Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 137 of 199
Found at i:45666767 original size:22 final size:22
Alignment explanation
Indices: 45666742--45666785 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
45666732 TAGCCTCTCC
45666742 ATTTTT-ACTTTTTCCATTTTTT
1 ATTTTTCA-TTTTTCCATTTTTT
*
45666764 ATTTTTCATTTTTTCATTTTTT
1 ATTTTTCATTTTTCCATTTTTT
45666786 CACATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (22 bp):
ATTTTTCATTTTTCCATTTTTT
Found at i:45666777 original size:15 final size:15
Alignment explanation
Indices: 45666739--45666784 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
45666729 CCTTAGCCTC
45666739 TCCA-TTTTTACTTTT
1 TCCATTTTTTA-TTTT
45666754 TCCATTTTTTATTTT
1 TCCATTTTTTATTTT
45666769 T-CATTTTTTCATTTT
1 TCCATTTTTT-ATTTT
45666784 T
1 T
45666785 TCACATCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.28
15 15 0.52
16 6 0.21
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TCCATTTTTTATTTT
Found at i:45666785 original size:8 final size:8
Alignment explanation
Indices: 45666741--45666787 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
45666731 TTAGCCTCTC
*
45666741 CATTTTTA
1 CATTTTTT
*
45666749 C-TTTTTC
1 CATTTTTT
45666756 CATTTTTT
1 CATTTTTT
45666764 -A-TTTTT
1 CATTTTTT
45666770 CATTTTTT
1 CATTTTTT
45666778 CATTTTTT
1 CATTTTTT
45666786 CA
1 CA
45666788 CATCTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.15
7 8 0.24
8 21 0.62
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (8 bp):
CATTTTTT
Found at i:45670530 original size:15 final size:15
Alignment explanation
Indices: 45670510--45670540 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45670500 GTGTTAACGC
45670510 ATATATATATACAAA
1 ATATATATATACAAA
*
45670525 ATATATATATATAAA
1 ATATATATATACAAA
45670540 A
1 A
45670541 AGAACATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATATATATACAAA
Found at i:45670532 original size:17 final size:16
Alignment explanation
Indices: 45670510--45670541 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
45670500 GTGTTAACGC
45670510 ATATATATATACAAAAT
1 ATATATATATA-AAAAT
45670527 ATATATATATAAAAA
1 ATATATATATAAAAA
45670542 GAACATAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:45670915 original size:20 final size:20
Alignment explanation
Indices: 45670879--45670938 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
45670869 ACATACACGC
*
45670879 ATATAATGTAAGT-ATAATGA
1 ATATAATATAAGTAATAAT-A
45670899 ATATAATATAA-TAATAACTA
1 ATATAATATAAGTAATAA-TA
* *
45670919 ATATAATAAAATTAATAATA
1 ATATAATATAAGTAATAATA
45670939 TAAAGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.03
20 27 0.77
21 7 0.20
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
ATATAATATAAGTAATAATA
Found at i:45673722 original size:29 final size:30
Alignment explanation
Indices: 45673669--45673725 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
45673659 TTCGAGCCTT
45673669 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGCAAAAGTTTA
*
45673699 GGGGC-AAAATCGTAATTTTG-AAAAGTT
1 GGGGCAAAAAT-GTAATTATGCAAAAGTT
45673726 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGCAAAAGTTTA
Found at i:45674141 original size:50 final size:50
Alignment explanation
Indices: 45674063--45674305 Score: 362
Period size: 50 Copynumber: 4.8 Consensus size: 50
45674053 ATTTGGGTAA
*
45674063 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
45674113 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
45674163 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGTAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
** * *
45674213 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
45674263 AGTACATCCCATGTAAGACCATGGCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45674306 TGTCATTATC
Statistics
Matches: 174, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
49 2 0.01
50 137 0.79
51 35 0.20
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:45684315 original size:40 final size:40
Alignment explanation
Indices: 45684081--45684301 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
45684071 TTGAATGATG
* * * * *
45684081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
45684121 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACT-AA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45684159 TCC-GGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
45684196 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
45684236 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
45684277 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
45684302 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
35 19 0.12
36 4 0.02
37 11 0.07
38 10 0.06
39 2 0.01
40 108 0.66
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45689910 original size:39 final size:39
Alignment explanation
Indices: 45689858--45690027 Score: 211
Period size: 39 Copynumber: 4.3 Consensus size: 39
45689848 GGACTAAGAT
45689858 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
45689897 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
45689937 CCGAAGGCATTCGTGCGAG-TATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
45689976 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
45690015 CCGAAGGCATTTG
1 CCGAAGGCATTTG
45690028 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
38 7 0.06
39 84 0.73
40 24 0.21
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:45689941 original size:79 final size:78
Alignment explanation
Indices: 45689805--45690027 Score: 229
Period size: 78 Copynumber: 2.8 Consensus size: 78
45689795 TTGAATGCTG
* * * * * * *
45689805 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
45689868 TTGTGCGAG-ATACAAA
63 TTGTGCGAGTAT-CAAA
* * *
45689884 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
45689948 CGTGCGAGTATTAAA
64 TGTGCGAGTATCAAA
* * *
45689963 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
45690028 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 50 0.41
79 50 0.41
80 22 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTATCAAA
Found at i:45690049 original size:78 final size:79
Alignment explanation
Indices: 45689885--45690060 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 79
45689875 AGATACAAAT
* * *
45689885 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
45689949 GTGCGAGTATTAAA
66 GAACGAGGACTAAA
* * * *
45689963 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
45690027 GAACGAGGAGCTATA
66 GAACGAGGA-CTAAA
*
45690042 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45690061 TAGTGATTTG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 69 0.83
79 14 0.17
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGACTAAA
Found at i:45697447 original size:80 final size:78
Alignment explanation
Indices: 45697363--45697534 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
45697353 GGACTAAGAT
*
45697363 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
45697426 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
45697443 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
45697508 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
45697522 CCGAAGGCATTTG
1 CCGAAGGCATTTG
45697535 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:45697525 original size:39 final size:39
Alignment explanation
Indices: 45697310--45697532 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
45697300 TTGAATGCTG
* * * * * *
45697310 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
45697350 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
45697390 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
45697430 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
45697470 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
45697509 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45697533 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:45697552 original size:79 final size:80
Alignment explanation
Indices: 45697390--45697567 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
45697380 AGATACAAGT
* * * *
45697390 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
45697455 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
45697470 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
45697534 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
45697549 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45697568 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:45704557 original size:105 final size:99
Alignment explanation
Indices: 45704381--45704643 Score: 271
Period size: 105 Copynumber: 2.6 Consensus size: 99
45704371 GTTCTTTTTG
* * ** * **
45704381 TGCCATAGTCCAACTATGGTCTTACACATGCATTGCCATGGTCCTTCCATGGTCTTACATTTGTA
1 TGCCATAGCCCAGCTATGGTCTTACACATGCATTGCCATGGTCCAACCATGGTCTTACAGTTCAA
* *
45704446 GTGCCATAACCTAGTTA-AGGT-TTTATCATCAGAA
66 GTGCCATAACCCAGTTATA-GTCTTT-TCATCAAAA
*
45704480 TGCCATAGCCCAGCTATGGTCTTACACATGTATCTATACTGCCTTGGTCCAACCATGGTCTTAC-
1 TGCCATAGCCCAGCTATGGTCTTACACATG---C-AT--TGCCATGGTCCAACCATGGTCTTACA
*
45704544 GTTCAAGGTGCCATAACCCAGTTATAGTCTTTTCATTAAAA
60 GTTCAA-GTGCCATAACCCAGTTATAGTCTTTTCATCAAAA
* * **
45704585 TGCCATGGCCCAGCTATGGTCTTACATTTAAACATTGCCATGGTCCAACCATGGTCTTA
1 TGCCATAGCCCAGCTATGGTCTTACA--CATGCATTGCCATGGTCCAACCATGGTCTTA
45704644 TCCGTCAATT
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
99 28 0.20
101 23 0.17
102 1 0.01
103 4 0.03
104 4 0.03
105 72 0.53
106 4 0.03
107 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (99 bp):
TGCCATAGCCCAGCTATGGTCTTACACATGCATTGCCATGGTCCAACCATGGTCTTACAGTTCAA
GTGCCATAACCCAGTTATAGTCTTTTCATCAAAA
Found at i:45705570 original size:263 final size:263
Alignment explanation
Indices: 45705232--45705758 Score: 1054
Period size: 263 Copynumber: 2.0 Consensus size: 263
45705222 AACGTTAAAA
45705232 TTTTCTAACGAAAGTTTACTACTATCTTAATGACACTTCGTAAATATTGATAAAAATATTTATAG
1 TTTTCTAACGAAAGTTTACTACTATCTTAATGACACTTCGTAAATATTGATAAAAATATTTATAG
45705297 CTCTATTTATAAAATCGAGGTCTCGATACCTTGTTTTCAAAACCAATTAATCTAACAAATATTTC
66 CTCTATTTATAAAATCGAGGTCTCGATACCTTGTTTTCAAAACCAATTAATCTAACAAATATTTC
45705362 TAAAGCATAATTCACTAATTCATAAGCCTTCCTAAATTCACAGTCGACTCATAAATACTATATAA
131 TAAAGCATAATTCACTAATTCATAAGCCTTCCTAAATTCACAGTCGACTCATAAATACTATATAA
45705427 TAATATTTACTACCTCGATTGTTAGATTTAGTGGTCTCGAACTACTGTTTCTGACACCACTAAAA
196 TAATATTTACTACCTCGATTGTTAGATTTAGTGGTCTCGAACTACTGTTTCTGACACCACTAAAA
45705492 ATT
261 ATT
45705495 TTTTCTAACGAAAGTTTACTACTATCTTAATGACACTTCGTAAATATTGATAAAAATATTTATAG
1 TTTTCTAACGAAAGTTTACTACTATCTTAATGACACTTCGTAAATATTGATAAAAATATTTATAG
45705560 CTCTATTTATAAAATCGAGGTCTCGATACCTTGTTTTCAAAACCAATTAATCTAACAAATATTTC
66 CTCTATTTATAAAATCGAGGTCTCGATACCTTGTTTTCAAAACCAATTAATCTAACAAATATTTC
45705625 TAAAGCATAATTCACTAATTCATAAGCCTTCCTAAATTCACAGTCGACTCATAAATACTATATAA
131 TAAAGCATAATTCACTAATTCATAAGCCTTCCTAAATTCACAGTCGACTCATAAATACTATATAA
45705690 TAATATTTACTACCTCGATTGTTAGATTTAGTGGTCTCGAACTACTGTTTCTGACACCACTAAAA
196 TAATATTTACTACCTCGATTGTTAGATTTAGTGGTCTCGAACTACTGTTTCTGACACCACTAAAA
45705755 ATT
261 ATT
45705758 T
1 T
45705759 GGCTGTTACA
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
263 264 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (263 bp):
TTTTCTAACGAAAGTTTACTACTATCTTAATGACACTTCGTAAATATTGATAAAAATATTTATAG
CTCTATTTATAAAATCGAGGTCTCGATACCTTGTTTTCAAAACCAATTAATCTAACAAATATTTC
TAAAGCATAATTCACTAATTCATAAGCCTTCCTAAATTCACAGTCGACTCATAAATACTATATAA
TAATATTTACTACCTCGATTGTTAGATTTAGTGGTCTCGAACTACTGTTTCTGACACCACTAAAA
ATT
Found at i:45721801 original size:27 final size:27
Alignment explanation
Indices: 45721509--45721800 Score: 359
Period size: 27 Copynumber: 10.8 Consensus size: 27
45721499 TATAACAGTT
* *
45721509 ATTTTACCGTATGGGGGTATCTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* **
45721536 ATTTTACCCTATAGGGGTATTTCGACC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*** *
45721563 ATTTTACCCTATGATAGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* ** *
45721590 ATTCTACCCTATAAGGGTATTTCGTTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
45721617 ATTTTACCTTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
45721644 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
45721671 ATTCTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
45721698 ATTCTATCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
45721725 ATTCTACCCTATGGGAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
45721752 ATTCTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
45721779 ATTTTACCCTATAGAGGTATTT
1 ATTTTACCCTATGGGGGTATTT
45721801 TAGTCATAAC
Statistics
Matches: 230, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 230 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:45725573 original size:81 final size:82
Alignment explanation
Indices: 45725476--45725637 Score: 290
Period size: 81 Copynumber: 2.0 Consensus size: 82
45725466 TCGTGCAATG
*
45725476 TTTTCTAAAAACCACACTAGTTTTGCTAATCTGACTTAATAAAGGTTGATTTAATTAAATGAATG
1 TTTTCTAAAAACCACACTAGTTTTGCTAATCTAACTTAATAAAGGTTGATTTAATTAAATGAATG
*
45725541 TTTTCCTAGAATTAACT
66 TTTTCCCAGAATTAACT
*
45725558 TTTTC-AAAAATCACACTAGTTTTGCTAATCTAACTTAATAAAGGTTGATTTAATTAAATGAATG
1 TTTTCTAAAAACCACACTAGTTTTGCTAATCTAACTTAATAAAGGTTGATTTAATTAAATGAATG
45725622 TTTTCCCAGAATTAAC
66 TTTTCCCAGAATTAAC
45725638 AAAGGTAATC
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 72 0.94
82 5 0.06
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (82 bp):
TTTTCTAAAAACCACACTAGTTTTGCTAATCTAACTTAATAAAGGTTGATTTAATTAAATGAATG
TTTTCCCAGAATTAACT
Found at i:45735424 original size:21 final size:21
Alignment explanation
Indices: 45735384--45735426 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45735374 ATTGTTGAGA
* *
45735384 AGGAAGTTGCTGTTGCAAAAG
1 AGGAAGTTGCTGCTGAAAAAG
*
45735405 AGGAAGTTGTTGCTGAAAAAG
1 AGGAAGTTGCTGCTGAAAAAG
45735426 A
1 A
45735427 AAAAAGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAAAAG
Found at i:45738256 original size:24 final size:22
Alignment explanation
Indices: 45738214--45738258 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
45738204 TAATTATTTA
*
45738214 CATTTCATATACATGTATCATT
1 CATTTCATATACATATATCATT
45738236 CATTTCATATATCAGTATATCAT
1 CATTTCATATA-CA-TATATCAT
45738259 GTAACATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 2 0.10
24 7 0.35
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (22 bp):
CATTTCATATACATATATCATT
Found at i:45738559 original size:25 final size:25
Alignment explanation
Indices: 45738497--45738566 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
45738487 GCTAAATAAC
* *
45738497 AGTAAGCTCATGCGAGCTGAGTACT
1 AGTAAGCTAATACGAGCTGAGTACT
* *
45738522 GGTAAGCTCATACGAGCTGAGTA-T
1 AGTAAGCTAATACGAGCTGAGTACT
*
45738546 CAGTAGGCTAATACGAGCTGA
1 -AGTAAGCTAATACGAGCTGA
45738567 AATCGGTAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (25 bp):
AGTAAGCTAATACGAGCTGAGTACT
Found at i:45747564 original size:35 final size:35
Alignment explanation
Indices: 45747518--45747588 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
45747508 CCCACCTTAA
45747518 TAACTTCCTGGGGTTACCATGTAACACCCCAAACC
1 TAACTTCCTGGGGTTACCATGTAACACCCCAAACC
45747553 TAACTTCCTGGGGTTACCATGTAACACCCCAAACC
1 TAACTTCCTGGGGTTACCATGTAACACCCCAAACC
45747588 T
1 T
45747589 GGCCTCAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (35 bp):
TAACTTCCTGGGGTTACCATGTAACACCCCAAACC
Found at i:45749508 original size:37 final size:37
Alignment explanation
Indices: 45749458--45749536 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
45749448 TTATTACGAA
* *
45749458 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
45749495 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
45749532 GTCTT
1 GTCTT
45749537 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:45749724 original size:47 final size:47
Alignment explanation
Indices: 45749655--45750051 Score: 731
Period size: 47 Copynumber: 8.4 Consensus size: 47
45749645 CCCTTCGGGA
* *
45749655 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
45749702 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
45749749 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
45749796 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45749843 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
45749890 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
45749937 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45749984 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45750033 CTTATCACATATATACACT
1 CTTATCACACATATACACT
45750052 GTCTTGGCTG
Statistics
Matches: 343, Mismatches: 5, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
47 297 0.87
49 46 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45752406 original size:26 final size:26
Alignment explanation
Indices: 45752350--45752426 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 26
45752340 ACACCAATAT
* * * * *
45752350 CGCAGCAGAGCTACTAGTAATAATGA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
45752376 TGCAGCAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* * *
45752402 CGCAGCAAGGCTGGCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAATAGTA
45752427 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:45752675 original size:27 final size:27
Alignment explanation
Indices: 45752604--45752717 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 27
45752594 TATAACAGTT
* *
45752604 ATTTTACCCTTCG-GGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * * *
45752630 ATTTCACCTTTCAATGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
45752657 ATTTTACCCTACGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
45752684 ATTTTACCCTGC-AGGGTAGTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
45752710 ATTTTACC
1 ATTTTACC
45752718 ACGAATCGTA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 30 0.41
27 43 0.59
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:45752712 original size:53 final size:53
Alignment explanation
Indices: 45752604--45752717 Score: 131
Period size: 53 Copynumber: 2.2 Consensus size: 53
45752594 TATAACAGTT
* * * * * * *
45752604 ATTTTACCCTTCGGGGTATTTTGGTAATTTCACCTTTCAATGGTATTTCGATA
1 ATTTTACCCTACGGGGTATTTCGATAATTTCACCCTGCAAGGGTAGTTCGATA
* *
45752657 ATTTTACCCTACGAGGGTATTTCGATAATTTTACCCTGC-AGGGTAGTTCGGTA
1 ATTTTACCCTACG-GGGTATTTCGATAATTTCACCCTGCAAGGGTAGTTCGATA
45752710 ATTTTACC
1 ATTTTACC
45752718 ACGAATCGTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 31 0.61
54 20 0.39
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (53 bp):
ATTTTACCCTACGGGGTATTTCGATAATTTCACCCTGCAAGGGTAGTTCGATA
Found at i:45753588 original size:13 final size:14
Alignment explanation
Indices: 45753559--45753589 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45753549 AATGGAGAAA
45753559 AAAAGAGAAGAGGG
1 AAAAGAGAAGAGGG
45753573 AAAAGAGAAG-GGG
1 AAAAGAGAAGAGGG
45753586 AAAA
1 AAAA
45753590 TTGGCAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
AAAAGAGAAGAGGG
Found at i:45760059 original size:26 final size:26
Alignment explanation
Indices: 45760030--45760095 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
45760020 ATCGCAGTAG
* * *
45760030 AGCTGCGAGTAATAATGACGCAACAA
1 AGCTGCCAGTAACAATAACGCAACAA
* *
45760056 AGCTACCAGTAACAGTAACGCAACAA
1 AGCTGCCAGTAACAATAACGCAACAA
*
45760082 GGCTGCCAGTAACA
1 AGCTGCCAGTAACA
45760096 GTATATGTGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.14
Consensus pattern (26 bp):
AGCTGCCAGTAACAATAACGCAACAA
Found at i:45760096 original size:26 final size:26
Alignment explanation
Indices: 45760047--45760098 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
45760037 AGTAATAATG
45760047 ACGCAACAAAGCTACCAGTAACAGTA
1 ACGCAACAAAGCTACCAGTAACAGTA
* *
45760073 ACGCAACAAGGCTGCCAGTAACAGTA
1 ACGCAACAAAGCTACCAGTAACAGTA
45760099 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.27, G:0.19, T:0.12
Consensus pattern (26 bp):
ACGCAACAAAGCTACCAGTAACAGTA
Found at i:45760512 original size:27 final size:27
Alignment explanation
Indices: 45760276--45760526 Score: 324
Period size: 27 Copynumber: 9.3 Consensus size: 27
45760266 TATAACAGTT
* * *
45760276 ATTTTACCTTTCGGGGGTATTTCGCTT
1 ATTTTACCCTTCGGGGGTATTTCGATA
*
45760303 ATTTTACCCTTCGGGGGTGTTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* * *
45760330 ATTTTATCCTTCAGTGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
*
45760357 ATTTTACCCTTCGGGGGTATTTCAATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* *
45760384 ATTTTACCCCTCGAGGGTATTTC-AGTA
1 ATTTTACCCTTCGGGGGTATTTCGA-TA
**
45760411 ATTTTACCCTTCAAGGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* *
45760438 ATTTTACCCTTCGAGGGTATTTCAATA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* *
45760465 ATTTTACCCTTCGAGGGTATTTCGTTA
1 ATTTTACCCTTCGGGGGTATTTCGATA
* *
45760492 ATTTTACCCTTCGGGGGTATTTTGTTA
1 ATTTTACCCTTCGGGGGTATTTCGATA
45760519 ATTTTACC
1 ATTTTACC
45760527 ACGAATCGCA
Statistics
Matches: 200, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.00
27 198 0.99
28 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCGATA
Found at i:45761420 original size:14 final size:14
Alignment explanation
Indices: 45761401--45761427 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45761391 CACAAAGTAA
45761401 AGAAGAGGGAAAAG
1 AGAAGAGGGAAAAG
45761415 AGAAGAGGGAAAA
1 AGAAGAGGGAAAA
45761428 TCGGCAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AGAAGAGGGAAAAG
Found at i:45764238 original size:79 final size:81
Alignment explanation
Indices: 45764106--45764286 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 81
45764096 ATGATGTCCA
* **
45764106 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGACTTTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGACAATTGTG
*
45764170 CGAGATACTA-ATTCCG
66 CGAGATACTATA-ACCG
* * * ** *
45764186 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TGCCGAAGGCAATTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGACAATTGT
*
45764248 GCGAGTTACTATAACCG
65 GCGAGATACTATAACCG
*
45764265 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
45764287 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 55 0.65
80 29 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGACAATTGTG
CGAGATACTATAACCG
Found at i:45764293 original size:40 final size:40
Alignment explanation
Indices: 45764106--45764286 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 40
45764096 ATGATGTCCA
* * * *
45764106 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * * * *
45764146 GACTAAGAT-CCGAAGACTTTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
45764186 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* * *
45764225 GGTTAAGTGCCGAAGGCAATTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
45764265 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
45764287 AACGAGTAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.28
40 73 0.63
41 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:45764319 original size:79 final size:79
Alignment explanation
Indices: 45764165--45764311 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 79
45764155 CCGAAGACTT
* **
45764165 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTA
1 TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTA
*
45764230 AGTGCCGAAGGCAA
66 AATGCCGAAGGCAA
* * *
45764244 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GG
1 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGG
45764306 TTAAAT
63 TTAAAT
45764312 TCTGAAGGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 31 0.53
80 25 0.43
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTA
AATGCCGAAGGCAA
Found at i:45772161 original size:40 final size:39
Alignment explanation
Indices: 45772117--45772194 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
45772107 AGTGACCATA
* *
45772117 TCCGGACTAAGATCCGAAGACTTTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGACATTTGTGCGAGATACTAAT
* * *
45772157 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGACTAAGCCCGAAGACATTTGTGCGAGATACTAA
45772195 ATCTGGGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 23 0.70
40 10 0.30
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGACATTTGTGCGAGATACTAAT
Found at i:45772268 original size:40 final size:40
Alignment explanation
Indices: 45772081--45772261 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 40
45772071 ATGATGTCCA
* * * *
45772081 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * * * *
45772121 GACTAAGAT-CCGAAGACTTTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
45772161 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* * *
45772200 GGTTAAGTGCCGAAGGCAATTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
45772240 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
45772262 AACGAGTAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
39 32 0.28
40 72 0.63
41 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:45772283 original size:79 final size:79
Alignment explanation
Indices: 45772140--45772294 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
45772130 CCGAAGACTT
* ** *
45772140 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTA
1 TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCTCGGTTA
*
45772205 AGTGCCGAAGGCAA
66 AATGCCGAAGGCAA
* * *
45772219 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGG
1 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCTCGG
*
45772281 TTAAATTCCGAAGG
63 TTAAATGCCGAAGG
45772295 TACGTGATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (79 bp):
TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCTCGGTTA
AATGCCGAAGGCAA
Found at i:45779122 original size:15 final size:16
Alignment explanation
Indices: 45779092--45779124 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45779082 TTAAATCATA
45779092 ATAATTAACCAAAATT
1 ATAATTAACCAAAATT
*
45779108 ATAATT-ACCATAATT
1 ATAATTAACCAAAATT
45779123 AT
1 AT
45779125 CATAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATTAACCAAAATT
Found at i:45795158 original size:20 final size:20
Alignment explanation
Indices: 45795133--45795171 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
45795123 TACTTTTTTC
45795133 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
45795153 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
45795172 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:45795563 original size:50 final size:53
Alignment explanation
Indices: 45795478--45795608 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 53
45795468 CGGTGCCCAT
* ** * *
45795478 GCCATGTCCCAGACATGGTCATACAGGGGACCTCTC-ATCTCGAT-A-CCAAC
1 GCCATGTCCCAGACATGGTCTTACAGAAGACCTCTCAACCTCAATAAGCCAAC
* *
45795528 GCCATGTCCCAGACATGGTCTTAC-GTAAGATCTCTCAAAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAG-AAGACCTCTC--AACCTCAATAA-GCCAAC
45795584 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
45795609 TGGGGTCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
49 1 0.02
50 30 0.45
53 6 0.09
54 1 0.02
56 28 0.42
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (53 bp):
GCCATGTCCCAGACATGGTCTTACAGAAGACCTCTCAACCTCAATAAGCCAAC
Found at i:45809339 original size:25 final size:23
Alignment explanation
Indices: 45809282--45809345 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
45809272 TACTTTAAAT
*
45809282 TTTGTAGTTTATTATTATTAATCA
1 TTTGT-GTTTATTTTTATTAATCA
*
45809306 TTTAT-TTTATTTTTATTAATCTTA
1 TTTGTGTTTATTTTTATTAATC--A
45809330 TTTGTGTTTAGTTTTT
1 TTTGTGTTTA-TTTTT
45809346 TTCCCATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 15 0.45
24 9 0.27
25 4 0.12
26 5 0.15
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (23 bp):
TTTGTGTTTATTTTTATTAATCA
Found at i:45812683 original size:50 final size:50
Alignment explanation
Indices: 45812559--45812753 Score: 151
Period size: 50 Copynumber: 3.9 Consensus size: 50
45812549 GATAATAACA
* * * * ** * *
45812559 TGCCAAAGCAATGTCCCAGACATGGTATTACATGGGATGTTTCCTATAC--
1 TGCCAACGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* ** * ** *
45812608 TGCCAACACCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** * *
45812658 TGCCCATGCCATGCCCCAGACATGGTCTTACGGGGGACCTGTCATCTCGG
1 TGCCAACGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
45812708 TGCCAACGTCATGTCCTAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATA
45812754 ACCTCAATGA
Statistics
Matches: 111, Mismatches: 33, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
49 37 0.33
50 74 0.67
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:45827290 original size:26 final size:26
Alignment explanation
Indices: 45827254--45827342 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 26
45827244 GGTAATGAAT
* * * *
45827254 TAACTGGTATAACTTGAATAGATATA
1 TAACTTGTATAGCTTGAATGGTTATA
45827280 TAACTTGTATAGCTTGAATGGTTATA
1 TAACTTGTATAGCTTGAATGGTTATA
* * *
45827306 TGATTTCTATAGCTTGAATGGTTATA
1 TAACTTGTATAGCTTGAATGGTTATA
45827332 TGAA-TTGTATA
1 T-AACTTGTATA
45827343 TAATGAACTC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 52 0.98
27 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.42
Consensus pattern (26 bp):
TAACTTGTATAGCTTGAATGGTTATA
Found at i:45827349 original size:26 final size:26
Alignment explanation
Indices: 45827294--45827349 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
45827284 TTGTATAGCT
* **
45827294 TGAATGGTTATATGATTTCTATAGCT
1 TGAATGGTTATATGAATTCTATAGAA
* *
45827320 TGAATGGTTATATGAATTGTATATAA
1 TGAATGGTTATATGAATTCTATAGAA
45827346 TGAA
1 TGAA
45827350 CTCATCAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.43
Consensus pattern (26 bp):
TGAATGGTTATATGAATTCTATAGAA
Found at i:45836216 original size:50 final size:48
Alignment explanation
Indices: 45836148--45836335 Score: 182
Period size: 50 Copynumber: 3.8 Consensus size: 48
45836138 AAAGTGAAAG
*
45836148 TGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACCTGTACCGGAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA-CTGTACCGG-A
* * *
45836197 TGATAGGTCGCATGTGTAGTACTATGTGCAAGCTACTA-TGCTACAGGA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACTG-TACCGGA
* * * ** *
45836245 TAGTTTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA
1 T-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTAC-TGTACCGGA
* *
45836296 TGGTAATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 TGAT-A-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
45836336 TGTGAACCAA
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
48 4 0.04
49 11 0.10
50 60 0.54
51 35 0.31
52 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (48 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACTGTACCGGA
Found at i:45836397 original size:45 final size:45
Alignment explanation
Indices: 45836346--45836434 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
45836336 TGTGAACCAA
* * *
45836346 ACATCATTGATTAGTAAAGTGGTTGCTATGTGTTGATTCCACCGG
1 ACATCATTGATTAATAAAGTGCTTGCTATGTGTTGAATCCACCGG
* *
45836391 ACATCATTGATTAATAATGTGCTTGTTATGTGTTGAATCCACCG
1 ACATCATTGATTAATAAAGTGCTTGCTATGTGTTGAATCCACCG
45836435 AGTATCTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGCTTGCTATGTGTTGAATCCACCGG
Found at i:45839625 original size:25 final size:25
Alignment explanation
Indices: 45839587--45839638 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
45839577 TAGTGGCAAT
* *
45839587 GTGGCGACATAGGTGTGGCAAGGAG
1 GTGGCGACACAGGTGTAGCAAGGAG
* *
45839612 GTGGCGTCACAGGTGTAGTAAGGAG
1 GTGGCGACACAGGTGTAGCAAGGAG
45839637 GT
1 GT
45839639 CAGAGGTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.46, T:0.19
Consensus pattern (25 bp):
GTGGCGACACAGGTGTAGCAAGGAG
Found at i:45840836 original size:27 final size:27
Alignment explanation
Indices: 45840799--45841142 Score: 333
Period size: 27 Copynumber: 12.9 Consensus size: 27
45840789 GTGTGATTCG
* * *
45840799 TGGG-AAAATTATCGAAACACCCTCGA
1 TGGGTAAAATTACCGAAATACCCTCAA
* *
45840825 TGGGTAAAATTAGCAAAATACCC-CAA
1 TGGGTAAAATTACCGAAATACCCTCAA
*
45840851 TGGGTAAAATTACCGAAATACCCCCAA
1 TGGGTAAAATTACCGAAATACCCTCAA
* ** *
45840878 TGAGTAAAATTATTGAAATACCCCCAA
1 TGGGTAAAATTACCGAAATACCCTCAA
** * *
45840905 TGGGTAAAATTACTAAAACACCCTCGA
1 TGGGTAAAATTACCGAAATACCCTCAA
* * * *
45840932 TGGAT-AAATTACCAAAATTCCCTCGA
1 TGGGTAAAATTACCGAAATACCCTCAA
*
45840958 TGGGTAAAATTACTGAAATACCC-CTAA
1 TGGGTAAAATTACCGAAATACCCTC-AA
45840985 TGGGTAAAATTACCGAAATA-CCTCTAA
1 TGGGTAAAATTACCGAAATACCCTC-AA
* *
45841012 TAGGTAAAATTACCAAAATACCC-CTAA
1 TGGGTAAAATTACCGAAATACCCTC-AA
* * * *
45841039 TAGATAAAATTATCGAAATACCCCCAA
1 TGGGTAAAATTACCGAAATACCCTCAA
* **
45841066 TGGGTAAAATTACTGAAATACCCTTGA
1 TGGGTAAAATTACCGAAATACCCTCAA
* *
45841093 TAGGTAAAATTACCGAAATACCCTCGA
1 TGGGTAAAATTACCGAAATACCCTCAA
45841120 TGGGTAAAATTACC-ATAATACCC
1 TGGGTAAAATTACCGA-AATACCC
45841143 CTATTAGGGT
Statistics
Matches: 269, Mismatches: 41, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
26 53 0.20
27 213 0.79
28 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (27 bp):
TGGGTAAAATTACCGAAATACCCTCAA
Found at i:45841128 original size:81 final size:81
Alignment explanation
Indices: 45840799--45841157 Score: 367
Period size: 81 Copynumber: 4.5 Consensus size: 81
45840789 GTGTGATTCG
* * * *
45840799 TGGG-AAAATTATCGAAACACCCTCGATGGGTAAAATTAGC-AAAATACCC-CAATGGGTAAAAT
1 TGGGTAAAATTATCGAAATACCCCCAATGGGTAAAATTA-CTAAAATACCCTCAATAGGTAAAAT
* *
45840861 TACCGAAATACCCCCAA
65 TACCAAAATACCCTCAA
* * * *
45840878 TGAGTAAAATTATTGAAATACCCCCAATGGGTAAAATTACTAAAACACCCTCGAT-GG-ATAAAT
1 TGGGTAAAATTATCGAAATACCCCCAATGGGTAAAATTACTAAAATACCCTCAATAGGTA-AAAT
* *
45840941 TACCAAAATTCCCTCGA
65 TACCAAAATACCCTCAA
* **
45840958 TGGGTAAAATTA-CTGAAATACCCCTAATGGGTAAAATTACCGAAATA-CCTCTAATAGGTAAAA
1 TGGGTAAAATTATC-GAAATACCCCCAATGGGTAAAATTACTAAAATACCCTC-AATAGGTAAAA
45841021 TTACCAAAATACCC-CTAA
64 TTACCAAAATACCCTC-AA
* * * **
45841039 TAGATAAAATTATCGAAATACCCCCAATGGGTAAAATTACTGAAATACCCTTGATAGGTAAAATT
1 TGGGTAAAATTATCGAAATACCCCCAATGGGTAAAATTACTAAAATACCCTCAATAGGTAAAATT
* *
45841104 ACCGAAATACCCTCGA
66 ACCAAAATACCCTCAA
* * *
45841120 TGGGTAAAATTA-CCATAATACCCCTATTAGGGTAAAAT
1 TGGGTAAAATTATCGA-AATACCCCCAAT-GGGTAAAAT
45841158 GATTGCTAAG
Statistics
Matches: 233, Mismatches: 33, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
79 9 0.04
80 102 0.44
81 107 0.46
82 15 0.06
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (81 bp):
TGGGTAAAATTATCGAAATACCCCCAATGGGTAAAATTACTAAAATACCCTCAATAGGTAAAATT
ACCAAAATACCCTCAA
Found at i:45841304 original size:27 final size:27
Alignment explanation
Indices: 45841273--45841324 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
45841263 ATGGAGGAAG
**
45841273 TATTGTTTTTGGTGGCTCTGCCACAAT
1 TATTGTTACTGGTGGCTCTGCCACAAT
*
45841300 TATTGTTACTGGTGGCTTTGCCACA
1 TATTGTTACTGGTGGCTCTGCCACA
45841325 TATACTATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.42
Consensus pattern (27 bp):
TATTGTTACTGGTGGCTCTGCCACAAT
Found at i:45844408 original size:23 final size:21
Alignment explanation
Indices: 45844381--45844431 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
45844371 TTAAACATTA
45844381 ATGTCCTAAGCTGAAATTAGAAG
1 ATGTCCTAAGCTGAAATT--AAG
* *
45844404 ATGTCCT-AGTTGTAATTAAG
1 ATGTCCTAAGCTGAAATTAAG
45844424 ATGTCCTA
1 ATGTCCTA
45844432 CTGCTTGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 10 0.40
22 8 0.32
23 7 0.28
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (21 bp):
ATGTCCTAAGCTGAAATTAAG
Found at i:45848492 original size:16 final size:16
Alignment explanation
Indices: 45848461--45848510 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
45848451 ACGTGTATAT
*
45848461 ATATGAATAT-AAAAA
1 ATATGTATATAAAAAA
45848476 ATATGTATATAAAAAA
1 ATATGTATATAAAAAA
* * *
45848492 ACATATATATAAATAA
1 ATATGTATATAAAAAA
45848508 ATA
1 ATA
45848511 AATAATTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:45848542 original size:22 final size:22
Alignment explanation
Indices: 45848500--45848542 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45848490 AAACATATAT
* *
45848500 ATAAATAAATAAATAATTACAG
1 ATAAATAAATAAAAAAGTACAG
45848522 ATAAA-AAATAAAAAAAGTACA
1 ATAAATAAAT-AAAAAAGTACA
45848543 TTATGGAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (22 bp):
ATAAATAAATAAAAAAGTACAG
Found at i:45850150 original size:44 final size:42
Alignment explanation
Indices: 45850040--45850155 Score: 110
Period size: 44 Copynumber: 2.8 Consensus size: 42
45850030 TCAACTTGAG
* * *
45850040 TCTGCTCCACTGTAGCTTCAGGGAAATAAGA-CTAGACGTGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAGACGTAA
* * * * ***
45850081 TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTAAGTTTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-AG-ACGTAA
45850124 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT
45850156 TTGCCATCTG
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
40 18 0.32
41 8 0.14
42 2 0.04
43 8 0.14
44 21 0.37
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (42 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAGACGTAA
Found at i:45850880 original size:88 final size:88
Alignment explanation
Indices: 45850772--45850944 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 88
45850762 TACGACTAAA
* * * *
45850772 TATCTTCGATCTGCTTCACTGCC-AGTACAGGAAGGCAAGATCTTCTATTTTCAACCTGTTCCAC
1 TATCTTCGATCTGCTTCACTGCCGA-TACAGGAAGGCAAAATCTGCTATCTTCAACCTGCTCCAC
* *
45850836 TGC-AACCTAGGGAGGCAAGGCTGG
65 TACAAACC-AAGGAGGCAAGGCTGG
* * *
45850860 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAAATCTGCTATCTTCAGCCTGCTCCACT
1 TATCTTCGATCTGCTTCACTGCCGATACAGGAAGGCAAAATCTGCTATCTTCAACCTGCTCCACT
45850925 ACAAACCAAGGAGGCAAGGC
66 ACAAACCAAGGAGGCAAGGC
45850945 CTTGTGATCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
88 69 0.93
89 5 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (88 bp):
TATCTTCGATCTGCTTCACTGCCGATACAGGAAGGCAAAATCTGCTATCTTCAACCTGCTCCACT
ACAAACCAAGGAGGCAAGGCTGG
Found at i:45863107 original size:16 final size:16
Alignment explanation
Indices: 45863082--45863132 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
45863072 ATGTGTATAT
*
45863082 ATATGAATATAAAAAA
1 ATATGTATATAAAAAA
45863098 ATATGTATATAAAAACA
1 ATATGTATATAAAAA-A
* *
45863115 ACATATATATAAATAAA
1 ATATGTATATAAA-AAA
45863132 A
1 A
45863133 AAATAATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.47
17 14 0.47
18 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:45863123 original size:17 final size:16
Alignment explanation
Indices: 45863088--45863132 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
45863078 ATATATATGA
* *
45863088 ATATAAAAAAATATGT
1 ATATAAAAAAACATAT
45863104 ATATAAAAACAACATAT
1 ATATAAAAA-AACATAT
45863121 ATATAAATAAAA
1 ATATAAA-AAAA
45863133 AAATAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.36
17 14 0.56
18 2 0.08
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
ATATAAAAAAACATAT
Found at i:45863163 original size:23 final size:22
Alignment explanation
Indices: 45863123--45863167 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
45863113 CAACATATAT
* *
45863123 ATAAATAAAAAAATAATTACAG
1 ATAAAAAAAAAAAAAATTACAG
45863145 ATAAAAAAATAAAAAAATTACAG
1 ATAAAAAAA-AAAAAAATTACAG
45863168 TATGGAAGTT
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:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (22 bp):
ATAAAAAAAAAAAAAATTACAG
Found at i:45866902 original size:116 final size:116
Alignment explanation
Indices: 45866698--45866930 Score: 394
Period size: 116 Copynumber: 2.0 Consensus size: 116
45866688 CACTCTTAGC
* * *
45866698 AATTCACCTTGAAGTGTCCTTTCTTACTGTAGAAAAAGCATTTGGACTTAGATAGGTATTTAGGC
1 AATTCACCTTGAAGTGCCCTTTCTTACTGTAGAAAAAGCATTTGCACTTAGATAAGTATTTAGGC
45866763 TTCTTCGTTCTCTTCTTTCCCACTTATGGTAGCCCAAAGACCTTAGCCTTG
66 TTCTTCGTTCTCTTCTTTCCCACTTATGGTAGCCCAAAGACCTTAGCCTTG
* *
45866814 AATTCGCCTTGAAGTGCCCTTTCTTACTGTAGCAAAAGCATTTGCACTTAGATAAGTATTTAGGC
1 AATTCACCTTGAAGTGCCCTTTCTTACTGTAGAAAAAGCATTTGCACTTAGATAAGTATTTAGGC
* * *
45866879 TTCTTGGTTCTCTTCTTTCCCACTTGTGGTATCCCAAAGACCTTAGCCTTG
66 TTCTTCGTTCTCTTCTTTCCCACTTATGGTAGCCCAAAGACCTTAGCCTTG
45866930 A
1 A
45866931 CTTTCTTGGC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (116 bp):
AATTCACCTTGAAGTGCCCTTTCTTACTGTAGAAAAAGCATTTGCACTTAGATAAGTATTTAGGC
TTCTTCGTTCTCTTCTTTCCCACTTATGGTAGCCCAAAGACCTTAGCCTTG
Found at i:45869395 original size:31 final size:31
Alignment explanation
Indices: 45869354--45869497 Score: 125
Period size: 31 Copynumber: 4.7 Consensus size: 31
45869344 GGTTTTAAAG
*
45869354 TATCATGTACTATGTACCGGTGATTATATTA
1 TATCAGGTACTATGTACCGGTGATTATATTA
* *
45869385 TATCAGGTACTATGTACCAGTGACTATA-T-
1 TATCAGGTACTATGTACCGGTGATTATATTA
* * ** * *
45869414 TATCTGGTACTTTGTTTCGGTGTTTGTATTA
1 TATCAGGTACTATGTACCGGTGATTATATTA
** *
45869445 TATCAGGTACTATGTGTCGGTGTTTATAACTTA
1 TATCAGGTACTATGTACCGGTGATTAT-A-TTA
*
45869478 T-T-AGGTACTATGTACTGGTG
1 TATCAGGTACTATGTACCGGTG
45869498 TTGGATACCT
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
29 20 0.22
30 2 0.02
31 63 0.69
32 2 0.02
33 4 0.04
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (31 bp):
TATCAGGTACTATGTACCGGTGATTATATTA
Found at i:45874111 original size:6 final size:6
Alignment explanation
Indices: 45874100--45874128 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
45874090 GCAAATGAAT
45874100 CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTT
45874129 TGGAAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:45887922 original size:10 final size:10
Alignment explanation
Indices: 45887907--45887940 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
45887897 AATTTTAATG
45887907 AAAAATTTAA
1 AAAAATTTAA
*
45887917 AAAAATTAAA
1 AAAAATTTAA
*
45887927 AAAAAATTAA
1 AAAAATTTAA
45887937 AAAA
1 AAAA
45887941 TGAAGTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:45887929 original size:11 final size:11
Alignment explanation
Indices: 45887915--45887940 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45887905 TGAAAAATTT
45887915 AAAAAAATTAA
1 AAAAAAATTAA
45887926 AAAAAAATTAA
1 AAAAAAATTAA
45887937 AAAA
1 AAAA
45887941 TGAAGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:45888367 original size:17 final size:18
Alignment explanation
Indices: 45888334--45888369 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
45888324 TAATGAATAC
45888334 ATAAAAGAATATTATATA
1 ATAAAAGAATATTATATA
45888352 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
45888369 A
1 A
45888370 AAATTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:45890082 original size:44 final size:44
Alignment explanation
Indices: 45890034--45890968 Score: 243
Period size: 44 Copynumber: 21.3 Consensus size: 44
45890024 CCACTGTAGC
* * *
45890034 CTTAGGGAGGTAAAATCTGCCATCTTCAATTTGCTCCACTACTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* * ** * *
45890078 CTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* * * ***** * *
45890122 CCTAGAGAGATAGAAT-TATTGGCTTCAATGTACTCCACTA-TAAC
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACT--G
** * * *
45890166 CACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* *** * * **
45890210 CTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACT-ACTG
* * * *** * *
45890255 C-CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCATTGTAAC--
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCA--CT-ACTG
** * *** * *
45890298 CACAGGGAGGTAAAATCCATCATCTTCGATCTGCTCCACTACTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* * *** * * **
45890342 ATTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACT-ACTG
* * * *** *
45890387 C-CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAAC--
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCAC--T-ACTG
** * ** *
45890430 CACAGGGAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* *** * * **
45890474 CTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACT-ACTG
* * * *** * * *
45890519 C-CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCGCTGTAAT-
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCAC--TACTG
** * * *
45890562 CACAGGGACATAAAATCTGCCATCTTCGATCTGCTCCACTACTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* ** * * *
45890606 CTTAGGGAGATAATATCTGAAATCTTTAATCTATTCCACTGCTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
** * * *** * * *
45890650 CCCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCGCTGTAAT-
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCAC--TACTG
** * * * *
45890694 CACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* ** *
45890738 CTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* * * * * *
45890782 CTCAGGGAGATAGAAT-TCACCATCTTCAACCTATTCCACTGCTG
1 CTTAGGGAGATAAAATCT-GCCATCTTCAATCTACTCCACTACTG
*** ** * *** * *
45890826 AACAGGGAGATAGGATCAG-TGGCTTAAATCTGCTTCC-CTACT-
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTAC-TCCACTACTG
* * * * * *
45890868 CCTAGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
1 CTTAGGG-AGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
* ** * * *
45890913 CTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTG
1 CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
*
45890957 CCTAGGGAGATA
1 CTTAGGGAGATA
45890969 GAATTCAAAA
Statistics
Matches: 625, Mismatches: 231, Indels: 70
0.67 0.25 0.08
Matches are distributed among these distances:
42 9 0.01
43 111 0.18
44 414 0.66
45 90 0.14
46 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTG
Found at i:45890798 original size:132 final size:132
Alignment explanation
Indices: 45889993--45890777 Score: 1207
Period size: 132 Copynumber: 5.9 Consensus size: 132
45889983 CTGCAACTTT
* * * * ** *
45889993 AGGGAGATAGGATTAGTGGCTTTAATGTACTCCACTGTAGCCTTAGGGAGGTAAAATCTGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
* * * * **
45890058 TTCAATTTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTG-CTG
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
45890122 CC
131 CC
* * * *
45890124 TAGAGAGATAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCAT
1 -AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCAT
45890189 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCA
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCA
45890254 ACC
130 ACC
* **
45890257 AGGGAGATAGAATTACTGGCTTCAATGTACTCCATTGTAACCACAGGGAGGTAAAATCCATCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
*
45890322 TTCGATCTGCTCCACTACTGATTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
45890387 CC
131 CC
*
45890389 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
*
45890454 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
45890519 CC
131 CC
* * ** *
45890521 AGGGAGATAGAATTACTGGCTTCAATGTACTCCGCTGTAATCACAGGGACATAAAATCTGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
* * **
45890586 TTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTGA-AATCTTTAATCTATTCCACTGCTG
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACTGCCA
*
45890650 CCC
130 ACC
* *
45890653 AGGGAGATAGAATTACTGGCTTCAATGTACTCCGCTGTAATCACAGGGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
45890718 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACT
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACT
45890778 ACTGCTCAGG
Statistics
Matches: 608, Mismatches: 43, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
132 604 0.99
133 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCAA
CC
Found at i:45891245 original size:87 final size:89
Alignment explanation
Indices: 45891019--45891455 Score: 593
Period size: 87 Copynumber: 5.0 Consensus size: 89
45891009 GATAGGGCTG
* * *
45891019 GTATCTTCGATATGCTTCGCTGTCGATGCAGGAAGGCCAA-ATCTGCTATCTTTAACCTGCTCCA
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGG-CAAGATCTGCTATCTTTAACCCGCTCCA
* * * *
45891083 CTGCAACCAAGGGAGGAAAGGC-TA
65 CTACAACCGAGGGAGGCAAGGCTTT
* * *
45891107 GTATCTTTGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCCGGTCCAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
45891172 TACAACCGAGGGAGGCAAGGCTTT
66 TACAACCGAGGGAGGCAAGGCTTT
* *
45891196 GT-T-TTCGATCTGCTTCACTGTCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
*
45891259 TGCAACCGAGGGAGGCAAGGCTTT
66 TACAACCGAGGGAGGCAAGGCTTT
* * * *
45891283 GT-T-TTCAATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTACCATCTTTAACCCGCTCCAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
*
45891346 TACAATCGAGGGAGGCAAGGC-TT
66 TACAACCGAGGGAGGCAAGGCTTT
* * * * *
45891369 GTATCATCGATTTGCTTCGCTGTCGATACAGGAAGGCAAGATCTGCTAT-TTTCAACCTGCTCCA
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT-AACCCGCTCCA
45891433 CTACAACCGAGGGAGGCAAGGCT
65 CTACAACCGAGGGAGGCAAGGCT
45891456 AGTGATTTCA
Statistics
Matches: 309, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
86 4 0.01
87 161 0.52
88 141 0.46
89 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (89 bp):
GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
TACAACCGAGGGAGGCAAGGCTTT
Found at i:45891258 original size:175 final size:174
Alignment explanation
Indices: 45891014--45891458 Score: 619
Period size: 175 Copynumber: 2.5 Consensus size: 174
45891004 AGGGAGATAG
*
45891014 GGCTGGTATCTTCGATATGCTTCGCTGTCGATGCAGGAAGGCCAA-ATCTGCTATCTTTAACCTG
1 GGCTTGTATCTTCGATATGCTTCGCTGTCGATGCAGGAAGG-CAAGATCTGCTATCTTTAACCTG
* * **
45891078 CTCCACTGCAACCAAGGGAGGAAAGGCTAGTATCTTTGATCTGCTTCGCTGTCAATGCAGGAAGA
65 CTCCACTGCAACCGAGGGAGGCAAGGCTAGT-T-TTCAATCTGCTTCGCTGTCAATGCAGGAAGA
* * *
45891143 CAAGATCTGCTATCTTTAACCCGGTCCACTACAACCGAGGGAGGCAA
128 CAAGATCTACCATCTTTAACCCGCTCCACTACAACCGAGGGAGGCAA
* * * * *
45891190 GGCTTTGT-T-TTCGATCTGCTTCACTGTCAATGTAGGAAGGCAAGATCTGCTATCTTTAACCCG
1 GGC-TTGTATCTTCGATATGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTG
* * *
45891253 CTCCACTGCAACCGAGGGAGGCAAGGCTTTGTTTTCAATCTGCTTTGCTGTCAATGCAGGAAGGC
65 CTCCACTGCAACCGAGGGAGGCAAGGC-TAGTTTTCAATCTGCTTCGCTGTCAATGCAGGAAGAC
*
45891318 AAGATCTACCATCTTTAACCCGCTCCACTACAATCGAGGGAGGCAA
129 AAGATCTACCATCTTTAACCCGCTCCACTACAACCGAGGGAGGCAA
* * *
45891364 GGCTTGTATCATCGATTTGCTTCGCTGTCGATACAGGAAGGCAAGATCTGCTAT-TTTCAACCTG
1 GGCTTGTATCTTCGATATGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTT-AACCTG
*
45891428 CTCCACTACAACCGAGGGAGGCAAGGCTAGT
65 CTCCACTGCAACCGAGGGAGGCAAGGCTAGT
45891459 GATTTCACCG
Statistics
Matches: 237, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
173 4 0.02
174 83 0.35
175 140 0.59
176 7 0.03
177 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (174 bp):
GGCTTGTATCTTCGATATGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGC
TCCACTGCAACCGAGGGAGGCAAGGCTAGTTTTCAATCTGCTTCGCTGTCAATGCAGGAAGACAA
GATCTACCATCTTTAACCCGCTCCACTACAACCGAGGGAGGCAA
Found at i:45892735 original size:15 final size:15
Alignment explanation
Indices: 45892717--45892751 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
45892707 CATTTTTACT
45892717 TTTTTCAATTTTTCA
1 TTTTTCAATTTTTCA
*
45892732 TTTTTCATTTTTTCA
1 TTTTTCAATTTTTCA
45892747 TTTTT
1 TTTTT
45892752 TTGACTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTCAATTTTTCA
Found at i:45892752 original size:8 final size:8
Alignment explanation
Indices: 45892707--45892752 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
45892697 TTAGCCTCTC
*
45892707 CATTTTTA
1 CATTTTTT
45892715 C-TTTTTT
1 CATTTTTT
*
45892722 CAATTTTT
1 CATTTTTT
45892730 CA-TTTTT
1 CATTTTTT
45892737 CATTTTTT
1 CATTTTTT
45892745 CATTTTTT
1 CATTTTTT
45892753 TGACTCAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 13 0.38
8 21 0.62
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (8 bp):
CATTTTTT
Found at i:45893639 original size:7 final size:7
Alignment explanation
Indices: 45893627--45893721 Score: 56
Period size: 7 Copynumber: 13.6 Consensus size: 7
45893617 TGGCCTCTCC
45893627 TTTTCTT
1 TTTTCTT
45893634 TTTTCTT
1 TTTTCTT
*
45893641 TTTATC-A
1 TTT-TCTT
*
45893648 TTTTC-A
1 TTTTCTT
45893654 TTTTCATT
1 TTTTC-TT
**
45893662 TTGACTT
1 TTTTCTT
45893669 TTTTCTT
1 TTTTCTT
45893676 TTTTCTT
1 TTTTCTT
45893683 TCTTT-TT
1 T-TTTCTT
45893690 TCTTT-TT
1 T-TTTCTT
*
45893697 TTTT-GT
1 TTTTCTT
*
45893703 TTTTGTT
1 TTTTCTT
45893710 TTTTCATT
1 TTTTC-TT
45893718 TTTT
1 TTTT
45893722 TCATTTTCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
6 16 0.22
7 43 0.59
8 14 0.19
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:45893689 original size:18 final size:17
Alignment explanation
Indices: 45893667--45893722 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
45893657 TCATTTTGAC
45893667 TTTTTTCTTTTTTCTTT
1 TTTTTTCTTTTTTCTTT
45893684 CTTTTTTCTTTTTT-TTT
1 -TTTTTTCTTTTTTCTTT
* *
45893701 GTTTTTGTTTTTTCATTT
1 TTTTTTCTTTTTTC-TTT
45893719 TTTT
1 TTTT
45893723 CATTTTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 11 0.33
17 3 0.09
18 19 0.58
ACGTcount: A:0.02, C:0.09, G:0.04, T:0.86
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTTT
Found at i:45893700 original size:23 final size:23
Alignment explanation
Indices: 45893666--45893722 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
45893656 TTCATTTTGA
*
45893666 CTTTTTTCTTTTTTCTTTCTTTTTT
1 CTTTTTT-TTTGTT-TTTCTTTTTT
*
45893691 CTTTTTTTTTGTTTTTGTTTTTT
1 CTTTTTTTTTGTTTTTCTTTTTT
*
45893714 CATTTTTTT
1 CTTTTTTTT
45893723 CATTTTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 17 0.59
24 5 0.17
25 7 0.24
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.84
Consensus pattern (23 bp):
CTTTTTTTTTGTTTTTCTTTTTT
Found at i:45893722 original size:11 final size:11
Alignment explanation
Indices: 45893670--45893721 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
45893660 TTTTGACTTT
45893670 TTTCTTTTTTC
1 TTTCTTTTTTC
45893681 TTTCTTTTTTC
1 TTTCTTTTTTC
*
45893692 TTT-TTTTTTG
1 TTTCTTTTTTC
*
45893702 TTT-TTGTTT-
1 TTTCTTTTTTC
45893711 TTTCATTTTTT
1 TTTC-TTTTTT
45893722 TCATTTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 3 0.08
10 14 0.39
11 19 0.53
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:45893728 original size:23 final size:23
Alignment explanation
Indices: 45893685--45893728 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45893675 TTTTTCTTTC
* **
45893685 TTTTTTCTTTTTTTTTGTTTTTG
1 TTTTTTCATTTTTTTCATTTTTG
45893708 TTTTTTCATTTTTTTCATTTT
1 TTTTTTCATTTTTTTCATTTT
45893729 CATTTTTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.84
Consensus pattern (23 bp):
TTTTTTCATTTTTTTCATTTTTG
Found at i:45898232 original size:17 final size:18
Alignment explanation
Indices: 45898199--45898234 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45898189 TAATGAATAC
*
45898199 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
45898217 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
45898234 A
1 A
45898235 AAATTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:45907807 original size:28 final size:28
Alignment explanation
Indices: 45907775--45907853 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 28
45907765 AACAGTACAG
*
45907775 TGTGGGCCTTAGCCCAATATAGTAACAA
1 TGTGGGCCTTAGCCCAATATAATAACAA
45907803 TGTGGGCCTTAG-CCAATATAATAACAA
1 TGTGGGCCTTAGCCCAATATAATAACAA
** * *
45907830 TGTGGATCTTAGCCTAATACAATA
1 TGTGGGCCTTAGCCCAATATAATA
45907854 TCGTTACAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
27 24 0.53
28 21 0.47
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATATAATAACAA
Found at i:45908195 original size:26 final size:26
Alignment explanation
Indices: 45908166--45908223 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
45908156 ATAGAGCAAA
45908166 TCATTCATAACATAAGGCTATAACAG
1 TCATTCATAACATAAGGCTATAACAG
** * * *
45908192 TCATTTCATCTCCTAGGGGTATAACAG
1 TCA-TTCATAACATAAGGCTATAACAG
45908219 TCATT
1 TCATT
45908224 TTACCCTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (26 bp):
TCATTCATAACATAAGGCTATAACAG
Found at i:45908235 original size:27 final size:27
Alignment explanation
Indices: 45908184--45908293 Score: 82
Period size: 27 Copynumber: 4.1 Consensus size: 27
45908174 AACATAAGGC
*
45908184 TATAACAGTCATTTCATCTCC--TAGGGG
1 TATAACAGTCATTTTA-C-CCTATAGGGG
45908211 TATAACAGTCATTTTACCCTATAGGGG
1 TATAACAGTCATTTTACCCTATAGGGG
**** *
45908238 TATTTTGGTCATTTTACCCTATAAGGG
1 TATAACAGTCATTTTACCCTATAGGGG
* * * *
45908265 TA-ATTCGGTCATTTTACCCTGTGGGGG
1 TATA-ACAGTCATTTTACCCTATAGGGG
45908292 TA
1 TA
45908294 ATTCGATCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.03
26 1 0.01
27 66 0.96
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (27 bp):
TATAACAGTCATTTTACCCTATAGGGG
Found at i:45908294 original size:27 final size:27
Alignment explanation
Indices: 45908218--45908358 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
45908208 GGGTATAACA
* * *
45908218 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTGTAGGGGTAATTCG
* *
45908245 GTCATTTTACCCTATAAGGGTAATTCG
1 GTCATTTTACCCTGTAGGGGTAATTCG
*
45908272 GTCATTTTACCCTGTGGGGGTAATTCG
1 GTCATTTTACCCTGTAGGGGTAATTCG
* * * *
45908299 ATCATTTTACCTTGTGGGGGTAATTTG
1 GTCATTTTACCCTGTAGGGGTAATTCG
45908326 GTCATTTTACCCTGTA-GGGTAATTCG
1 GTCATTTTACCCTGTAGGGGTAATTCG
*
45908352 ATCATTT
1 GTCATTT
45908359 ATTGACCTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 15 0.15
27 85 0.85
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTGTAGGGGTAATTCG
Found at i:45920150 original size:30 final size:30
Alignment explanation
Indices: 45920114--45920175 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
45920104 ATAGAGAGAT
*
45920114 AAAGGTGTTTAAATGTAGGCATGATTCCCA
1 AAAGGTGTTTAAATGTAGGCATAATTCCCA
45920144 AAAGGTGTTTAAATGTAGGCATAATTCCCA
1 AAAGGTGTTTAAATGTAGGCATAATTCCCA
45920174 AA
1 AA
45920176 TTATAATGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (30 bp):
AAAGGTGTTTAAATGTAGGCATAATTCCCA
Found at i:45943472 original size:35 final size:36
Alignment explanation
Indices: 45943433--45943518 Score: 122
Period size: 35 Copynumber: 2.4 Consensus size: 36
45943423 CTACAGAGTG
45943433 ACACCATGAAAATGGTCTACAAGATCTACGGAAC-A
1 ACACCATGAAAATGGTCTACAAGATCTACGGAACGA
* * * *
45943468 ACACCATGAAAATGGTCTATAAGCTCTATGGAGCGA
1 ACACCATGAAAATGGTCTACAAGATCTACGGAACGA
45943504 A-ACCATGAAAATGGT
1 ACACCATGAAAATGGT
45943519 TACTAACTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 44 0.96
36 2 0.04
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (36 bp):
ACACCATGAAAATGGTCTACAAGATCTACGGAACGA
Found at i:45944052 original size:18 final size:18
Alignment explanation
Indices: 45944001--45944054 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
45943991 TTCATAATCT
45944001 TTTTTGAAATATTTAT-AA
1 TTTTT-AAATATTTATAAA
* *
45944019 TTTTTAAAAATATATAAA
1 TTTTTAAATATTTATAAA
*
45944037 TTTTTAAATTTTTATAAA
1 TTTTTAAATATTTATAAA
45944055 AATTTTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTTAAATATTTATAAA
Found at i:45944725 original size:56 final size:56
Alignment explanation
Indices: 45944632--45944793 Score: 184
Period size: 56 Copynumber: 2.9 Consensus size: 56
45944622 AGGAAGTCCT
* * * *
45944632 CCAAGGACTATCTTAACTAGAATGTTCA-TCAATGACTATCTTAAGTGGAAAGCCCA
1 CCAAGGACTATCTTAAGTGGAATGTCCACT-AAAGACTATCTTAAGTGGAAAGCCCA
* * **
45944688 CCAAGAACTATCTTAAGTGGAATGTCCACTAAAGACTATCTTAAGTGGAAAGTCTG
1 CCAAGGACTATCTTAAGTGGAATGTCCACTAAAGACTATCTTAAGTGGAAAGCCCA
* * * *
45944744 CCAAGGACTATCTTAAGTGCAATG-CCTACCAAGGACTATCTTAGGTGGAA
1 CCAAGGACTATCTTAAGTGGAATGTCC-ACTAAAGACTATCTTAAGTGGAA
45944794 TGTCCGCTAG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
55 2 0.02
56 88 0.97
57 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (56 bp):
CCAAGGACTATCTTAAGTGGAATGTCCACTAAAGACTATCTTAAGTGGAAAGCCCA
Found at i:45944795 original size:28 final size:28
Alignment explanation
Indices: 45944632--45944795 Score: 161
Period size: 28 Copynumber: 5.9 Consensus size: 28
45944622 AGGAAGTCCT
* * *
45944632 CCAAGGACTATCTTAACTAGAATG-TTCA
1 CCAAGGACTATCTTAAGTGGAATGCCT-A
* * * *
45944660 TCAATGACTATCTTAAGTGGAAAGCCCA
1 CCAAGGACTATCTTAAGTGGAATGCCTA
*
45944688 CCAAGAACTATCTTAAGTGGAATGTCC-A
1 CCAAGGACTATCTTAAGTGGAATG-CCTA
* * * * *
45944716 CTAAAGACTATCTTAAGTGGAAAGTCTG
1 CCAAGGACTATCTTAAGTGGAATGCCTA
*
45944744 CCAAGGACTATCTTAAGTGCAATGCCTA
1 CCAAGGACTATCTTAAGTGGAATGCCTA
*
45944772 CCAAGGACTATCTTAGGTGGAATG
1 CCAAGGACTATCTTAAGTGGAATG
45944796 TCCGCTAGGG
Statistics
Matches: 108, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
27 1 0.01
28 105 0.97
29 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (28 bp):
CCAAGGACTATCTTAAGTGGAATGCCTA
Found at i:45952294 original size:21 final size:21
Alignment explanation
Indices: 45952270--45952314 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
45952260 AATAAACAAA
*
45952270 TAATTACGAATTTAAAAATTT
1 TAATTACGAAATTAAAAATTT
** *
45952291 TAATTATTAAATTAAATATTT
1 TAATTACGAAATTAAAAATTT
45952312 TAA
1 TAA
45952315 GCTAAATACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TAATTACGAAATTAAAAATTT
Found at i:45954229 original size:14 final size:14
Alignment explanation
Indices: 45954210--45954236 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45954200 AATTTATAGA
45954210 AAAATATTAAAATG
1 AAAATATTAAAATG
45954224 AAAATATTAAAAT
1 AAAATATTAAAAT
45954237 TATTATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAATATTAAAATG
Found at i:45954461 original size:30 final size:30
Alignment explanation
Indices: 45954391--45954463 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
45954381 AAATGAAAAT
45954391 ATTAT-AAAAAATTTAGAAATGATAAAGAA
1 ATTATAAAAAAATTTAGAAATGATAAAGAA
45954420 ATTATATAAAAATATTT-GAAATGAT-AA-AA
1 ATTATA-AAAAA-ATTTAGAAATGATAAAGAA
*
45954449 GTCTATAAAAAAATT
1 AT-TATAAAAAAATT
45954464 CTAAAAACTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
28 3 0.08
29 13 0.33
30 6 0.15
31 13 0.33
32 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (30 bp):
ATTATAAAAAAATTTAGAAATGATAAAGAA
Found at i:45954891 original size:8 final size:10
Alignment explanation
Indices: 45954860--45954892 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
45954850 ATAAATGATT
45954860 AAATGTTATA
1 AAATGTTATA
45954870 AAATGTTATA
1 AAATGTTATA
45954880 AAAT-TT-TA
1 AAATGTTATA
45954888 AAATG
1 AAATG
45954893 ATTACTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.27
9 2 0.09
10 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (10 bp):
AAATGTTATA
Found at i:45956621 original size:26 final size:27
Alignment explanation
Indices: 45956579--45956648 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
45956569 AAATTACTGG
45956579 CTCAAAGCCTGCT-AATAAG-AATCGA
1 CTCAAAGCCTGCTAAATAAGTAATCGA
* * *
45956604 CTCAAAACCTACTAAAT-AGTCATCGA
1 CTCAAAGCCTGCTAAATAAGTAATCGA
45956630 CTCAAAGCCTGCTAAATAA
1 CTCAAAGCCTGCTAAATAA
45956649 ACATATACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.35
26 23 0.62
27 1 0.03
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (27 bp):
CTCAAAGCCTGCTAAATAAGTAATCGA
Found at i:45956659 original size:26 final size:26
Alignment explanation
Indices: 45956526--45956652 Score: 89
Period size: 26 Copynumber: 4.9 Consensus size: 26
45956516 TGAACACTGT
* * * * *
45956526 CTCAAGGCCTGATAATTAAACATTGC
1 CTCAAAGCCTGCTAAATAAACATCGA
* * * *
45956552 CTCATAGCCTGCTAGATAAA-TTACTGG
1 CTCAAAGCCTGCTAAATAAACAT-C-GA
45956579 CTCAAAGCCTGCT-AATAAGA-ATCGA
1 CTCAAAGCCTGCTAAATAA-ACATCGA
* * **
45956604 CTCAAAACCTACTAAATAGTCATCGA
1 CTCAAAGCCTGCTAAATAAACATCGA
45956630 CTCAAAGCCTGCTAAATAAACAT
1 CTCAAAGCCTGCTAAATAAACAT
45956653 ATACTCACTA
Statistics
Matches: 76, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
25 13 0.17
26 48 0.63
27 15 0.20
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (26 bp):
CTCAAAGCCTGCTAAATAAACATCGA
Found at i:45960771 original size:41 final size:43
Alignment explanation
Indices: 45960726--45960828 Score: 120
Period size: 41 Copynumber: 2.4 Consensus size: 43
45960716 TGTGATTTCT
** * *
45960726 TGTAAGACCATGTCTGGGACATTGGCACCG-TATATGAT-TCG
1 TGTAAGACCATGTCTGGGACAGAGGCACCGATATATGATAACA
* * *
45960767 TGTAAGACCTTGTCTGGGACAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGAGGCACCGATATATGATAACA
*
45960810 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
45960829 TATGACATTG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 26 0.51
42 7 0.14
43 18 0.35
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCACCGATATATGATAACA
Found at i:45966713 original size:31 final size:31
Alignment explanation
Indices: 45966678--45966743 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
45966668 TATAATCTAA
45966678 CCATCCACTATAATAGATTATGACATAATTT
1 CCATCCACTATAATAGATTATGACATAATTT
45966709 CCATCCACTATAATAGATTATGACATAATTT
1 CCATCCACTATAATAGATTATGACATAATTT
45966740 CCAT
1 CCAT
45966744 TTAAATCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (31 bp):
CCATCCACTATAATAGATTATGACATAATTT
Found at i:45967263 original size:49 final size:49
Alignment explanation
Indices: 45967130--45967263 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 49
45967120 TAGAATATAT
* * * * * *
45967130 TACCATCCCGAATGGCCCGACAATGATGACTTTCACTATTCTTACATTT
1 TACCATCCCGAATAGCCCGACAACGATGGCTTTCAATATTCTAACATTC
* * * *
45967179 TACCATCCCAAATAGCCCAACAACAATGGCATTCAATA-TCTAAGCATTC
1 TACCATCCCGAATAGCCCGACAACGATGGCTTTCAATATTCTAA-CATTC
* * *
45967228 TACCATCTCGAATAACCCGACAACGATGGTTTTCAA
1 TACCATCCCGAATAGCCCGACAACGATGGCTTTCAA
45967264 CCTAAGGCAT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 4 0.06
49 63 0.94
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (49 bp):
TACCATCCCGAATAGCCCGACAACGATGGCTTTCAATATTCTAACATTC
Found at i:45972097 original size:23 final size:23
Alignment explanation
Indices: 45972066--45972117 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
45972056 ACCTACTTTC
* *
45972066 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
45972089 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
45972112 TTACAG
1 TTACAG
45972118 AACTCCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:45973013 original size:21 final size:21
Alignment explanation
Indices: 45972991--45973029 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45972981 AAACTAATTA
*
45972991 AAAAGG-TAATACAATAAAAT
1 AAAAGGTTAATAAAATAAAAT
45973011 AAAAGGTTAATAAAATAAA
1 AAAAGGTTAATAAAATAAA
45973030 GAAAACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (21 bp):
AAAAGGTTAATAAAATAAAAT
Found at i:45973034 original size:20 final size:20
Alignment explanation
Indices: 45972991--45973034 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
45972981 AAACTAATTA
* *
45972991 AAAAGGTAATACAATAAAAT
1 AAAAGGTAATAAAATAAAAG
45973011 AAAAGGTTAATAAAAT-AAAG
1 AAAAGG-TAATAAAATAAAAG
45973031 AAAA
1 AAAA
45973035 CATAACGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAAGGTAATAAAATAAAAG
Found at i:45973604 original size:18 final size:18
Alignment explanation
Indices: 45973581--45973615 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45973571 TTTACTATAT
45973581 AAATTAATAAATTAGATG
1 AAATTAATAAATTAGATG
* *
45973599 AAATTATTAATTTAGAT
1 AAATTAATAAATTAGAT
45973616 TAAGATTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (18 bp):
AAATTAATAAATTAGATG
Found at i:45977113 original size:27 final size:27
Alignment explanation
Indices: 45977024--45977116 Score: 69
Period size: 31 Copynumber: 3.3 Consensus size: 27
45977014 AAAACACCAG
* * *
45977024 AAAAGGATGCCTTTGTGGAAAATTTTT
1 AAAAGGATGCCTTTGTGGCAAATCTAT
* * * *
45977051 GAAAGGAAAGCCTTTGTGGCGAGTACTAAAT
1 AAAAGG-ATGCCTTTGTGGCAAAT-CT--AT
*
45977082 GAAAAGGATGCCTTTGTGGCAAATCTCT
1 -AAAAGGATGCCTTTGTGGCAAATCTAT
45977110 AAAAGGA
1 AAAAGGA
45977117 AAGCCTCTGT
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
27 12 0.24
28 14 0.29
29 1 0.02
30 2 0.04
31 15 0.31
32 5 0.10
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (27 bp):
AAAAGGATGCCTTTGTGGCAAATCTAT
Found at i:45977115 original size:59 final size:58
Alignment explanation
Indices: 45977023--45977215 Score: 305
Period size: 59 Copynumber: 3.3 Consensus size: 58
45977013 TAAAACACCA
* *
45977023 GAAAAGGATGCCTTTGTGGAAAATTTTTGAAAGGAAAGCCTTTGTGGCGAGTACTAAAT
1 GAAAAGGATGCCTTTGTGGAAAA-TCTTGAAAGGAAAGCCTCTGTGGCGAGTACTAAAT
* * *
45977082 GAAAAGGATGCCTTTGTGGCAAATCTCTAAAAGGAAAGCCTCTGTGGTGAGTACTAAAT
1 GAAAAGGATGCCTTTGTGGAAAATCT-TGAAAGGAAAGCCTCTGTGGCGAGTACTAAAT
*
45977141 GAAAAGGATGCCTTTATGGAAAATCATTGAAAGGAAAGCCTCTGTGGCGAGTACTAAAT
1 GAAAAGGATGCCTTTGTGGAAAATC-TTGAAAGGAAAGCCTCTGTGGCGAGTACTAAAT
45977200 GAAAAGGATGCCTTTG
1 GAAAAGGATGCCTTTG
45977216 CGGTGAGTAC
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
58 2 0.02
59 119 0.98
60 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (58 bp):
GAAAAGGATGCCTTTGTGGAAAATCTTGAAAGGAAAGCCTCTGTGGCGAGTACTAAAT
Found at i:45977221 original size:90 final size:90
Alignment explanation
Indices: 45977127--45977305 Score: 304
Period size: 90 Copynumber: 2.0 Consensus size: 90
45977117 AAGCCTCTGT
* *
45977127 GGTGAGTACTAAATGAAAAGGATGCCTTTATGGAAAATCATTGAAAGGAAAGCCTCTGTGGCGAG
1 GGTGAGTACTAAATGAAAAGGATGCCTTTATAGAAAATCATTAAAAGGAAAGCCTCTGTGGCGAG
45977192 TACTAAATGAAAAGGATGCCTTTGC
66 TACTAAATGAAAAGGATGCCTTTGC
* **
45977217 GGTGAGTACTAAATGAAAAGGATGCCTTTATAGCAAATCATTAAAAGGAAAGCCTCTGTGGTTAG
1 GGTGAGTACTAAATGAAAAGGATGCCTTTATAGAAAATCATTAAAAGGAAAGCCTCTGTGGCGAG
*
45977282 TACTGAATGAAAAGGATGCCTTTG
66 TACTAAATGAAAAGGATGCCTTTG
45977306 TGGCAAATCA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (90 bp):
GGTGAGTACTAAATGAAAAGGATGCCTTTATAGAAAATCATTAAAAGGAAAGCCTCTGTGGCGAG
TACTAAATGAAAAGGATGCCTTTGC
Found at i:45978152 original size:17 final size:19
Alignment explanation
Indices: 45978117--45978152 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
45978107 CATATTTTGC
45978117 ATTTTTCAATTGTATTAAT
1 ATTTTTCAATTGTATTAAT
45978136 ATTTTT-AATTG-ATTAAT
1 ATTTTTCAATTGTATTAAT
45978153 TGTTAGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTTCAATTGTATTAAT
Found at i:45978698 original size:32 final size:32
Alignment explanation
Indices: 45978609--45978705 Score: 87
Period size: 32 Copynumber: 3.2 Consensus size: 32
45978599 TAGGAGTAGT
*
45978609 GAAAAGGATGCCTTTGTGGAAAATCTATGAAA
1 GAAAAGGATGCCTTTGTGGAAAATCTCTGAAA
* * ** * * *
45978641 GGAAA--CT-CC-TTGTGGCCAGT-ACTGAAT
1 GAAAAGGATGCCTTTGTGGAAAATCTCTGAAA
45978668 GAAAAGGATGCCTTTGTGGAAAATCTCTGAAA
1 GAAAAGGATGCCTTTGTGGAAAATCTCTGAAA
45978700 GAAAAG
1 GAAAAG
45978706 CCTTTGTGGC
Statistics
Matches: 45, Mismatches: 15, Indels: 10
0.64 0.21 0.14
Matches are distributed among these distances:
27 8 0.18
28 8 0.18
29 3 0.07
30 3 0.07
31 8 0.18
32 15 0.33
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (32 bp):
GAAAAGGATGCCTTTGTGGAAAATCTCTGAAA
Found at i:45980832 original size:26 final size:26
Alignment explanation
Indices: 45980803--45980884 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
45980793 GATGATCACG
45980803 TGTGTAGTACAATGTGCAGGCTACTA
1 TGTGTAGTACAATGTGCAGGCTACTA
** * *
45980829 TGTGTACCAGAATGAT--AGG-T-CGCA
1 TGTGTAGTACAATG-TGCAGGCTAC-TA
*
45980853 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACAATGTGCAGGCTACTA
*
45980879 CGTGTA
1 TGTGTA
45980885 TCGGATAATG
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 2 0.05
24 12 0.30
25 6 0.15
26 18 0.45
27 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
TGTGTAGTACAATGTGCAGGCTACTA
Found at i:45980858 original size:50 final size:51
Alignment explanation
Indices: 45980790--45980933 Score: 193
Period size: 51 Copynumber: 2.8 Consensus size: 51
45980780 TGAAAGTGAA
* * *
45980790 AATGATGATCACGTGTGTAGTACAATGTGCAGGCTACTATGTGTA-C-CAG
1 AATGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGCAG
* * * *
45980839 AATGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AATGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGCAG
*
45980891 AATGATGGTCACATGTGTAGTACTATCTGCAGGCTACTATGTG
1 AATGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
45980934 AACCGGTATC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
49 6 0.07
50 34 0.41
51 35 0.43
52 7 0.09
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
AATGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGCAG
Found at i:45980922 original size:51 final size:49
Alignment explanation
Indices: 45980790--45980929 Score: 181
Period size: 50 Copynumber: 2.8 Consensus size: 49
45980780 TGAAAGTGAA
* * * *
45980790 AATGATGATCACGTGTGTAGTACAATGTGCAGGCTACTATGTGTACCAG
1 AATGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG
* * *
45980839 AATGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AATGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-C-CAG
*
45980891 AATGATGGTCACATGTGTAGTACTATCTGCAGGCTACTA
1 AATGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
45980930 TGTGAACCGG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 6 0.08
50 34 0.43
51 32 0.41
52 7 0.09
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (49 bp):
AATGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG
Found at i:45985964 original size:26 final size:26
Alignment explanation
Indices: 45985913--45985996 Score: 98
Period size: 26 Copynumber: 3.3 Consensus size: 26
45985903 TATTTTCTTG
* * **
45985913 AAATTTTAACAGA-GCAAGATCGTCA
1 AAATTTTACCAGAGGCAAAATTATCA
45985938 AAATTTTACCAGAGGCAAAATTATCA
1 AAATTTTACCAGAGGCAAAATTATCA
* * *
45985964 AAATTTTACTAGGGGTAAAATTATCA
1 AAATTTTACCAGAGGCAAAATTATCA
45985990 AAATTTT
1 AAATTTT
45985997 GTTTAGGGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 12 0.24
26 39 0.76
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAGAGGCAAAATTATCA
Found at i:45995763 original size:15 final size:15
Alignment explanation
Indices: 45995734--45995763 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45995724 TAATAGATAG
*
45995734 GTAAATAAATGAAAA
1 GTAAATAAATAAAAA
45995749 GTAAATAAATAAAAA
1 GTAAATAAATAAAAA
45995764 ACAAGAAATC
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:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (15 bp):
GTAAATAAATAAAAA
Found at i:46009441 original size:30 final size:30
Alignment explanation
Indices: 46009405--46009479 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
46009395 CAGTAATTAT
*
46009405 TTTAAAATTCGA-CATCTCCTAATCTAGCAG
1 TTTAAAATTC-ATCATCTCCTAATCTACCAG
46009435 TTTAAAATATTCATCATCTCCTAATCTACCAG
1 TTT-AAA-ATTCATCATCTCCTAATCTACCAG
46009467 TTTCAAATATTCA
1 TTT-AAA-ATTCA
46009480 AGGAAAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 3 0.08
31 4 0.10
32 33 0.82
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
TTTAAAATTCATCATCTCCTAATCTACCAG
Found at i:46009456 original size:32 final size:32
Alignment explanation
Indices: 46009417--46009479 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
46009407 TAAAATTCGA
*
46009417 CATCTCCTAATCTAGCAGTTTAAAATATTCAT
1 CATCTCCTAATCTACCAGTTTAAAATATTCAT
*
46009449 CATCTCCTAATCTACCAGTTTCAAATATTCA
1 CATCTCCTAATCTACCAGTTTAAAATATTCA
46009480 AGGAAAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (32 bp):
CATCTCCTAATCTACCAGTTTAAAATATTCAT
Found at i:46009797 original size:30 final size:29
Alignment explanation
Indices: 46009748--46009874 Score: 181
Period size: 28 Copynumber: 4.4 Consensus size: 29
46009738 GAGCCCTATT
46009748 CAATAGCAGT-ACA-GTGTGGGCCTTAGCC
1 CAATA-CAGTAACATGTGTGGGCCTTAGCC
* *
46009776 CATTACAGTAATAGTGTGTGGGCCTTAGCC
1 CAATACAGTAACA-TGTGTGGGCCTTAGCC
46009806 CAATACAGTAACAT-TGTGGGCCTTAGCC
1 CAATACAGTAACATGTGTGGGCCTTAGCC
46009834 CAATACAGTAACAT-TGTGGGCCTTAGCC
1 CAATACAGTAACATGTGTGGGCCTTAGCC
*
46009862 TAATACAGTAACA
1 CAATACAGTAACA
46009875 GTGCAATGCA
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
27 4 0.04
28 60 0.66
29 1 0.01
30 26 0.29
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (29 bp):
CAATACAGTAACATGTGTGGGCCTTAGCC
Found at i:46009826 original size:58 final size:56
Alignment explanation
Indices: 46009748--46009877 Score: 190
Period size: 58 Copynumber: 2.3 Consensus size: 56
46009738 GAGCCCTATT
* *
46009748 CAATAGCAGT-ACAGTGTGGGCCTTAGCCCATTACAGTAATAGTGTGTGGGCCTTAGCC
1 CAATA-CAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACA-T-TGTGGGCCTTAGCC
*
46009806 CAATACAGTAACATTGTGGGCCTTAGCCCAATACAGTAACATTGTGGGCCTTAGCC
1 CAATACAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACATTGTGGGCCTTAGCC
*
46009862 TAATACAGTAACAGTG
1 CAATACAGTAACAGTG
46009878 CAATGCAGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
56 28 0.42
57 5 0.08
58 33 0.50
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (56 bp):
CAATACAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACATTGTGGGCCTTAGCC
Found at i:46010160 original size:27 final size:27
Alignment explanation
Indices: 46010139--46010367 Score: 316
Period size: 27 Copynumber: 8.5 Consensus size: 27
46010129 GGGGTATAAC
*
46010139 AGTCATTTTACCCTTTGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
* *
46010166 AGTCATTTTACCATTCAAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
*
46010193 AGTCATTTTATCCTTCGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
* *
46010220 GGTCATTTTACCCTTTGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
* *
46010247 GGTCATTTTACCCTTGGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
* * *
46010274 GGTCATTTTACGCTTCGAGGGCATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
*
46010301 AGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTT
*
46010328 AATCATTTTACCCTTCGAGGGTA-TTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
*
46010354 CGATCATTTTACCC
1 AG-TCATTTTACCC
46010368 CCATTATGGC
Statistics
Matches: 180, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 2 0.01
27 178 0.99
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
AGTCATTTTACCCTTCGAGGGTATTTT
Found at i:46012626 original size:50 final size:50
Alignment explanation
Indices: 46012515--46012700 Score: 264
Period size: 50 Copynumber: 3.7 Consensus size: 50
46012505 ACATGTCAAA
** * * *
46012515 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
** * *
46012566 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGCTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* *
46012616 GTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
46012666 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46012701 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 91 0.76
51 28 0.24
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:46012816 original size:13 final size:13
Alignment explanation
Indices: 46012795--46012837 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
46012785 GCTTGGATCA
*
46012795 TCATCAAATAAAT
1 TCATGAAATAAAT
46012808 TCATGAAATAAAT
1 TCATGAAATAAAT
46012821 TCATGAAATAAAT
1 TCATGAAATAAAT
46012834 TCAT
1 TCAT
46012838 AGTTGCTGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (13 bp):
TCATGAAATAAAT
Found at i:46018863 original size:17 final size:18
Alignment explanation
Indices: 46018824--46018866 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
46018814 GTAATTCAAG
* *
46018824 AGTTTCCTTACAGTTTCC
1 AGTTTTCTTACAGTCTCC
46018842 AGTTTTCTTACAGTCT-C
1 AGTTTTCTTACAGTCTCC
46018859 AGTTTTCT
1 AGTTTTCT
46018867 CTAATTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.16, C:0.23, G:0.12, T:0.49
Consensus pattern (18 bp):
AGTTTTCTTACAGTCTCC
Found at i:46019677 original size:33 final size:33
Alignment explanation
Indices: 46019619--46019702 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
46019609 AGCAGTCAAC
* *
46019619 ATACAATATGCAGTAACAGTCTGGGCCTGAGCCCT
1 ATACAGTA-GCAGT-ACAGTCTGGGCCTGAGCCCA
* * *
46019654 ATTCAGTAGCAGTACAGTGTGGGCCTTAGCCCA
1 ATACAGTAGCAGTACAGTCTGGGCCTGAGCCCA
*
46019687 ATACAGTAACAGTACA
1 ATACAGTAGCAGTACA
46019703 ATGCAGTGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 31 0.74
34 5 0.12
35 6 0.14
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (33 bp):
ATACAGTAGCAGTACAGTCTGGGCCTGAGCCCA
Found at i:46020089 original size:27 final size:27
Alignment explanation
Indices: 46020059--46020313 Score: 147
Period size: 27 Copynumber: 9.1 Consensus size: 27
46020049 CATAACAATT
* *
46020059 ATTTTACCCTTTGGGGGTATTTTGGTC
1 ATTTTACCCTTTGAGGGTATTTCGGTC
* * * *
46020086 ATTTTATCATTCGAGGGTATTTCAGTC
1 ATTTTACCCTTTGAGGGTATTTCGGTC
* *
46020113 AATTTT--CCTTTCAGGGGTATTTCAGTC
1 -ATTTTACCCTTTGA-GGGTATTTCGGTC
* * * *
46020140 ATTCTACCCTTCGAGGGTCTTTTGGTC
1 ATTTTACCCTTTGAGGGTATTTCGGTC
* *
46020167 A-TTTACCCTTTGAAGGTATTTCGATC
1 ATTTTACCCTTTGAGGGTATTTCGGTC
* **
46020193 ATTTTACCCTTCGAGGGTCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTTGAGGGTATTTC----G-------GTC
* **
46020231 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTTGAGGGTATTTCGGTC
* *
46020258 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCTTTGAGGGTATTTCGGTC
* * *
46020285 ATTTTACCCTTCGAGTGTATTTCAGTC
1 ATTTTACCCTTTGAGGGTATTTCGGTC
46020312 AT
1 AT
46020314 ATTAGGCCCA
Statistics
Matches: 180, Mismatches: 32, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
26 28 0.16
27 118 0.66
28 10 0.06
31 1 0.01
38 23 0.13
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTTGAGGGTATTTCGGTC
Done.