTGGGACACAAGCACAGATTGG
2214258 CACACAGCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.35, T:0.10
Consensus pattern (36 bp):
ACGGGCACAGACTGGGACACAAGCACAGATTGGAAA
Found at i:2214251 original size:18 final size:18
Alignment explanation
Indices: 2214187--2214264 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
2214177 ATGGCCTAAC
* *
2214187 ACACGGGCACGGACTGGG
1 ACACAGGCACAGACTGGG
* * * *
2214205 ACACAAGCATAGATTGGA
1 ACACAGGCACAGACTGGG
* *
2214223 AAACGGGCACAGACTGGG
1 ACACAGGCACAGACTGGG
* *
2214241 ACACAGGCACAGATTGGC
1 ACACAGGCACAGACTGGG
2214259 ACACAG
1 ACACAG
2214265 CCTGGCAAGT
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.35, C:0.24, G:0.32, T:0.09
Consensus pattern (18 bp):
ACACAGGCACAGACTGGG
Found at i:2217451 original size:20 final size:20
Alignment explanation
Indices: 2217423--2217460 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2217413 TACATATTGG
2217423 ATCCACTTAACCCTCAATGT
1 ATCCACTTAACCCTCAATGT
*
2217443 ATCCGCTTAACCCTCAAT
1 ATCCACTTAACCCTCAAT
2217461 ACATATGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.37, G:0.05, T:0.29
Consensus pattern (20 bp):
ATCCACTTAACCCTCAATGT
Found at i:2226706 original size:14 final size:14
Alignment explanation
Indices: 2226687--2226715 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2226677 ATTCAATATG
2226687 AACTAAGACATGTA
1 AACTAAGACATGTA
2226701 AACTAAGACATGTA
1 AACTAAGACATGTA
2226715 A
1 A
2226716 GCATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
AACTAAGACATGTA
Found at i:2232975 original size:41 final size:40
Alignment explanation
Indices: 2232918--2233108 Score: 177
Period size: 41 Copynumber: 4.6 Consensus size: 40
2232908 GGATCCCTAT
*
2232918 GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAACACATAGCAACC-CCTTATAATCAATGATACGG
* * *
2232959 GGAATCAACAAATAGCAACCCCTT-TCCCAATAAAGGATACGG
1 GGAATCAACACATAGCAACCCCTTAT---AATCAATGATACGG
* * *
2233001 TGGAATCAGCACTTAGCAAGCACCTTATAATCAATGATACGG
1 -GGAATCAACACATAGCAA-CCCCTTATAATCAATGATACGG
* * * *
2233043 GGAATCAGCACATAGCAACCCCTTTTTGATCAATGATTCGG
1 GGAATCAACACATAGCAACCCC-TTATAATCAATGATACGG
** * *
2233084 GGAATCTGCACTTAGCAACCACTTA
1 GGAATCAACACATAGCAACCCCTTA
2233109 CATTCAAAGA
Statistics
Matches: 124, Mismatches: 19, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 9 0.07
41 69 0.56
42 24 0.19
43 15 0.12
44 5 0.04
45 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (40 bp):
GGAATCAACACATAGCAACCCCTTATAATCAATGATACGG
Found at i:2234350 original size:51 final size:51
Alignment explanation
Indices: 2234274--2234510 Score: 237
Period size: 51 Copynumber: 4.7 Consensus size: 51
2234264 ATATAAATAA
*
2234274 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTGTGTGTACCGAGAAGCTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTT
* ** * * * * * * *
2234325 TGGTCATATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAA-ATGA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCT-T
* *
2234376 TGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTT
* * * * *
2234427 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-T
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AGAAGCTT
* * * *
2234477 TGATCACGTGTGTAGAACTATGTGAAGGCTACTA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTA
2234511 CATGTATCAA
Statistics
Matches: 152, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
50 34 0.22
51 116 0.76
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTT
Found at i:2234442 original size:102 final size:102
Alignment explanation
Indices: 2234266--2234466 Score: 339
Period size: 102 Copynumber: 2.0 Consensus size: 102
2234256 TGTTACATAT
* **
2234266 ATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTGTGTGTACCGAGAAGCTTTGGTCA
1 ATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCA
* *
2234331 TATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCA
66 CATGTGTAGTACTATGTGAAGGCTACTACGTGAATCA
*
2234368 ATAAATGATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCA
1 ATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCA
*
2234433 CGTGTGTAGTACTATGTGAAGGCTACTACGTGAA
66 CATGTGTAGTACTATGTGAAGGCTACTACGTGAA
2234467 CCGTAAAACT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (102 bp):
ATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCA
CATGTGTAGTACTATGTGAAGGCTACTACGTGAATCA
Found at i:2241641 original size:21 final size:22
Alignment explanation
Indices: 2241611--2241652 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2241601 GAACCAGTTG
2241611 GTGCTAGTAGTACAT-GTGCAT
1 GTGCTAGTAGTACATCGTGCAT
* *
2241632 GTGCTTGTAGTTCATCGTGCA
1 GTGCTAGTAGTACATCGTGCA
2241653 CCAATAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.36
Consensus pattern (22 bp):
GTGCTAGTAGTACATCGTGCAT
Found at i:2247367 original size:21 final size:21
Alignment explanation
Indices: 2247327--2247367 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2247317 GATTCTAGTA
*
2247327 TGGATGCATCTGGCTTTGCTC
1 TGGATGCATCTGGCTGTGCTC
2247348 TGGATGCATCTGAG-TGTGCT
1 TGGATGCATCTG-GCTGTGCT
2247368 GATTGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.12, C:0.20, G:0.32, T:0.37
Consensus pattern (21 bp):
TGGATGCATCTGGCTGTGCTC
Found at i:2254458 original size:16 final size:16
Alignment explanation
Indices: 2254432--2254480 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2254422 TAGAATTGGG
2254432 TTGAGAAAATTATTTAA
1 TTGA-AAAATTATTTAA
*
2254449 TTGAAAAATTAATTAA
1 TTGAAAAATTATTTAA
2254465 TT--AAAATTAATTTAA
1 TTGAAAAATT-ATTTAA
2254480 T
1 T
2254481 AAATAATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 13 0.45
17 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (16 bp):
TTGAAAAATTATTTAA
Found at i:2265648 original size:40 final size:40
Alignment explanation
Indices: 2265593--2265672 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
2265583 AAAAACAAAA
2265593 AAAAGAAATCTGCTTTAAATCCACAACTAAATTCAAAGTT
1 AAAAGAAATCTGCTTTAAATCCACAACTAAATTCAAAGTT
2265633 AAAAGAAATCTGCTTTAAATCCACAACTAAATTCAAAGTT
1 AAAAGAAATCTGCTTTAAATCCACAACTAAATTCAAAGTT
2265673 TAATCAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (40 bp):
AAAAGAAATCTGCTTTAAATCCACAACTAAATTCAAAGTT
Found at i:2292178 original size:33 final size:32
Alignment explanation
Indices: 2292141--2292218 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
2292131 CAGCCTTGCC
* * *
2292141 ATGGTCTTACACTTATACTGCCATAACCCAGTT
1 ATGGTCTTACA-TTAGAATGCCATAACCCAGCT
* *
2292174 ATGGTCTTATCATTAGAATGTCATAGCCCAGCT
1 ATGGTCTTA-CATTAGAATGCCATAACCCAGCT
2292207 ATGGTCTTACAT
1 ATGGTCTTACAT
2292219 ATATATATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.08
33 34 0.87
34 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (32 bp):
ATGGTCTTACATTAGAATGCCATAACCCAGCT
Found at i:2295090 original size:159 final size:159
Alignment explanation
Indices: 2294799--2295123 Score: 569
Period size: 159 Copynumber: 2.0 Consensus size: 159
2294789 TTGCTAGGAA
* *
2294799 AGGTCTCCCAAGTATGATTGGTACCTTTTTATCAACCTCACATTCCAAAATAATAAAAGCTTCTA
1 AGGTCTCCCAAGTATGATTGGTACCTCTTTATCAACCTCACATTCCAAAATAATAAAAGCTGCTA
* * *
2294864 GAAAAATAAATTTGTCAACTCTTACCAACACATCTTCTATTTTACCTTCTGGATGTGCATACGAA
66 GAAAAATAAATTTGTCAACCCTTACCAACACATCTTCTATTTTACCTTCTGGAGGTGCATACAAA
2294929 TGATTAGCTAATTGCAATGTGATAGTTGT
131 TGATTAGCTAATTGCAATGTGATAGTTGT
* *
2294958 AGGTCTCCCAAGTATGATTGGTACCTCTTTATCAACCTCACATTCCAAAATCATAAAAGCTGCTG
1 AGGTCTCCCAAGTATGATTGGTACCTCTTTATCAACCTCACATTCCAAAATAATAAAAGCTGCTA
*
2295023 GAAAAATAAATTTGTCAACCCTTACCAACACATCTTCTATTTTACCTTCTGGAGGTGCATATAAA
66 GAAAAATAAATTTGTCAACCCTTACCAACACATCTTCTATTTTACCTTCTGGAGGTGCATACAAA
*
2295088 TGATTAGGTAATTGCAATGTGATAGTTGT
131 TGATTAGCTAATTGCAATGTGATAGTTGT
2295117 AGGTCTC
1 AGGTCTC
2295124 GCCTTCCCTA
Statistics
Matches: 157, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
159 157 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (159 bp):
AGGTCTCCCAAGTATGATTGGTACCTCTTTATCAACCTCACATTCCAAAATAATAAAAGCTGCTA
GAAAAATAAATTTGTCAACCCTTACCAACACATCTTCTATTTTACCTTCTGGAGGTGCATACAAA
TGATTAGCTAATTGCAATGTGATAGTTGT
Found at i:2300012 original size:28 final size:28
Alignment explanation
Indices: 2299972--2300031 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
2299962 TATTAACAGA
2299972 AGAAACAAAATGTATTAGAATGAGTAAT
1 AGAAACAAAATGTATTAGAATGAGTAAT
2300000 AGAAACAAAATGTATTAGAATGAGTAAT
1 AGAAACAAAATGTATTAGAATGAGTAAT
2300028 AGAA
1 AGAA
2300032 TAAGAAAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.23
Consensus pattern (28 bp):
AGAAACAAAATGTATTAGAATGAGTAAT
Found at i:2300253 original size:17 final size:16
Alignment explanation
Indices: 2300224--2300270 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
2300214 AAACCACATA
*
2300224 ATTTTTTTA-TTTTTT
1 ATTTTTTCATTTTTTT
*
2300239 ATTTTTTCAATTTTTAT
1 ATTTTTTC-ATTTTTTT
*
2300256 GTTTTTTCATTTTTT
1 ATTTTTTCATTTTTT
2300271 CGATCACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 12 0.46
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (16 bp):
ATTTTTTCATTTTTTT
Found at i:2323368 original size:32 final size:32
Alignment explanation
Indices: 2323332--2323395 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
2323322 GATTAATAGA
*
2323332 CACAATAATTGAAAGGTGCATGCTTAATTTAG
1 CACAATAACTGAAAGGTGCATGCTTAATTTAG
2323364 CACAATAACTGAAAGGTGCATGCTTAATTTAG
1 CACAATAACTGAAAGGTGCATGCTTAATTTAG
2323396 TTCCTAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (32 bp):
CACAATAACTGAAAGGTGCATGCTTAATTTAG
Found at i:2325515 original size:18 final size:19
Alignment explanation
Indices: 2325483--2325518 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2325473 ATCTTTGCAG
*
2325483 AACCTTCTTCTTCTATAGA
1 AACCTTCTTCATCTATAGA
2325502 AACCTT-TTCATCTATAG
1 AACCTTCTTCATCTATAG
2325519 GAATTTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (19 bp):
AACCTTCTTCATCTATAGA
Found at i:2329608 original size:41 final size:41
Alignment explanation
Indices: 2329563--2329680 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
2329553 GATTATTGTG
*
2329563 AATTGCACATAGGTGCCCCTGGTTT-TACTTCAGTACCCCTA
1 AATTGCACATAAGTGCCCCT-GTTTGTACTTCAGTACCCCTA
* *
2329604 AATTGCACATAAGTGCCCCTATTTGTACTT-TGATACCCCTA
1 AATTGCACATAAGTGCCCCTGTTTGTACTTCAG-TACCCCTA
*
2329645 AATTGCACATACA-TGCCCCTGTTTGTACTTCGGTAC
1 AATTGCACATA-AGTGCCCCTGTTTGTACTTCAGTAC
2329681 TCCTGAACGC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
40 4 0.06
41 62 0.91
42 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (41 bp):
AATTGCACATAAGTGCCCCTGTTTGTACTTCAGTACCCCTA
Found at i:2330155 original size:24 final size:24
Alignment explanation
Indices: 2330128--2330182 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
2330118 CTCGTGTCGT
* *
2330128 ATGTTTTGAATTGGCTCAAATGGC
1 ATGTTTTGAAATGACTCAAATGGC
2330152 ATGTTTTGAAATGACTCAAATGGC
1 ATGTTTTGAAATGACTCAAATGGC
2330176 ATGTTTT
1 ATGTTTT
2330183 AGTGATGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (24 bp):
ATGTTTTGAAATGACTCAAATGGC
Found at i:2330633 original size:25 final size:24
Alignment explanation
Indices: 2330599--2330678 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
2330589 TAAGAGTTGA
*
2330599 CCTGGCACACAAGAGTGTGACACGG
1 CCTGGCACAC-AGCGTGTGACACGG
* * *
2330624 CCTGGGACACGGGCGTGTGACACAG
1 CCTGGCACAC-AGCGTGTGACACGG
* *
2330649 CCTAGTACATCAGCGTGTGACACGG
1 CCTGGCACA-CAGCGTGTGACACGG
2330674 CCTGG
1 CCTGG
2330679 AACAGGGGCA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
25 43 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.34, T:0.15
Consensus pattern (24 bp):
CCTGGCACACAGCGTGTGACACGG
Found at i:2330692 original size:25 final size:25
Alignment explanation
Indices: 2330613--2330695 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
2330603 GCACACAAGA
*
2330613 GTGTGACACGGCCTGGGACACGGGC
1 GTGTGACACGGCCTGGAACACGGGC
* * * *
2330638 GTGTGACACAGCCTAGTACATC-AGC
1 GTGTGACACGGCCTGGAACA-CGGGC
*
2330663 GTGTGACACGGCCTGGAACAGGGGC
1 GTGTGACACGGCCTGGAACACGGGC
*
2330688 ATGTGACA
1 GTGTGACA
2330696 TGGCTGTGTG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.36, T:0.16
Consensus pattern (25 bp):
GTGTGACACGGCCTGGAACACGGGC
Found at i:2332128 original size:21 final size:21
Alignment explanation
Indices: 2332104--2332167 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
2332094 TGGGAGCTAA
2332104 TTAATATCACATGGACACAAG
1 TTAATATCACATGGACACAAG
** *
2332125 TTAAT-T--TTTGGAGC-TAA-
1 TTAATATCACATGGA-CACAAG
2332142 TTAATATCACATGGACACAAG
1 TTAATATCACATGGACACAAG
2332163 TTAAT
1 TTAAT
2332168 TTTTACTCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
17 5 0.16
18 7 0.23
19 2 0.06
20 7 0.23
21 10 0.32
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
TTAATATCACATGGACACAAG
Found at i:2332138 original size:38 final size:38
Alignment explanation
Indices: 2332096--2332171 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
2332086 AACGAGTATG
2332096 GGAGCTAATTAATATCACATGGACACAAGTTAATTTTT
1 GGAGCTAATTAATATCACATGGACACAAGTTAATTTTT
2332134 GGAGCTAATTAATATCACATGGACACAAGTTAATTTTT
1 GGAGCTAATTAATATCACATGGACACAAGTTAATTTTT
2332172 ACTCCATGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (38 bp):
GGAGCTAATTAATATCACATGGACACAAGTTAATTTTT
Found at i:2343877 original size:30 final size:30
Alignment explanation
Indices: 2343836--2343892 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
2343826 TAGGCATTTA
* * *
2343836 CACATGGGCTGGGCACACGCCCGTGTGAGC
1 CACACGGGCTGGCCACACGCCCATGTGAGC
*
2343866 CACACGGGCTGGCCACATGCCCATGTG
1 CACACGGGCTGGCCACACGCCCATGTG
2343893 CCAGCCCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.35, G:0.33, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGCCACACGCCCATGTGAGC
Found at i:2348174 original size:19 final size:18
Alignment explanation
Indices: 2348127--2348174 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
2348117 ATTGATTTTA
*
2348127 TTTGTTTTTCTTTTTAGT
1 TTTGTTTTTATTTTTAGT
*
2348145 TTTATTTTTTATTTTTATGT
1 TTT-GTTTTTATTTTTA-GT
2348165 TTTGTTTTTA
1 TTTGTTTTTA
2348175 GTTGTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.79
Consensus pattern (18 bp):
TTTGTTTTTATTTTTAGT
Found at i:2348182 original size:35 final size:34
Alignment explanation
Indices: 2348125--2348209 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 34
2348115 TCATTGATTT
* *
2348125 TATTTGTTTTTCTT-TTTAGTTTTATTTTTTATTTT-
1 TATTT-TTTTTCTTAGTT-GTTTTA-TCTTTATTTTC
2348160 TATGTTTTGTTT-TTAGTTGTTTTATCTTTATTTTC
1 TAT-TTTT-TTTCTTAGTTGTTTTATCTTTATTTTC
2348195 TATTTTTTTTCTTAG
1 TATTTTTTTTCTTAG
2348210 ACTTATTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
33 3 0.07
34 17 0.40
35 16 0.37
36 7 0.16
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.75
Consensus pattern (34 bp):
TATTTTTTTTCTTAGTTGTTTTATCTTTATTTTC
Found at i:2355534 original size:43 final size:42
Alignment explanation
Indices: 2355353--2355554 Score: 205
Period size: 43 Copynumber: 4.7 Consensus size: 42
2355343 AAAGCTCGTA
* * *
2355353 CGATGCCAACGTCCTAGACATGGTCTTACATGTAA-TCAACTAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGTAACTCAA--AT
* * * * *
2355396 CGATGCC-ACTGTCCTAGATGGGGTCTTACACG-AAATCATAT
1 CGATGCCAAC-GTCCCAGACGTGGTCTTACACGTAACTCAAAT
* *
2355437 ACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT
1 -CGATGCCAACGTCCCAGACGTGGTCTTACACGT-AA-CTCAAAT
*
2355482 CAATGCCAACGTCCCAGACGTGGTCTTACACG-ACATCTCAAAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGTA-A-CTCAAAT
2355525 CGATGCCAACGTCCCAGACGTGGTCTTACA
1 CGATGCCAACGTCCCAGACGTGGTCTTACA
2355555 TGAAATCACA
Statistics
Matches: 135, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
41 2 0.01
42 30 0.22
43 67 0.50
44 31 0.23
45 5 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
CGATGCCAACGTCCCAGACGTGGTCTTACACGTAACTCAAAT
Found at i:2360673 original size:6 final size:6
Alignment explanation
Indices: 2360662--2360696 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
2360652 TAATTCCATA
* *
2360662 AATTTT AATTTT AATTTT AGTTTT AATTTT TATTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTT
2360697 ATAGTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (6 bp):
AATTTT
Found at i:2360685 original size:18 final size:19
Alignment explanation
Indices: 2360664--2360703 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
2360654 ATTCCATAAA
2360664 TTTTAATTTTAATTT-TAG
1 TTTTAATTTTAATTTATAG
*
2360682 TTTTAATTTTTATTTATAG
1 TTTTAATTTTAATTTATAG
2360701 TTT
1 TTT
2360704 ATATGTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTAATTTATAG
Found at i:2369409 original size:154 final size:154
Alignment explanation
Indices: 2369129--2369440 Score: 516
Period size: 154 Copynumber: 2.0 Consensus size: 154
2369119 ATCATGAAAC
* *
2369129 TCTTAATACTAATAGCCTTAATAGGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
1 TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
* *
2369194 TGAAATAATTAGAATACAATTAACATGTCAATAGAAATTAGATGTAAAATTCTATATGATTTGGA
66 TGAAATAATTAGAATAAAATTAACATGTCAATAGAAATTAGATGTAAAATTCTATATGATTTGAA
* *
2369259 CTTATATTGTCTTTGAATTTTGCA
131 CTTATATTATCTTCGAATTTTGCA
2369283 TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
1 TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
* * **
2369348 TGAAATAGTTAGGATAAAATTAACATGTCAATAGAAATTAGATGTGGAATTCTATATGATTTGAA
66 TGAAATAATTAGAATAAAATTAACATGTCAATAGAAATTAGATGTAAAATTCTATATGATTTGAA
* *
2369413 GTTATATTATCTTCGTATTTTGCA
131 CTTATATTATCTTCGAATTTTGCA
2369437 TCTT
1 TCTT
2369441 TTGTGTGTAC
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 146 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.42
Consensus pattern (154 bp):
TCTTAATACTAATAGCCTTAACAAGTATATGTTATTTGTAAATTTATATTTCTTAGTAAAGTTAG
TGAAATAATTAGAATAAAATTAACATGTCAATAGAAATTAGATGTAAAATTCTATATGATTTGAA
CTTATATTATCTTCGAATTTTGCA
Found at i:2371260 original size:24 final size:24
Alignment explanation
Indices: 2371225--2371270 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2371215 CGGGGAGGAA
*
2371225 GGATATATTGAATTTCATTTTTGT
1 GGATATATTGAATTCCATTTTTGT
2371249 GGATGATA-TGAATTCCATTTTT
1 GGAT-ATATTGAATTCCATTTTT
2371271 TCTTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (24 bp):
GGATATATTGAATTCCATTTTTGT
Found at i:2378565 original size:40 final size:38
Alignment explanation
Indices: 2378490--2378590 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 38
2378480 CGAATATTAT
* * * *
2378490 AATTATAATTACCATAACTATAATAATGTTTGATCGAAAA
1 AATTATAATTACAATAATTATAATAATATTCGATCG--AA
* * *
2378530 AATTACAATTACAATAATTATAATTATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCGAA
2378568 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
2378591 CAAGGATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 23 0.43
40 30 0.57
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCGAA
Found at i:2380750 original size:12 final size:12
Alignment explanation
Indices: 2380725--2380763 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2380715 ACTCGCTTCT
* *
2380725 TTACTTACTCAC
1 TTACTTGCTTAC
*
2380737 TTACTTGTTTAC
1 TTACTTGCTTAC
2380749 TTACTTGCTTAC
1 TTACTTGCTTAC
2380761 TTA
1 TTA
2380764 AATAATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:2381086 original size:50 final size:50
Alignment explanation
Indices: 2381024--2381147 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
2381014 CAATGTCATA
* * ** * **
2381024 TCCCAAATATGGTATTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATG
** *
2381074 TCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACACCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATG
*
2381124 TCCCAGACATGGTCTTACATGGGA
1 TCCCAAACATGGTCTTACATGGGA
2381148 TCTCATTCCC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATG
Found at i:2381523 original size:30 final size:30
Alignment explanation
Indices: 2381489--2381546 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2381479 CCTTGATTCT
2381489 AACTTTGGAAAAATTACAATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
* * * *
2381519 AACTTTTGCATAATTACACTTTTGCCCC
1 AACTTTGGAAAAATTACAATTTTGCCCC
2381547 AATGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCTA
Found at i:2385985 original size:48 final size:48
Alignment explanation
Indices: 2385903--2386093 Score: 224
Period size: 48 Copynumber: 4.0 Consensus size: 48
2385893 TATGCGTACT
2385903 GATAATCTGTTATGACACAAGGGTGGCA-AGGACTGTGTGCAGGCCACC
1 GATAATCTGTTATGACACAAGGGTGGCACA-GACTGTGTGCAGGCCACC
* * *
2385951 GATATTCTGTTGTGACACAAGGGTGGCACAGACTGTGTACAGGCCACC
1 GATAATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCCACC
* * * * * *
2385999 AATAA-CTTATTAAGATACAAGGGTGGCATAGACTATGTGCAGGCCACC
1 GATAATC-TGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCCACC
* * * * *
2386047 GAGAATCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGGCCAC
1 GATAATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCCAC
2386094 TTAGAAATCT
Statistics
Matches: 117, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 114 0.97
49 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
GATAATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCCACC
Found at i:2386083 original size:96 final size:96
Alignment explanation
Indices: 2385919--2386093 Score: 253
Period size: 96 Copynumber: 1.8 Consensus size: 96
2385909 CTGTTATGAC
* * * * *
2385919 ACAAGGGTGGCAAGGACTGTGTGCAGGCCACCGATATTCTGTTGTGACACAAGGGTGGCACAGAC
1 ACAAGGGTGGCAAGGACTATGTGCAGGCCACCGAGAATCTGTTATGACACAAAGGTGGCACAGAC
2385984 TGTGTACAGGCCACCAATAACTTATTAAGAT
66 TGTGTACAGGCCACCAATAACTTATTAAGAT
* * *
2386015 ACAAGGGTGGCATA-GACTATGTGCAGGCCACCGAGAATCTGTTATTACACAAAGGTGGTACGGA
1 ACAAGGGTGGCA-AGGACTATGTGCAGGCCACCGAGAATCTGTTATGACACAAAGGTGGCACAGA
*
2386079 CTGTGTGCAGGCCAC
65 CTGTGTACAGGCCAC
2386094 TTAGAAATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
96 68 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (96 bp):
ACAAGGGTGGCAAGGACTATGTGCAGGCCACCGAGAATCTGTTATGACACAAAGGTGGCACAGAC
TGTGTACAGGCCACCAATAACTTATTAAGAT
Found at i:2386252 original size:38 final size:38
Alignment explanation
Indices: 2386201--2386280 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
2386191 TATGTGGAAC
* * *
2386201 TGAATTGAATAGTGACTTGAAAATGGAAAA-GTG-AATTT
1 TGAATGGAATAGTGA-TTAAAAAT-AAAAAGGTGAAATTT
2386239 TGAATGGAATAGTGATTAAAAATAAAAAGGTGAAATTT
1 TGAATGGAATAGTGATTAAAAATAAAAAGGTGAAATTT
2386277 TGAA
1 TGAA
2386281 AAAGTAGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 4 0.11
37 10 0.27
38 23 0.62
ACGTcount: A:0.46, C:0.01, G:0.23, T:0.30
Consensus pattern (38 bp):
TGAATGGAATAGTGATTAAAAATAAAAAGGTGAAATTT
Found at i:2397477 original size:10 final size:10
Alignment explanation
Indices: 2397462--2397486 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2397452 CTAGTATTTA
2397462 TCCTCCTACG
1 TCCTCCTACG
2397472 TCCTCCTACG
1 TCCTCCTACG
2397482 TCCTC
1 TCCTC
2397487 TTCTTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.52, G:0.08, T:0.32
Consensus pattern (10 bp):
TCCTCCTACG
Found at i:2405351 original size:41 final size:41
Alignment explanation
Indices: 2405305--2405391 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
2405295 AGAATATTTT
2405305 TGAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* * *
2405346 TGAATTGCACATATGTGCCCCTCTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
2405387 TGAAT
1 TGAAT
2405392 ATACTTTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
Found at i:2417636 original size:30 final size:30
Alignment explanation
Indices: 2417600--2417916 Score: 241
Period size: 30 Copynumber: 10.6 Consensus size: 30
2417590 GTATCAATGA
*
2417600 CCATCGAATTATGAAAAGGGATAGCTTCGT
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
*
2417630 CCATCGAATTATGAAAAGGGATAACTTCGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * * * * *
2417660 CTATTGAATTGTGAAAAGAGATAACTTTGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * * * * * *
2417690 CTATTGAACTATGAAAAAGGAT-GGTAACGA
1 CCATCGAATTATGAAAAGGGATAGCT-TCGG
*
2417720 CCATCGAATTATGAAAAGGGATAGCTTTGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * * *
2417750 CTATCAAACTATGCAAAGGGATAGCTTCGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * *
2417780 TCATCGAATTATGAAAAGGGAT-G-GT-GA
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * * * **
2417807 CCATCATCAACTATGAAAAGGGAT-GGTGACTA
1 CCATC--GAATTATGAAAAGGGATAGCT-TCGG
*
2417839 CCATCGAATTATGAAAAGGGATAGCTTTGG
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
* * **
2417869 CTATTGAATTATGAAAAGGGATAGCTTCAA
1 CCATCGAATTATGAAAAGGGATAGCTTCGG
*
2417899 CTATCG-ATTATGAAAAGG
1 CCATCGAATTATGAAAAGG
2417917 AATGGTGATA
Statistics
Matches: 224, Mismatches: 55, Indels: 17
0.76 0.19 0.06
Matches are distributed among these distances:
27 5 0.02
28 1 0.00
29 30 0.13
30 178 0.79
31 4 0.02
32 6 0.03
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (30 bp):
CCATCGAATTATGAAAAGGGATAGCTTCGG
Found at i:2417830 original size:29 final size:30
Alignment explanation
Indices: 2417780--2417860 Score: 128
Period size: 29 Copynumber: 2.7 Consensus size: 30
2417770 ATAGCTTCGG
2417780 TCATCGAATTATGAAAAGGGATGGTGACCA
1 TCATCGAATTATGAAAAGGGATGGTGACCA
* *
2417810 TCATC-AACTATGAAAAGGGATGGTGACTA
1 TCATCGAATTATGAAAAGGGATGGTGACCA
*
2417839 CCATCGAATTATGAAAAGGGAT
1 TCATCGAATTATGAAAAGGGAT
2417861 AGCTTTGGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 26 0.57
30 20 0.43
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (30 bp):
TCATCGAATTATGAAAAGGGATGGTGACCA
Found at i:2423806 original size:8 final size:8
Alignment explanation
Indices: 2423793--2423838 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
2423783 ATCCAATTCA
2423793 CTCTCATT
1 CTCTCATT
2423801 CTCTCATT
1 CTCTCATT
**
2423809 CTCTCCCT
1 CTCTCATT
2423817 CTCTCACGTT
1 CTCTCA--TT
2423827 CTCTCATT
1 CTCTCATT
2423835 CTCT
1 CTCT
2423839 TTTTAAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 25 0.78
10 7 0.22
ACGTcount: A:0.09, C:0.43, G:0.02, T:0.46
Consensus pattern (8 bp):
CTCTCATT
Found at i:2434587 original size:25 final size:25
Alignment explanation
Indices: 2434559--2434607 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2434549 TGAGCTTTCC
*
2434559 AATTTATAACTCGTGA-GAGCATACT
1 AATTCATAACTCGT-ATGAGCATACT
*
2434584 AATTCATAGCTCGTATGAGCATAC
1 AATTCATAACTCGTATGAGCATAC
2434608 ATGTACAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (25 bp):
AATTCATAACTCGTATGAGCATACT
Found at i:2448719 original size:71 final size:71
Alignment explanation
Indices: 2448601--2448743 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
2448591 CATTTTAGCG
2448601 ATAGGAAACATAATTGCTTGATTAAAAGAAGTGGGAATATCAATACCTAAGCGATGCTTCCGCTC
1 ATAGGAAACATAATTGCTTGATTAAAAGAAGTGGGAATATCAATACCTAAGCGATGCTTCCGCTC
2448666 ACCCCT
66 ACCCCT
* *
2448672 ATAGGAAACATAATTGCTTGATTAAAAGAATTGGGAATATCAGTACCTAAGCGATGCTTCCGCTC
1 ATAGGAAACATAATTGCTTGATTAAAAGAAGTGGGAATATCAATACCTAAGCGATGCTTCCGCTC
2448737 ACCCCT
66 ACCCCT
2448743 A
1 A
2448744 CCTTATGTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (71 bp):
ATAGGAAACATAATTGCTTGATTAAAAGAAGTGGGAATATCAATACCTAAGCGATGCTTCCGCTC
ACCCCT
Found at i:2450488 original size:21 final size:20
Alignment explanation
Indices: 2450462--2450501 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2450452 AAAACACAAG
2450462 TTGAAATAAACAGATTTAATT
1 TTGAAA-AAACAGATTTAATT
* *
2450483 TTGAAAACACATATTTAAT
1 TTGAAAAAACAGATTTAAT
2450502 ATTTCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
TTGAAAAAACAGATTTAATT
Found at i:2464358 original size:5 final size:6
Alignment explanation
Indices: 2464306--2464363 Score: 71
Period size: 6 Copynumber: 9.2 Consensus size: 6
2464296 ACCAATTTAG
* *
2464306 TTTATC TTTATTT TTTATT TTTATT TTTATT TGTAATGT TTTATT TTTATT
1 TTTATT TTTA-TT TTTATT TTTATT TTTATT T-TTAT-T TTTATT TTTATT
2464357 TTTATT T
1 TTTATT T
2464364 GAATTCCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 33 0.72
7 11 0.24
8 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:2464395 original size:3 final size:3
Alignment explanation
Indices: 2464387--2464429 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2464377 TTTTTAATCC
2464387 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2464430 TCTCCTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2464587 original size:23 final size:23
Alignment explanation
Indices: 2464560--2464619 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2464550 TGACATTACC
*
2464560 TTTAAACTTATTATTATTATAAT
1 TTTAAACTTATTATTACTATAAT
* * *
2464583 TTTAAAACGTAATA-TACTATTAT
1 TTT-AAACTTATTATTACTATAAT
2464606 TTTAAA-TTATTATT
1 TTTAAACTTATTATT
2464620 GACATGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
23 13 0.45
24 8 0.28
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTAAACTTATTATTACTATAAT
Found at i:2464652 original size:15 final size:15
Alignment explanation
Indices: 2464612--2464652 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
2464602 TTATTTTAAA
2464612 TTATTA-TTGACATG
1 TTATTATTTGACATG
2464626 TT-TTAAATTTGACATG
1 TTATT--ATTTGACATG
2464642 TTATTATTTGA
1 TTATTATTTGA
2464653 TTTATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.09
14 2 0.09
15 7 0.30
16 10 0.43
17 2 0.09
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (15 bp):
TTATTATTTGACATG
Found at i:2469393 original size:12 final size:12
Alignment explanation
Indices: 2469378--2469411 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2469368 AAGAAGAAAA
2469378 AAAATCAAAATC
1 AAAATCAAAATC
2469390 AAAATCAAAATC
1 AAAATCAAAATC
*
2469402 AAAAACAAAA
1 AAAATCAAAA
2469412 AAGAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAATCAAAATC
Found at i:2469394 original size:41 final size:41
Alignment explanation
Indices: 2469343--2469443 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 41
2469333 CAATTCAAAA
* *
2469343 AAAAACAAAATCAAAAAGACAAAA-AAAGAAGAAAAAAAATC
1 AAAATCAAAATCAAAAAGA-AAAACAAAAAAGAAAAAAAATC
**
2469384 AAAATCAAAATCAAAATCAAAAACAAAAAAGAAAAAAAATC
1 AAAATCAAAATCAAAAAGAAAAACAAAAAAGAAAAAAAATC
* *
2469425 AAAGTCAAAAGCAAAAAGA
1 AAAATCAAAATCAAAAAGA
2469444 GAAATCAATC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 4 0.08
41 47 0.92
ACGTcount: A:0.75, C:0.11, G:0.07, T:0.07
Consensus pattern (41 bp):
AAAATCAAAATCAAAAAGAAAAACAAAAAAGAAAAAAAATC
Found at i:2469406 original size:29 final size:31
Alignment explanation
Indices: 2469385--2469463 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 31
2469375 AAAAAAATCA
*
2469385 AAATCAAAATCAAAATCAAAAACAAAAA-AG
1 AAATCAAAATCAAAGTCAAAAACAAAAAGAG
* *
2469415 AAA-AAAAATCAAAGTCAAAAGCAAAAAGAG
1 AAATCAAAATCAAAGTCAAAAACAAAAAGAG
2469445 AAATC--AATCAAAGTCAAAA
1 AAATCAAAATCAAAGTCAAAA
2469464 TAAAAATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 35 0.81
30 8 0.19
ACGTcount: A:0.70, C:0.13, G:0.08, T:0.10
Consensus pattern (31 bp):
AAATCAAAATCAAAGTCAAAAACAAAAAGAG
Found at i:2469469 original size:29 final size:28
Alignment explanation
Indices: 2469390--2469478 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 28
2469380 AATCAAAATC
*
2469390 AAAATCAAAATCAAAAACAAAAAAGAAAA
1 AAAATCAAAGTC-AAAACAAAAAAGAAAA
2469419 AAAATCAAAGTCAAAAGC-AAAAAGAGAAA
1 AAAATCAAAGTCAAAA-CAAAAAAGA-AAA
** *
2469448 TCAATCAAAGTCAAAATAAAAATATGAAAA
1 AAAATCAAAGTCAAAACAAAAA-A-GAAAA
2469478 A
1 A
2469479 GATAAAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
28 11 0.22
29 33 0.66
30 4 0.08
31 2 0.04
ACGTcount: A:0.71, C:0.10, G:0.08, T:0.11
Consensus pattern (28 bp):
AAAATCAAAGTCAAAACAAAAAAGAAAA
Found at i:2470375 original size:6 final size:7
Alignment explanation
Indices: 2470362--2470395 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
2470352 AAAAAAAGGG
2470362 ATGAAAA
1 ATGAAAA
2470369 ATGAAAA
1 ATGAAAA
2470376 ATG-AAA
1 ATGAAAA
2470382 ATGAAAA
1 ATGAAAA
2470389 ATGAAAA
1 ATGAAAA
2470396 GTAAGGACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:2470382 original size:13 final size:13
Alignment explanation
Indices: 2470366--2470395 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2470356 AAAGGGATGA
2470366 AAAATGAAAAATG
1 AAAATGAAAAATG
2470379 AAAATGAAAAATG
1 AAAATGAAAAATG
2470392 AAAA
1 AAAA
2470396 GTAAGGACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:2471682 original size:21 final size:22
Alignment explanation
Indices: 2471653--2471703 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2471643 TCTCTCTCGC
*
2471653 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
2471674 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
2471696 TTT-ATTTT
1 TTTCATTTT
2471704 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:2473572 original size:18 final size:18
Alignment explanation
Indices: 2473549--2473585 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2473539 GCAGCAAGAA
2473549 AGAGGGAAATTATAGATT
1 AGAGGGAAATTATAGATT
2473567 AGAGGGAAATTATAGATT
1 AGAGGGAAATTATAGATT
2473585 A
1 A
2473586 AGAATGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (18 bp):
AGAGGGAAATTATAGATT
Found at i:2479967 original size:22 final size:21
Alignment explanation
Indices: 2479918--2479968 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2479908 GAGTAAAAGC
* * *
2479918 TTTGGGAGAAAAGTAAAAATG
1 TTTGGGGGTAAAGTAAAAATA
2479939 TTTGGGGGTAAAGTAAAAATA
1 TTTGGGGGTAAAGTAAAAATA
2479960 TTTGGGGGT
1 TTTGGGGGT
2479969 TTGGGGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.29
Consensus pattern (21 bp):
TTTGGGGGTAAAGTAAAAATA
Found at i:2485709 original size:21 final size:20
Alignment explanation
Indices: 2485671--2485713 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
2485661 TTCTGCCAAA
*
2485671 TCATTCATTCGTTCATATTAT
1 TCATACATTCGTTCATA-TAT
* *
2485692 TCATACATTCTTTTATATAT
1 TCATACATTCGTTCATATAT
2485712 TC
1 TC
2485714 TTTGGTACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (20 bp):
TCATACATTCGTTCATATAT
Found at i:2487827 original size:100 final size:99
Alignment explanation
Indices: 2487654--2488236 Score: 787
Period size: 100 Copynumber: 5.8 Consensus size: 99
2487644 ACCATAGATT
* * *
2487654 TTACTTCCTTAGCAGTGCAGTGGAACAGATAGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAG-AGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATAT
2487719 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
65 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
*
2487754 TTACTTCCTTAGTAGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAG-AGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATAT
* * *
2487819 TGCAATT-AAAAGATTAAAGCCAAAAGGGCGGATC
65 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * *
2487853 TTACTTCCTTAGCAATACAGTGGAATAGATTGAAGCTACGATGGCGGATCTAGTTTCCCTGATAT
1 TTACTTCCTTAG-AGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATAT
*
2487918 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATT
65 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * *
2487953 TTACTTCCTCAGTAGTACAGCGGAATAGATTGAAGCTACGACAGCGGATCTAGTTTCCCTGATAT
1 TTACTTCCTTAG-AGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATAT
2488018 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
65 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * * * *
2488053 TTAATTCATT-GACGTTGCAGTGGAATAGATTGAAGCTATGATGGCGGATCTAGTTTCCCTGATA
1 TTACTTCCTTAGA-G-TACAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATA
* *
2488117 TTGCAATTAAAAAGATTAAAGCCACAACGGTGGATC
64 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * * * *
2488153 TTACTTCCCT-GACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACA
1 TTACTTCCTTAGA--GTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATA
*
2488217 TTGCAGTTAAATAA-ATTGAA
64 TTGCAATTAAA-AAGATTGAA
2488237 AATTTCAGAT
Statistics
Matches: 433, Mismatches: 45, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.00
99 93 0.21
100 336 0.78
101 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (99 bp):
TTACTTCCTTAGAGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTGATATT
GCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:2488235 original size:50 final size:49
Alignment explanation
Indices: 2487680--2488236 Score: 312
Period size: 50 Copynumber: 11.2 Consensus size: 49
2487670 GCAGTGGAAC
* * *
2487680 AGATAGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGTT-AAA
* * ** * * * * *
2487730 AGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGTAGTACAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGA-TATTGCAGT-TAAA
* *
2487780 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAA
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGTTAAA
* * ** * ** * * * *
2487829 AGATTAAAGCCAAAAGGGCGGATCTTACTTCCTTAGCA-A-TACAGTGGAAT
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCT-G-ATATTGCAGT-TAAA
* * *
2487879 AGATTGAAGCTACGATGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGTT-AAA
* * * ** * * * ** *
2487929 AGATTGAAGCCACAACGGCGGATTTTACTT-CCTCAGTAGTACAGCGGAAT
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGA-TATTGCAG-TTAAA
* * *
2487979 AGATTGAAGCTACGACAGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGTT-AAA
* * ** ** ** * *
2488029 AGATTGAAGCCACAACGGCGGATCTTAATTCATTGACGTTGCAGTGGAAT
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGT-TAAA
* * * *
2488079 AGATTGAAGCTATGATGGCGGATCTAGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGTT-AAA
* * * * ** *** * * *
2488129 AGATTAAAGCCACAACGGTGGATCTTACTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGT-TAAA
* * *
2488179 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAGTTAAA
1 AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGTTAAA
*
2488228 TAAATTGAA
1 -AGATTGAA
2488237 AATTTCAGAT
Statistics
Matches: 356, Mismatches: 134, Indels: 34
0.68 0.26 0.06
Matches are distributed among these distances:
48 1 0.00
49 43 0.12
50 303 0.85
51 9 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (49 bp):
AGATTGAAGCTACGACGGCGGATCTTGTTTCCCTGATATTGCAGTTAAA
Done.