Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 17 of 444
Found at i:4881411 original size:21 final size:21
Alignment explanation
Indices: 4881387--4881443 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
4881377 AAAATCTTCA
4881387 AAAAAATAAAAAATAAAAAAT
1 AAAAAATAAAAAATAAAAAAT
4881408 AAAAAATAAAAAATAAAAAAT
1 AAAAAATAAAAAATAAAAAAT
*
4881429 AAAAAACTTAAAAAT
1 AAAAAA-TAAAAAAT
4881444 TTAATATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAAAAT
Found at i:4882059 original size:16 final size:16
Alignment explanation
Indices: 4882038--4882068 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4882028 CAAGATCACT
4882038 TATCTGCAGTCTGTTA
1 TATCTGCAGTCTGTTA
4882054 TATCTGCAGTCTGTT
1 TATCTGCAGTCTGTT
4882069 TTTCCCAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (16 bp):
TATCTGCAGTCTGTTA
Found at i:4885294 original size:43 final size:43
Alignment explanation
Indices: 4885233--4885335 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
4885223 TTAGTGGCGT
4885233 GACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
1 GACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
*
4885276 GACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAT
1 GACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
*
4885319 GACCTTTAGCGGCGTTT
1 GACCTCTAGCGGCGTTT
4885336 TTTTAAATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.22
Consensus pattern (43 bp):
GACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
Found at i:4889635 original size:9 final size:9
Alignment explanation
Indices: 4889623--4889647 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4889613 TTTTCTTCTT
4889623 TTTTTTTGA
1 TTTTTTTGA
4889632 TTTTTTTGA
1 TTTTTTTGA
4889641 TTTTTTT
1 TTTTTTT
4889648 AAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:4890694 original size:43 final size:42
Alignment explanation
Indices: 4890647--4890737 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
4890637 TGAAAAGGGG
* * * *
4890647 TGTTTGGCTACAG-GTTTTGGGGATTCTAAGGCTGGAATAGGAC
1 TGTTTGGCTACAGAGATAT-GGCATTCT-AGGCTGGAATAGAAC
* *
4890690 TGTTTGGCTGCAGAGATATGGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTACAGAGATATGGCATTCTAGGCTGGAATAGAAC
4890732 TGTTTG
1 TGTTTG
4890738 ACAGCATGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 19 0.46
43 19 0.46
44 3 0.07
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (42 bp):
TGTTTGGCTACAGAGATATGGCATTCTAGGCTGGAATAGAAC
Found at i:4890861 original size:6 final size:6
Alignment explanation
Indices: 4890845--4890920 Score: 79
Period size: 6 Copynumber: 12.7 Consensus size: 6
4890835 ATATTTAACT
4890845 AAAAT- AAAATA AAAATA AAAGA-A AATAATA AATAATA AAAGA-A AAAA-A
1 AAAATA AAAATA AAAATA AAA-ATA AA-AATA AA-AATA AAA-ATA AAAATA
*
4890893 TAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
4890921 GAAAGATTGG
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
5 10 0.16
6 40 0.63
7 13 0.21
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4890869 original size:16 final size:15
Alignment explanation
Indices: 4890844--4890914 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 15
4890834 AATATTTAAC
4890844 TAAAATAAAATAAAAA
1 TAAAA-AAAATAAAAA
4890860 TAAAAGAAAATAATAAA
1 TAAAA-AAAATAA-AAA
4890877 TAATAAAAGAA-AAAAA
1 TAA-AAAA-AATAAAAA
4890893 TAAATAAAAATAAAAA
1 TAAA-AAAAATAAAAA
4890909 TAAAAA
1 TAAAAA
4890915 TAAAAAGAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
15 5 0.10
16 30 0.61
17 10 0.20
18 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:4890883 original size:20 final size:20
Alignment explanation
Indices: 4890852--4890917 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
4890842 ACTAAAATAA
4890852 AATAAA-AATAAAAGAAAAT
1 AATAAATAATAAAAGAAAAT
*
4890871 AATAAATAATAAAAGAAAAA
1 AATAAATAATAAAAGAAAAT
4890891 AATAAATAA-AAATA-AAAAT
1 AATAAATAATAAA-AGAAAAT
4890910 AA-AAATAA
1 AATAAATAA
4890918 AAAGAAAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 6 0.14
19 15 0.35
20 22 0.51
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (20 bp):
AATAAATAATAAAAGAAAAT
Found at i:4909754 original size:9 final size:8
Alignment explanation
Indices: 4909731--4909760 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
4909721 AGAAAAACCA
4909731 TTTTATTT
1 TTTTATTT
4909739 TTTTATTT
1 TTTTATTT
4909747 TCTTTATTT
1 T-TTTATTT
4909756 TTTTA
1 TTTTA
4909761 GAATTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:4915373 original size:43 final size:41
Alignment explanation
Indices: 4915312--4915437 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 41
4915302 ATGAGTTTTA
* *
4915312 GTTTAACCCTTTCAGGTTTCAGTTTTAGCTCTTCTGAGCTTCC
1 GTTTAACCCTTT-GGGTTTCAG-TTTAGCTCTTATGAGCTTCC
* * *
4915355 GTTTAACCCTTATGGGTTTCCGTTTAGCTTTTATGAGCTTTC
1 GTTTAACCCTT-TGGGTTTCAGTTTAGCTCTTATGAGCTTCC
* *
4915397 GTTTAACCCTTTTGGGTTTCTA-TTTAGCACTTATGTGCTTC
1 GTTTAACCC-TTTGGGTTTC-AGTTTAGCTCTTATGAGCTTC
4915438 TGTGCTGCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
42 49 0.70
43 20 0.29
44 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (41 bp):
GTTTAACCCTTTGGGTTTCAGTTTAGCTCTTATGAGCTTCC
Found at i:4915375 original size:21 final size:21
Alignment explanation
Indices: 4915351--4915416 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
4915341 TCTTCTGAGC
4915351 TTCCGTTTAACCCTTATGGGT
1 TTCCGTTTAACCCTTATGGGT
* ** *
4915372 TTCCGTTTAGCTTTTATGAGCT
1 TTCCGTTTAACCCTTATG-GGT
*
4915394 TT-CGTTTAACCCTTTTGGGT
1 TTCCGTTTAACCCTTATGGGT
4915414 TTC
1 TTC
4915417 TATTTAGCAC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 4 0.12
21 26 0.76
22 4 0.12
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCCGTTTAACCCTTATGGGT
Found at i:4915832 original size:50 final size:50
Alignment explanation
Indices: 4915768--4915880 Score: 172
Period size: 50 Copynumber: 2.3 Consensus size: 50
4915758 ACATGTAAAA
* * *
4915768 ATGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGACATTGGT
1 ATGTGATTATGTGATTACGTGTAAGACCATAGCTAGGCTATGACATTGAT
**
4915818 ATGTGATTATGTGATTACGTGTAAGACCATAGCTAGGCTATGGTATTGAT
1 ATGTGATTATGTGATTACGTGTAAGACCATAGCTAGGCTATGACATTGAT
*
4915868 ATGTGAATATGTG
1 ATGTGATTATGTG
4915881 TAAGACCATA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (50 bp):
ATGTGATTATGTGATTACGTGTAAGACCATAGCTAGGCTATGACATTGAT
Found at i:4915882 original size:42 final size:43
Alignment explanation
Indices: 4915814--4915927 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 43
4915804 GCTATGACAT
* *
4915814 TGGTATGTGATTATGTGATTACGTGTAAGACCATAGCTAGGCTA
1 TGGTAT-TGATTATGTGAATATGTGTAAGACCATAGCTAGGCTA
*
4915858 TGGTATTGA-TATGTGAATATGTGTAAGACCATAGCTGGGCTA
1 TGGTATTGATTATGTGAATATGTGTAAGACCATAGCTAGGCTA
* * *
4915900 TGGCA-TCATTATGTGAAGATGTGTAAGA
1 TGGTATTGATTATGTGAATATGTGTAAGA
4915928 ACACAATTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
41 2 0.03
42 52 0.83
43 3 0.05
44 6 0.10
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.33
Consensus pattern (43 bp):
TGGTATTGATTATGTGAATATGTGTAAGACCATAGCTAGGCTA
Found at i:4915943 original size:42 final size:42
Alignment explanation
Indices: 4915867--4915948 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4915857 ATGGTATTGA
* * * * *
4915867 TATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATCAT
1 TATGTGAAGATGTGTAAGAACACAACTGGACTATGGCATCAT
*
4915909 TATGTGAAGATGTGTAAGAACACAATTGGACTATGGCATC
1 TATGTGAAGATGTGTAAGAACACAACTGGACTATGGCATC
4915949 GAGGAAACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (42 bp):
TATGTGAAGATGTGTAAGAACACAACTGGACTATGGCATCAT
Found at i:4917841 original size:17 final size:17
Alignment explanation
Indices: 4917819--4917851 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4917809 GATATGATAC
4917819 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
4917836 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
4917852 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:4917852 original size:18 final size:17
Alignment explanation
Indices: 4917819--4917852 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4917809 GATATGATAC
*
4917819 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
4917836 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
4917853 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:4918151 original size:23 final size:22
Alignment explanation
Indices: 4918108--4918165 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4918098 AAAAGGTATC
* *
4918108 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4918129 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4918152 TGCACATCATATCT
1 TACAAATCATATCT
4918166 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4918168 original size:19 final size:19
Alignment explanation
Indices: 4918144--4918180 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4918134 AATCATATCT
4918144 TCTAAGATTGCACATCATA
1 TCTAAGATTGCACATCATA
*
4918163 TCTAAGATTGCATATCAT
1 TCTAAGATTGCACATCAT
4918181 TGAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCACATCATA
Found at i:4918188 original size:17 final size:19
Alignment explanation
Indices: 4918147--4918188 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4918137 CATATCTTCT
*
4918147 AAGATTGCACATCATATCT
1 AAGATTGCACATCATATCG
*
4918166 AAGATTGCATATCAT-T-G
1 AAGATTGCACATCATATCG
4918183 AAGATT
1 AAGATT
4918189 ATATTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (19 bp):
AAGATTGCACATCATATCG
Found at i:4918563 original size:45 final size:45
Alignment explanation
Indices: 4918512--4918666 Score: 181
Period size: 45 Copynumber: 3.5 Consensus size: 45
4918502 AGAAGGCGAT
* *
4918512 ATCTGCTATCTTTGATCTGCTCCCTGTCTAATACAGAGACGCTAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCTAA
** * *
4918557 ATCTGCT-TCTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCTAA
* * *
4918601 ATCTGTTATCTCTGATTTGCTCCCCGTCTAATACAGAGATG-TCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCT-AA
*
4918646 ATCTG-TCATCTTGGATCTGCT
1 ATCTGCT-ATCTTTGATCTGCT
4918667 TCGATGTAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
44 38 0.42
45 53 0.58
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (45 bp):
ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCTAA
Found at i:4918780 original size:78 final size:78
Alignment explanation
Indices: 4918680--4918974 Score: 459
Period size: 78 Copynumber: 3.8 Consensus size: 78
4918670 ATGTAAACAC
* *
4918680 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCAAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
4918745 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
4918758 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCAAC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
4918822 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
4918836 ATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
4918901 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
4918914 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGT-TGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCT-AATACAGAGATGCCAAATC
4918975 TATTTCTTCG
Statistics
Matches: 200, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
77 3 0.01
78 195 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:4919118 original size:287 final size:277
Alignment explanation
Indices: 4918724--4919454 Score: 1057
Period size: 287 Copynumber: 2.6 Consensus size: 277
4918714 CCCCGTCAAA
* * *
4918724 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCC-AATCTGTTATGTCTTCGATC
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAAG-CCAAATCTGCTATGTCTTCGATC
* *
4918788 TGCTCCCTGTCTAATACAGAGATGCCAAATCAACTTGGATCTGCTTCAATAAAGGTCAGATCTGC
65 TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGC
* *
4918853 TATGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
130 TATGTCTTCGATCTGCTCCCCTTCTAATATAGAGATGCCAAATCATCTTGGATCTACTTCAATGA
*
4918918 AGGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTTGAATATGGAGATGCCAAATCTATTTCTT
195 AGGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTT
4918983 CGATTTGTTCTCTGACAG
260 CGATTTGTTCTCTGACAG
*
4919001 TACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATG
1 TACAGAGATGCCAAATCATCTTAGATCTGCTT---C----A-A--TGAAAGCCAAATCTGCTATG
*
4919066 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGT
56 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGT
* *
4919131 CAGATCTGCTGTGTCTTCGATCTGCTCCTCGTT-TAATATAGAGATGCCAAATCATCTTGGATCT
121 CAGATCTGCTATGTCTTCGATCTGCTCC-CCTTCTAATATAGAGATGCCAAATCATCTTGGATCT
* *
4919195 ACTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCTGTTCTCTGTCGAATATGGAGATGCCAAA
185 ACTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAA
*
4919260 TCTGTTTCTTCGATTTGTTCTCTGACAG
250 TCTATTTCTTCGATTTGTTCTCTGACAG
* * * *
4919288 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCT
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAAGCCAAATCTGCTATGTCTTCGATCT
* *
4919353 GCTCTCCGTCTAATACAGAGATGCCAAATCATC-----T-TGCTTCAATGAAGGTCAGATCTGCT
66 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCT
* * * *
4919412 ATGTCTTCAATCTGCT-CTCTGTCGAATATGGAGATGCCAAATC
131 ATGTCTTCGATCTGCTCCCCT-TCTAATATAGAGATGCCAAATC
4919455 TGTTTCTTCG
Statistics
Matches: 411, Mismatches: 29, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
269 1 0.00
270 2 0.00
271 56 0.14
272 1 0.00
277 87 0.21
279 1 0.00
280 2 0.00
284 2 0.00
285 1 0.00
286 2 0.00
287 253 0.62
288 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (277 bp):
TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAAGCCAAATCTGCTATGTCTTCGATCT
GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCT
ATGTCTTCGATCTGCTCCCCTTCTAATATAGAGATGCCAAATCATCTTGGATCTACTTCAATGAA
GGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTC
GATTTGTTCTCTGACAG
Found at i:4919185 original size:78 final size:78
Alignment explanation
Indices: 4919056--4919261 Score: 297
Period size: 78 Copynumber: 2.6 Consensus size: 78
4919046 TGAAAGCCAA
* * * *
4919056 ATCTGCTATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAGAGATGCCAAATCATCTTGGATCTACTT
4919121 CAATAAAGGTCAG
66 CAATAAAGGTCAG
* *
4919134 ATCTGCTGTGTCTTCGATCTGCTCCTCGTTTAATATAGAGATGCCAAATCATCTTGGATCTACTT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAGAGATGCCAAATCATCTTGGATCTACTT
*
4919199 CAATGAAGGTCAG
66 CAATAAAGGTCAG
* * * *
4919212 ATCTGCTATGTCTTTGATCTG-TTCTCTGTCGAATATGGAGATGCCAAATC
1 ATCTGCTATGTCTTCGATCTGCTCCTC-GTCTAATATAGAGATGCCAAATC
4919262 TGTTTCTTCG
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 4 0.04
78 110 0.96
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (78 bp):
ATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAGAGATGCCAAATCATCTTGGATCTACTT
CAATAAAGGTCAG
Found at i:4919372 original size:365 final size:363
Alignment explanation
Indices: 4918613--4919387 Score: 847
Period size: 365 Copynumber: 2.1 Consensus size: 363
4918603 CTGTTATCTC
* * *
4918613 TGATTTGCTCCCCGTCTAATACAGAGATGT-CAAATCTGTCATCTTGGATCTGCTTCGATGTAAA
1 TGATTTGCTCTCCGTCTAATACAGAGAT-TCCAAA----TCATCTTAGATCTGCTTCGACGTAAA
* * * * *
4918677 CACATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCAAATACAGAGATGCCAAATCA
61 CACATGAAAGCCAAATCTGCTATGTCTTCAATCTGCTCCCCGTCAAATACAGAGATGCCAAATCA
* *
4918742 TCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAG
126 TCTTGGATCTGCTTCAATAAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAG
*
4918807 AGATGCCAAATCAACTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
191 AGATGCCAAATCAACTTGGATCTACTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
* * ** * *
4918872 CCTTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTC
256 CCTTCGAATACAGAGATGCCAAATCATCTTCGATCTGCTTCAATGAAGGTCAGAGATGCAATATC
* ** * * *
4918937 TTTGATCTGCTCTCCGTTGAATATGGAGATGCCAAATCTATTTCTT
321 TTAGATCTGCTCTCCAATGAAGATGCAGAT-CC--ATCTATGTCTT
* * * * * *
4918983 CGATTTGTTCTCTGAC-AGTACAGAGATTCCAAATCATCTTAGATCTGCTTC-AGCGTAAACACG
1 TGATTTGCTCTCCGTCTAATACAGAGATTCCAAATCATCTTAGATCTGCTTCGA-CGTAAACACA
*
4919046 TGAAAGCCAAATCTGCTATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
65 TGAAAGCCAAATCTGCTATGTCTTCAATCTGCTCCCCGTCAAATACAGAGATGCCAAATCATCTT
* * *
4919111 GGATCTGCTTCAATAAAGGT-CAGATCTGCTGTGTCTTCGATCTGCT-CCTCGTTTAATATAGAG
130 GGATCTGCTTCAATAAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCCT-GTCTAATACAGAG
* * * * *
4919174 ATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCTG-TTCTC
193 ATGCCAAATCAACTTGGATCTACTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCC
** * * **
4919238 TGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG-TTCTCTGACA-GTACAGAGATGCCA
258 T-TCGAATACAGAGATGCCAAATC---ATCTTCGATCTGCTTCAATGA-AGGT-CAGAGATG-C-
*
4919301 AATCATCTTAGATCTGCT-T-CAATGAAGGT-CAGAT-C-TGCTATGTCTT
315 AAT-ATCTTAGATCTGCTCTCCAATGAAGATGCAGATCCAT-CTATGTCTT
* *
4919347 TGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGATTTGCTCTCCGTCTAATACAGAGATTCCAAATCATCTT
4919388 GCTTCAATGA
Statistics
Matches: 338, Mismatches: 52, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
363 1 0.00
364 29 0.09
365 231 0.68
366 1 0.00
367 8 0.02
368 21 0.06
369 21 0.06
370 14 0.04
371 12 0.04
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (363 bp):
TGATTTGCTCTCCGTCTAATACAGAGATTCCAAATCATCTTAGATCTGCTTCGACGTAAACACAT
GAAAGCCAAATCTGCTATGTCTTCAATCTGCTCCCCGTCAAATACAGAGATGCCAAATCATCTTG
GATCTGCTTCAATAAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATG
CCAAATCAACTTGGATCTACTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCTTC
GAATACAGAGATGCCAAATCATCTTCGATCTGCTTCAATGAAGGTCAGAGATGCAATATCTTAGA
TCTGCTCTCCAATGAAGATGCAGATCCATCTATGTCTT
Found at i:4919411 original size:72 final size:74
Alignment explanation
Indices: 4919288--4919454 Score: 230
Period size: 72 Copynumber: 2.2 Consensus size: 74
4919278 TCTCTGACAG
**
4919288 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCT
1 TACAGAGATGCCAAATCATC----ATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCAATCT
*
4919353 GCTCTCCGTCTAA
62 GCTCTCCGTCGAA
4919366 TACAGAGATGCCAAATCATC-T-TGCTTCAATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTC
1 TACAGAGATGCCAAATCATCATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTC
*
4919429 TCTGTCGAA
66 TCCGTCGAA
**
4919438 TATGGAGATGCCAAATC
1 TACAGAGATGCCAAATC
4919455 TGTTTCTTCG
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
72 62 0.75
73 1 0.01
78 20 0.24
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (74 bp):
TACAGAGATGCCAAATCATCATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTC
TCCGTCGAA
Found at i:4919476 original size:193 final size:195
Alignment explanation
Indices: 4919089--4919734 Score: 701
Period size: 193 Copynumber: 3.2 Consensus size: 195
4919079 CCCCGTCTAA
* *
4919089 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCT
* *
4919154 GCTCCTCGTTTAATATAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCT
66 GCTCCTCGTCTAATACAGAGATGCCAAATCATCTTGG----ACTTCAATGAAGGTCAGATCTGCT
** * *
4919219 ATGTCTTTGATCTGTTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
127 ATGTCTTCAATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTG
4919284 ACAG
192 ACAG
* *
4919288 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCT
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCT
4919353 GCT-CTCCGTCTAATACAGAGATGCCAAATCATCTT-G-CTTCAATGAAGGTCAGATCTGCTATG
66 GCTCCT-CGTCTAATACAGAGATGCCAAATCATCTTGGACTTCAATGAAGGTCAGATCTGCTATG
4919415 TCTTCAATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTGACA
130 TCTTCAATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTGACA
4919480 G
195 G
* * *
4919481 TGCAGAGATGCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAAGG-CAAATCTGCTAT
1 TACAGAGATGCCAAATCATCTTAGATCTGCTT---C----A-A--T-AAAGGTCAGATCTGCTAT
* *
4919545 GTCTTCGATCTGCTCCTTGTC-AATGCA-AGGATGCCAAATCATCTTGGATCTACTTCGATGTGA
55 GTCTTCGATCTGCTCCTCGTCTAATACAGA-GATGCCAAATCATCTTGG----ACTTC-------
* * **
4919608 AGACATCCGAAGGTTAGATCTGCTATGTCTTCTATCTGCTCTCCATCGAATATGGAGATGCCAAA
108 --A-AT--GAAGGTCAGATCTGCTATGTCTTCAATCTGCTCTCTGTCGAATATGGAGATGCCAAA
* * *
4919673 TCTGTTTCTTCAATTTGTTCTCTGACAA
168 TCTGTTTCTTCGATTTATTCTCTGACAG
* * ** * *
4919701 TATAGAAATGTTAAATCATCTTGGATCCGCTTCA
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCA
4919735 GCATAAACAC
Statistics
Matches: 383, Mismatches: 32, Indels: 50
0.82 0.07 0.11
Matches are distributed among these distances:
193 118 0.31
196 1 0.00
198 3 0.01
199 91 0.24
200 1 0.00
201 2 0.01
202 21 0.05
203 29 0.08
204 6 0.02
208 4 0.01
213 1 0.00
217 2 0.01
218 2 0.01
220 102 0.27
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (195 bp):
TACAGAGATGCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCT
GCTCCTCGTCTAATACAGAGATGCCAAATCATCTTGGACTTCAATGAAGGTCAGATCTGCTATGT
CTTCAATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTATTCTCTGACAG
Found at i:4927745 original size:17 final size:18
Alignment explanation
Indices: 4927723--4927759 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4927713 GATATGATAC
*
4927723 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
4927740 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
4927758 TA
1 TA
4927760 GGGAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:4928071 original size:19 final size:19
Alignment explanation
Indices: 4928047--4928137 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
4928037 AATCATATCT
*
4928047 TCTAAGATAGCATATCATA
1 TCTAAGATTGCATATCATA
4928066 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
4928084 TCTAAAATTG--TATCATA
1 TCTAAGATTGCATATCATA
4928101 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4928120 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
4928138 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 36 0.55
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4928098 original size:35 final size:36
Alignment explanation
Indices: 4928059--4928129 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
4928049 TAAGATAGCA
4928059 TATCATATCTAAGATTGCA-ATCATATCTAAAATTG
1 TATCATATCTAAGATTGCATATCATATCTAAAATTG
*
4928094 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAAATTG
4928130 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAAATTG
Found at i:4933886 original size:11 final size:11
Alignment explanation
Indices: 4933867--4933905 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4933857 AAACAGAGAA
4933867 AAAGAGAAGAG
1 AAAGAGAAGAG
*
4933878 AAAGTGAAGAG
1 AAAGAGAAGAG
*
4933889 AAAGGGAAGA-
1 AAAGAGAAGAG
4933899 AAAGAGA
1 AAAGAGA
4933906 GAGGGAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (11 bp):
AAAGAGAAGAG
Found at i:4939163 original size:30 final size:30
Alignment explanation
Indices: 4939124--4939181 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4939114 CACGGGCTGG
*
4939124 CACATGGGCATGTGGCCAGACCATGTGGCT
1 CACACGGGCATGTGGCCAGACCATGTGGCT
* * *
4939154 CACACGGGCATGTGTCCAGCCCGTGTGG
1 CACACGGGCATGTGGCCAGACCATGTGG
4939182 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.19
Consensus pattern (30 bp):
CACACGGGCATGTGGCCAGACCATGTGGCT
Found at i:4942501 original size:26 final size:26
Alignment explanation
Indices: 4942464--4942547 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
4942454 TGATACAAAT
* *
4942464 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4942490 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4942516 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4942542 TGATAA
1 TGATAA
4942548 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:4947210 original size:20 final size:23
Alignment explanation
Indices: 4947185--4947229 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4947175 ATTTACGTAA
4947185 CATAGTC-CATGT-T-CATATAT
1 CATAGTCTCATGTCTCCATATAT
4947205 CATAGTCTCATGTCTCCATATAT
1 CATAGTCTCATGTCTCCATATAT
4947228 CA
1 CA
4947230 ATAACCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 5 0.23
22 1 0.05
23 9 0.41
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (23 bp):
CATAGTCTCATGTCTCCATATAT
Found at i:4956752 original size:25 final size:25
Alignment explanation
Indices: 4956680--4956757 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 25
4956670 GAGGAAGTGC
* * *
4956680 AAAAGGGC-TATGCCCTAGTTACCG
1 AAAAGGGCTTTTGCCCTAGTTATCA
* *
4956704 AAAAGGACTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCTAG-TTATCA
*
4956730 AAAAGGGCTTTTGCCCTAGTTATTA
1 AAAAGGGCTTTTGCCCTAGTTATCA
4956755 AAA
1 AAA
4956758 GAGGCTAGGC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 7 0.16
25 16 0.36
26 21 0.48
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCTAGTTATCA
Found at i:4957008 original size:31 final size:31
Alignment explanation
Indices: 4956970--4957084 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
4956960 TTGTTATAGT
4956970 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
*
4957001 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
* *
4957032 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
4957063 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
4957085 CTGAGATTGA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATAATGA
Found at i:4957385 original size:12 final size:13
Alignment explanation
Indices: 4957362--4957390 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4957352 TCTTCTGGGA
4957362 TTATTGTATTTAT
1 TTATTGTATTTAT
4957375 TTATT-TATTTAT
1 TTATTGTATTTAT
4957387 TTAT
1 TTAT
4957391 AACTTTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTATTGTATTTAT
Found at i:4958190 original size:42 final size:41
Alignment explanation
Indices: 4958138--4958273 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 41
4958128 GGCTGCACTG
* *
4958138 AAGCACATAAGTGCTAAATAGAAACCCAAAAGGGTTAAACGA
1 AAGCTCATAAGAGCTAAA-AGAAACCCAAAAGGGTTAAACGA
** * * *
4958180 AAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAGCGG
1 AAGCTCATAAGAGCT-AAAAGAAACCCAAAAGGGTTAAACGA
* * *
4958222 AAGCTCAGAAGAGCTAAAACTGAAACTCGAAAGGGTTAAACTGA
1 AAGCTCATAAGAGCTAAAA--GAAACCCAAAAGGGTTAAAC-GA
4958266 AA-CTCATA
1 AAGCTCATA
4958274 TGAGTTAACG
Statistics
Matches: 74, Mismatches: 16, Indels: 7
0.76 0.16 0.07
Matches are distributed among these distances:
41 2 0.03
42 46 0.62
43 23 0.31
44 3 0.04
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (41 bp):
AAGCTCATAAGAGCTAAAAGAAACCCAAAAGGGTTAAACGA
Found at i:4958222 original size:21 final size:20
Alignment explanation
Indices: 4958158--4958223 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
4958148 GTGCTAAATA
*
4958158 GAAACCCAAAAGGGTTAAAC-
1 GAAACCCATAAGGGTT-AACG
* * *
4958178 GAAAGCTCATAAGAGCTGAACG
1 GAAA-CCCATAAG-GGTTAACG
4958200 GAAACCCATAAGGGTTAAGCG
1 GAAACCCATAAGGGTTAA-CG
4958221 GAA
1 GAA
4958224 GCTCAGAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 8 0.23
21 21 0.60
22 6 0.17
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (20 bp):
GAAACCCATAAGGGTTAACG
Found at i:4960762 original size:46 final size:46
Alignment explanation
Indices: 4960689--4960782 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
4960679 TTACAAGTTT
4960689 ACACATTGGTTACTCAATCTCGACATTATTGCTCCCTAACCCGATA
1 ACACATTGGTTACTCAATCTCGACATTATTGCTCCCTAACCCGATA
* * *
4960735 ACACATTGGTTACTTAATCTTGGCATTATTGCTCCCTAACCCGATA
1 ACACATTGGTTACTCAATCTCGACATTATTGCTCCCTAACCCGATA
4960781 AC
1 AC
4960783 CCAAGCAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.32
Consensus pattern (46 bp):
ACACATTGGTTACTCAATCTCGACATTATTGCTCCCTAACCCGATA
Found at i:4961963 original size:20 final size:21
Alignment explanation
Indices: 4961924--4961966 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
4961914 ATAGGAAGGT
4961924 AAAAAGAGAGAGAAACGGGCC
1 AAAAAGAGAGAGAAACGGGCC
* *
4961945 AAAAATAGAGA-AAATGGGCC
1 AAAAAGAGAGAGAAACGGGCC
4961965 AA
1 AA
4961967 CGTGGGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.56, C:0.12, G:0.28, T:0.05
Consensus pattern (21 bp):
AAAAAGAGAGAGAAACGGGCC
Found at i:4963886 original size:2 final size:2
Alignment explanation
Indices: 4963879--4963917 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4963869 ATATCGTCAA
4963879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4963918 AAGAGAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4965481 original size:26 final size:26
Alignment explanation
Indices: 4965451--4965504 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
4965441 CAATAATAGA
4965451 AAATAAACATA-AAGCAAA-TTAAAAAT
1 AAATAAA-ATATAAG-AAATTTAAAAAT
*
4965477 AAATAGAATATAAGAAATTTAAAAAT
1 AAATAAAATATAAGAAATTTAAAAAT
4965503 AA
1 AA
4965505 TAATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.22
Consensus pattern (26 bp):
AAATAAAATATAAGAAATTTAAAAAT
Found at i:4965500 original size:25 final size:22
Alignment explanation
Indices: 4965450--4965529 Score: 63
Period size: 25 Copynumber: 3.3 Consensus size: 22
4965440 CCAATAATAG
*
4965450 AAAATAAACATAAAGCAAATTAAAA
1 AAAAT-AA-ATAAAG-AAATTTAAA
4965475 ATAAATAGAATATAAGAAATTTAAA
1 A-AAATA-AATA-AAGAAATTTAAA
*
4965500 AATAAT-AATAAATAAATTTAAA
1 AA-AATAAATAAAGAAATTTAAA
4965522 ACAAATAA
1 A-AAATAA
4965530 TGTAAAAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
22 15 0.32
23 6 0.13
24 1 0.02
25 17 0.36
26 8 0.17
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAATAAATAAAGAAATTTAAA
Found at i:4965603 original size:2 final size:2
Alignment explanation
Indices: 4965598--4965622 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4965588 AAACATTTAA
4965598 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4965623 AGTGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4968105 original size:75 final size:75
Alignment explanation
Indices: 4967981--4968150 Score: 232
Period size: 75 Copynumber: 2.3 Consensus size: 75
4967971 CGGTCTAACC
* * * *
4967981 GACTAGAGCTGGGCACAAACGTCTTTAGTTTAACCAACTAGAACCGGGCTCACATTTAACATTGT
1 GACTAGCGCTGGGCGCAAACGTCATTAGTTTAACCAACTAGAACCGGGCTCACATTTAACATCGT
4968046 CAGTTAATCT
66 CAGTTAATCT
* * * * * *
4968056 GACTAGCGCTGGGCGCAAATGTCATTGGTTTAACTAACTAGATCTGGGCTCACATTTAATATCGT
1 GACTAGCGCTGGGCGCAAACGTCATTAGTTTAACCAACTAGAACCGGGCTCACATTTAACATCGT
*
4968121 CGGTTAATCT
66 CAGTTAATCT
*
4968131 GACTAGCGCTGGGTGCAAAC
1 GACTAGCGCTGGGCGCAAAC
4968151 TCTTTTGCGG
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (75 bp):
GACTAGCGCTGGGCGCAAACGTCATTAGTTTAACCAACTAGAACCGGGCTCACATTTAACATCGT
CAGTTAATCT
Found at i:4980683 original size:18 final size:18
Alignment explanation
Indices: 4980616--4980705 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
4980606 CAATCCCAAC
*
4980616 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
* *
4980634 TACCGTAT--GTAAATAG
1 TACTGTATACGTGAATAG
* *
4980650 TGCCGTATAC-TGAATAG
1 TACTGTATACGTGAATAG
4980667 TACTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
*
4980685 TGCTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
4980703 TAC
1 TAC
4980706 CGTAAACGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 13 0.22
17 14 0.23
18 33 0.55
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:4987808 original size:16 final size:17
Alignment explanation
Indices: 4987773--4987831 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
4987763 ATTATAAAAC
4987773 TATTTTATTATAAGTAT
1 TATTTTATTATAAGTAT
4987790 TATTTTAATTAT-A-TAT
1 TATTTT-ATTATAAGTAT
*
4987806 TATTATTACTTATTATGTAT
1 TATT-TTA-TTA-TAAGTAT
4987826 TATTTT
1 TATTTT
4987832 TCTTAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 8 0.23
17 12 0.34
18 6 0.17
19 2 0.06
20 7 0.20
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (17 bp):
TATTTTATTATAAGTAT
Found at i:4987813 original size:54 final size:54
Alignment explanation
Indices: 4987719--4987821 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
4987709 TCTATATATA
** * * *
4987719 TATTTTATTATTTGTTTTATTTTAATTTTACTTTTATATTA-TATATTATAAAAC
1 TATTTTATTATAAGTATTATTTTAATTATACTATTATATTACT-TATTATAAAAC
4987773 TATTTTATTATAAGTATTATTTTAATTATA-TATTATTATTACTTATTAT
1 TATTTTATTATAAGTATTATTTTAATTATACTATTA-TATTACTTATTAT
4987822 GTATTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
53 4 0.10
54 37 0.88
55 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (54 bp):
TATTTTATTATAAGTATTATTTTAATTATACTATTATATTACTTATTATAAAAC
Found at i:4987820 original size:20 final size:18
Alignment explanation
Indices: 4987773--4987829 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
4987763 ATTATAAAAC
*
4987773 TATTTTATTATA-AGTAT
1 TATTTTATTATATATTAT
4987790 TATTTTAATTATATATTAT
1 TATTTT-ATTATATATTAT
*
4987809 TATTACTTATTATGTATTAT
1 TATT--TTATTATATATTAT
4987829 T
1 T
4987830 TTTCTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 6 0.18
18 6 0.18
19 8 0.24
20 12 0.35
21 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TATTTTATTATATATTAT
Found at i:4987930 original size:14 final size:13
Alignment explanation
Indices: 4987893--4987995 Score: 54
Period size: 12 Copynumber: 7.7 Consensus size: 13
4987883 GTATTAATTA
4987893 TATATATATTATTT
1 TATAT-TATTATTT
*
4987907 TATA-TGTTATTT
1 TATATTATTATTT
4987919 TATATCTATTATTT
1 TATAT-TATTATTT
*
4987933 T-TCTTA-TATGTT
1 TATATTATTAT-TT
*
4987945 TATATTA-CATTT
1 TATATTATTATTT
*
4987957 TAT-TATATAATCTT
1 TATAT-TATTAT-TT
*
4987971 TATTATGTTTTATTTT
1 TA-TAT-TATTA-TTT
4987987 TATATTATT
1 TATATTATT
4987996 TATTGTTTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
11 4 0.06
12 23 0.33
13 10 0.14
14 19 0.28
15 4 0.06
16 8 0.12
17 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (13 bp):
TATATTATTATTT
Found at i:4991198 original size:22 final size:22
Alignment explanation
Indices: 4991170--4991215 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
4991160 AATATTGTTG
*
4991170 TGGGTATCACGATAGCGATGCC
1 TGGGTATCACGATACCGATGCC
*
4991192 TGGGTATCACGATACCGCTGCC
1 TGGGTATCACGATACCGATGCC
4991214 TG
1 TG
4991216 ACGGGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (22 bp):
TGGGTATCACGATACCGATGCC
Found at i:5003632 original size:93 final size:93
Alignment explanation
Indices: 5003499--5003670 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
5003489 CGCCCATAAG
* * *
5003499 CGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCCCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
5003564 ACGAGTTCGGATGCCTAGTTATATTTCA
66 ACGAGTTCGGATGCCTAGTTATATTTCA
* *
5003592 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
5003657 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
5003671 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTATATTTCA
Found at i:5003667 original size:46 final size:45
Alignment explanation
Indices: 5003492--5003667 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
5003482 TGTAACCCGC
* * * * *
5003492 CCATAAGCGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCCCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-CCAT
*
5003538 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCC-A-T
* **
5003583 -TATATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT---GAACTCGGACTCAACTCAACGAGTTCGGACATTC-CAT
5003631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5003668 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 2 0.02
44 6 0.06
45 1 0.01
46 62 0.57
47 28 0.26
48 1 0.01
49 8 0.07
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCCAT
Found at i:5009864 original size:17 final size:18
Alignment explanation
Indices: 5009824--5009870 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
5009814 AGAACAAAGA
*
5009824 AAAAGAAAATTAGTAAATT
1 AAAATAAAATTAG-AAATT
*
5009843 GAAATAAAATTA-AAATT
1 AAAATAAAATTAGAAATT
*
5009860 AAAATTAAATT
1 AAAATAAAATT
5009871 GCAAGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 14 0.58
19 10 0.42
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (18 bp):
AAAATAAAATTAGAAATT
Found at i:5022341 original size:29 final size:27
Alignment explanation
Indices: 5022278--5022346 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 27
5022268 CCTAAAGATG
*
5022278 AAATAAAAATAATCTTAAAGAGAAATA
1 AAATAAAAGTAATCTTAAAGAGAAATA
5022305 AAATTAAAAGTAAT-TTAAAGAGATAAATA
1 AAA-TAAAAGTAATCTTAAAGAG--AAATA
5022334 AAGATAAAAGTAA
1 AA-ATAAAAGTAA
5022347 AAAGACTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 11 0.30
28 9 0.24
29 16 0.43
30 1 0.03
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.23
Consensus pattern (27 bp):
AAATAAAAGTAATCTTAAAGAGAAATA
Found at i:5025684 original size:16 final size:15
Alignment explanation
Indices: 5025663--5025697 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
5025653 AATATAAACA
5025663 AAATTGAAATAAAATT
1 AAATTGAAATAAAA-T
*
5025679 AAATTGCAATAAAAT
1 AAATTGAAATAAAAT
5025694 AAAT
1 AAAT
5025698 GGCTAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATTGAAATAAAAT
Found at i:5026370 original size:312 final size:312
Alignment explanation
Indices: 5025773--5026378 Score: 816
Period size: 312 Copynumber: 1.9 Consensus size: 312
5025763 GATTGCTGCA
*
5025773 TGATAAGTTTTATATTTATGACTAATCGTACTTGAAAACTAACTATTATCACGATAAAGGCAAGC
1 TGATAAGTTTTATATTTATGAATAATCGTACTTGAAAACTAACTATTATCACGATAAAGGCAAGC
* * *
5025838 GTACCTATCGAACAGTAGTATAGTTTATAGCAAGACTGGATGTCGAACCCACAGGAACTAAAAGT
66 GTACCTATCAAACAATAGTATAGTTTATAGCAAGACTGGATGTCGAACCCAAAGGAACTAAAAGT
* * * *
5025903 ACTAGCAGTAACCTTTTTTTTTATTATCTAGCCTAAAAATAAGGGGATTTGTTTTATCTAAACTA
131 ACTAGCAATAACCTGTCTTTTTATTATCTAGCCTAAAAATAAGGGGATTTGTTTTAACTAAACTA
* *
5025968 ATTAATTAAACTAAGAATGCACAGAAAGTAAATTGGGGAAAAACTTTTTGGAAAACTGATTGACT
196 ATTAACTAAACTAAGAATGCACAGAAAGTAAATTGGGGAAAAACTTTTTGGAAAACTGATTGAAT
*
5026033 TAGATAATACCCAAGAAAGAATCCACCTAGACTTCTGATCGCGATTCTCGTG
261 TAGACAATACCCAAGAAAGAATCCACCTAGACTTCTGATCGCGATTCTCGTG
* * * **
5026085 TGATAAGTTTTAAATATTTAT-AATGAATCGTTCTT-AGAACTAACTATTATCATGATGTAGG-A
1 TGATAAGTTTT--ATATTTATGAAT-AATCGTACTTGAAAACTAACTATTATCACGATAAAGGCA
* *
5026147 TAGTGTACCTATCAAACAATAGTATCGTTT-TAGCAAGACTGGATTGTCGAACCCAAAGGAACTA
63 -AGCGTACCTATCAAACAATAGTATAGTTTATAGCAAGACTGGA-TGTCGAACCCAAAGGAACTA
* * *
5026211 AAAGTACTAGTAATGA-CTGTCTTTTTATTATCTAGCCTAAAAATAAGAGGGTTTTGTTTTAACT
126 AAAGTACTAGCAATAACCTGTCTTTTTATTATCTAGCCTAAAAATAAG-GGGATTTGTTTTAACT
* * * * **
5026275 -AACTAATTACCTAAACTAAGAATTCACAGAGAGTAGAATTGGGGGATTAC-TTTTGGAAAAC-G
190 AAACTAATTAACTAAACTAAGAATGCACAGAAAGTA-AATTGGGGAAAAACTTTTTGGAAAACTG
*
5026337 ATTGAATTAAGACAATACCTAAGGAAA-AATCCACCTAGACTT
254 ATTGAATT-AGACAATACCCAA-GAAAGAATCCACCTAGACTT
5026379 TACTTGTTAT
Statistics
Matches: 257, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
311 8 0.03
312 122 0.47
313 110 0.43
314 17 0.07
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (312 bp):
TGATAAGTTTTATATTTATGAATAATCGTACTTGAAAACTAACTATTATCACGATAAAGGCAAGC
GTACCTATCAAACAATAGTATAGTTTATAGCAAGACTGGATGTCGAACCCAAAGGAACTAAAAGT
ACTAGCAATAACCTGTCTTTTTATTATCTAGCCTAAAAATAAGGGGATTTGTTTTAACTAAACTA
ATTAACTAAACTAAGAATGCACAGAAAGTAAATTGGGGAAAAACTTTTTGGAAAACTGATTGAAT
TAGACAATACCCAAGAAAGAATCCACCTAGACTTCTGATCGCGATTCTCGTG
Found at i:5035377 original size:27 final size:29
Alignment explanation
Indices: 5035328--5035383 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
5035318 TTTTTTTTTA
*
5035328 GGTTTTATATATATAATGATTATTATTAT
1 GGTTTTATATATATAATGATTATGATTAT
5035357 GGTTTTATAT-TA-AATTG-TTATGATTAT
1 GGTTTTATATATATAA-TGATTATGATTAT
5035384 TTAATTGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 11 0.44
28 4 0.16
29 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (29 bp):
GGTTTTATATATATAATGATTATGATTAT
Found at i:5035741 original size:14 final size:14
Alignment explanation
Indices: 5035717--5035749 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5035707 AAGAATTAAG
5035717 GAAACAAAGAAACA
1 GAAACAAAGAAACA
5035731 -AAACAAAAGAAACA
1 GAAAC-AAAGAAACA
5035745 GAAAC
1 GAAAC
5035750 GAAGCAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
GAAACAAAGAAACA
Found at i:5039622 original size:19 final size:19
Alignment explanation
Indices: 5039598--5039643 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
5039588 TCATTATTAT
* *
5039598 TATTTTATTTTATTTTTTC
1 TATTTTATTTCATTTATTC
*
5039617 TATTTTGTTTCATTTATTC
1 TATTTTATTTCATTTATTC
5039636 TATTTTAT
1 TATTTTAT
5039644 AATTCCTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (19 bp):
TATTTTATTTCATTTATTC
Found at i:5041356 original size:6 final size:6
Alignment explanation
Indices: 5041347--5041397 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
5041337 TGTTTTTAAC
* *
5041347 TTTATT TTTATT TTTATT TTTATT TTTATG GTTA-T TTTACTT TTATATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TT-TATT
5041396 TT
1 TT
5041398 GAATTATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
5 3 0.08
6 26 0.68
7 7 0.18
8 2 0.05
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:5041360 original size:18 final size:18
Alignment explanation
Indices: 5041334--5041375 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5041324 GTCCATTTGC
*
5041334 TTTTGTTTTTAACTTTAT
1 TTTTATTTTTAACTTTAT
**
5041352 TTTTATTTTTATTTTTAT
1 TTTTATTTTTAACTTTAT
5041370 TTTTAT
1 TTTTAT
5041376 GGTTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTATTTTTAACTTTAT
Found at i:5045655 original size:31 final size:31
Alignment explanation
Indices: 5045591--5045657 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
5045581 CAGTATCCGG
* * *
5045591 TGACTTAAGTAAAAATTTTTGAATAATTTAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
5045622 TGACTTAAATAAAAACTTTTGAATAGA-TCAA
1 TGACTTAAATAAAAACTTTTGAATA-ATTCAA
5045653 TGACT
1 TGACT
5045658 ATTTTGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAA
Found at i:5046891 original size:26 final size:26
Alignment explanation
Indices: 5046852--5046959 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
5046842 TGATACAAAT
*
5046852 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
5046878 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5046904 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
5046929 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5046955 TGATA
1 TGATA
5046960 GAAATTCATG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5046957 original size:51 final size:52
Alignment explanation
Indices: 5046852--5046959 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 52
5046842 TGATACAAAT
5046852 TGATAACGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAACGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * * *
5046904 TGATAATGGGTTAGGTAAATGTT-CATGATAATGGTTTAGGTAAATGTTTCA
1 TGATAACGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
5046955 TGATA
1 TGATA
5046960 GAAATTCATG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 30 0.58
52 22 0.42
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAACGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:5048976 original size:136 final size:136
Alignment explanation
Indices: 5048732--5049016 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
5048722 GAGTAGTCTC
5048732 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
5048797 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
5048862 CTGTTA
131 CTGTTA
5048868 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
5048933 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
5048998 CTGTTA
131 CTGTTA
**
5049004 CCTGAATGGGCTT
1 CCCAAATGGGCTT
5049017 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:5052862 original size:25 final size:25
Alignment explanation
Indices: 5052773--5052876 Score: 133
Period size: 25 Copynumber: 4.2 Consensus size: 25
5052763 TGATACAAAT
* **
5052773 TGATAATGGTTAGGT-AA-GGTAAA
1 TGATAATGGTTAGGTAAATGTTTCA
* *
5052796 TGATAATGG-TAGGTAAATATTCCA
1 TGATAATGGTTAGGTAAATGTTTCA
5052820 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
5052846 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTTCA
5052871 TGATAA
1 TGATAA
5052877 GAATTCATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.07
23 11 0.15
24 9 0.13
25 26 0.37
26 20 0.28
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:5054619 original size:21 final size:21
Alignment explanation
Indices: 5054593--5054640 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
5054583 ATTCCCCACA
5054593 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
5054614 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
5054635 TTGAGT
1 TGGAGT
5054641 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:5054890 original size:136 final size:135
Alignment explanation
Indices: 5054647--5054930 Score: 532
Period size: 136 Copynumber: 2.1 Consensus size: 135
5054637 GAGTAGTCTC
5054647 CCCAAATGGGCTTGCATATGTTATTGTGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCCAAATGGGCTTGCATATGTTATTGTGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
5054712 TTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
5054777 TGTTA
131 TGTTA
5054782 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTG-TGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
5054847 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
65 GTTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
5054912 CTGTTA
130 CTGTTA
**
5054918 CCTGAATGGGCTT
1 CCCAAATGGGCTT
5054931 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
135 26 0.18
136 119 0.82
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGTTATTGTGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:5058086 original size:19 final size:19
Alignment explanation
Indices: 5058064--5058120 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
5058054 TAGAACGATA
5058064 AAAATTCTAAAAATTATTT
1 AAAATTCTAAAAATTATTT
* *
5058083 AAAAATCATAAAACTTA-TT
1 AAAATTC-TAAAAATTATTT
*
5058102 AAAATAT-AAAAAATTATTT
1 AAAAT-TCTAAAAATTATTT
5058121 TTTGTTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 7 0.23
19 14 0.47
20 9 0.30
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCTAAAAATTATTT
Found at i:5058087 original size:20 final size:19
Alignment explanation
Indices: 5058062--5058119 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
5058052 ATTAGAACGA
5058062 TAAAAATTC-TAAAAATTATT
1 TAAAAA-TCATAAAAATTA-T
*
5058082 TAAAAATCATAAAACTTAT
1 TAAAAATCATAAAAATTAT
5058101 T-AAAAT-ATAAAAAATTAT
1 TAAAAATCAT-AAAAATTAT
5058119 T
1 T
5058120 TTTTGTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 14 0.41
19 4 0.12
20 14 0.41
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAATCATAAAAATTAT
Found at i:5060556 original size:24 final size:24
Alignment explanation
Indices: 5060519--5060589 Score: 110
Period size: 23 Copynumber: 3.0 Consensus size: 24
5060509 TACCAATATA
5060519 TCAGCTCG-TAAGAGCTTACTGTTT
1 TCAGCTCGAT-AGAGCTTACTGTTT
5060543 TCAGCTCGATAGAGCTTACTG-TT
1 TCAGCTCGATAGAGCTTACTGTTT
*
5060566 TCAGCTCAATAGAGCTTACTGTTT
1 TCAGCTCGATAGAGCTTACTGTTT
5060590 ATTAGCTCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 22 0.50
24 21 0.48
25 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (24 bp):
TCAGCTCGATAGAGCTTACTGTTT
Found at i:5060602 original size:23 final size:24
Alignment explanation
Indices: 5060529--5060609 Score: 110
Period size: 23 Copynumber: 3.3 Consensus size: 24
5060519 TCAGCTCGTA
*
5060529 AGAGCTTACTGTTTTCAGCTCGAT
1 AGAGCTTACTGTTTTCAGCTCAAT
5060553 AGAGCTTACTG-TTTCAGCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
* *
5060576 AGAGCTTACTGTTTATTAGCTCAAG
1 AGAGCTTACTGTTT-TCAGCTCAAT
5060601 AGGAGCTTA
1 A-GAGCTTA
5060610 TCGATCATGG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
23 22 0.43
24 13 0.25
25 9 0.18
26 7 0.14
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCAAT
Found at i:5060781 original size:20 final size:20
Alignment explanation
Indices: 5060756--5060814 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
5060746 ATAAGCTATG
*
5060756 TTGAAATTAATGAATTACTA
1 TTGAAATGAATGAATTACTA
5060776 TTGAAATGAATGAATTACTA
1 TTGAAATGAATGAATTACTA
* * *
5060796 TGGATATGGATGAATTACT
1 TTGAAATGAATGAATTACT
5060815 GTTATTTCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGAAATGAATGAATTACTA
Found at i:5060847 original size:20 final size:20
Alignment explanation
Indices: 5060785--5060877 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 20
5060775 ATTGAAATGA
* *
5060785 ATGAATTACTA-TGGATATGG
1 ATGAATTACTAGT-TATAAGG
***
5060805 ATGAATTACT-GTTATTTCTG
1 ATGAATTACTAGTTA-TAAGG
*
5060825 ATGAATTACTGGTTATAAGG
1 ATGAATTACTAGTTATAAGG
* * *
5060845 ATGAACTACTAGTTATATGA
1 ATGAATTACTAGTTATAAGG
5060865 ATGAATTAC-AGTT
1 ATGAATTACTAGTT
5060878 TATACGAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
19 5 0.09
20 49 0.84
21 4 0.07
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (20 bp):
ATGAATTACTAGTTATAAGG
Found at i:5068601 original size:26 final size:26
Alignment explanation
Indices: 5068564--5068699 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
5068554 TGATACAAAT
* *
5068564 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5068590 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
5068616 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5068642 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5068668 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5068694 TGATAA
1 TGATAA
5068700 GAATTCATGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:5074424 original size:26 final size:26
Alignment explanation
Indices: 5074394--5074528 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
5074384 TGATACAAAT
*
5074394 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5074420 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5074445 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5074471 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5074497 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5074523 TGATAA
1 TGATAA
5074529 GAATTCATGT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5080250 original size:50 final size:50
Alignment explanation
Indices: 5080196--5080327 Score: 214
Period size: 50 Copynumber: 2.6 Consensus size: 50
5080186 TGATACAAAT
5080196 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGT--ATGTTTCA
5080246 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTATGTTTCA
* *
5080296 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
5080328 GAATATCATG
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
49 3 0.04
50 67 0.86
51 8 0.10
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (50 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTATGTTTCA
Found at i:5080283 original size:26 final size:26
Alignment explanation
Indices: 5080196--5080327 Score: 200
Period size: 26 Copynumber: 5.2 Consensus size: 26
5080186 TGATACAAAT
5080196 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
5080222 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
5080246 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
5080272 TGATAATGGGTTAGGT--ATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
5080296 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
5080322 TGATAA
1 TGATAA
5080328 GAATATCATG
Statistics
Matches: 100, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
24 32 0.32
25 30 0.30
26 38 0.38
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:5084280 original size:13 final size:13
Alignment explanation
Indices: 5084262--5084286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5084252 TGTCTCGCAG
5084262 TGATTCCAGGCCA
1 TGATTCCAGGCCA
5084275 TGATTCCAGGCC
1 TGATTCCAGGCC
5084287 TCGAATCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (13 bp):
TGATTCCAGGCCA
Found at i:5087331 original size:26 final size:26
Alignment explanation
Indices: 5087294--5087377 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
5087284 TGATACAAAT
* *
5087294 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5087320 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5087346 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5087372 TGATAA
1 TGATAA
5087378 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:5093087 original size:26 final size:26
Alignment explanation
Indices: 5093050--5093185 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
5093040 TGATACAAAT
* *
5093050 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5093076 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
5093102 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5093128 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5093154 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5093180 TGATAA
1 TGATAA
5093186 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:5100013 original size:12 final size:13
Alignment explanation
Indices: 5099986--5100014 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5099976 CTTTATCTAT
5099986 TTATTTTATAATA
1 TTATTTTATAATA
5099999 TTATTTTAT-ATA
1 TTATTTTATAATA
5100011 TTAT
1 TTAT
5100015 GTAATTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTTTATAATA
Found at i:5101822 original size:15 final size:17
Alignment explanation
Indices: 5101791--5101822 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
5101781 AATTACTTTG
5101791 TTTAGATAAATAATTAT
1 TTTAGATAAATAATTAT
5101808 TTTA-ATAAA-AATTAT
1 TTTAGATAAATAATTAT
5101823 GTTATTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAGATAAATAATTAT
Found at i:5102692 original size:21 final size:19
Alignment explanation
Indices: 5102661--5102705 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
5102651 GTGGCCGGAG
5102661 CTCCCCCTCCCCTCTTTTCT
1 CTCCCCCT-CCCTCTTTTCT
*
5102681 TTCCCCGCTCCCTCTTTTCT
1 CTCCCC-CTCCCTCTTTTCT
5102701 CTCCC
1 CTCCC
5102706 TCCCCTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (19 bp):
CTCCCCCTCCCTCTTTTCT
Found at i:5102717 original size:19 final size:18
Alignment explanation
Indices: 5102665--5102717 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
5102655 CCGGAGCTCC
*
5102665 CCCTCCCCTCTTTTCTTT
1 CCCTCCCCTCTTTTCTCT
*
5102683 CCCCGCTCCCTCTTTTCTCT
1 -CCCTC-CCCTCTTTTCTCT
5102703 CCCTCCCCTTCTTTT
1 CCCTCCCC-TCTTTT
5102718 TTTTCTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 12 0.41
ACGTcount: A:0.00, C:0.53, G:0.02, T:0.45
Consensus pattern (18 bp):
CCCTCCCCTCTTTTCTCT
Found at i:5103679 original size:23 final size:22
Alignment explanation
Indices: 5103647--5103692 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
5103637 ATAAGTTTTA
5103647 ATTATTATATTTT-ATATATATT
1 ATTATTATATTTTAATAT-TATT
5103669 ATTATGTATATTTTAATATTATT
1 ATTAT-TATATTTTAATATTATT
5103692 A
1 A
5103693 GGTATCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTATTATATTTTAATATTATT
Found at i:5103705 original size:23 final size:22
Alignment explanation
Indices: 5103652--5103697 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
5103642 TTTTAATTAT
*
5103652 TATATTTTATATATATTATTATG
1 TATATTTT-TATATATTATTAGG
5103675 TATA-TTTTA-ATATTATTAGG
1 TATATTTTTATATATTATTAGG
5103695 TAT
1 TAT
5103698 CTATTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 3 0.14
23 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TATATTTTTATATATTATTAGG
Found at i:5114357 original size:71 final size:72
Alignment explanation
Indices: 5114241--5114383 Score: 175
Period size: 71 Copynumber: 2.0 Consensus size: 72
5114231 GTTTTCCAAG
* * *
5114241 AAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGT-TGAGGTAATTTCAATTTA
1 AAAATCAACCCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGTCTGAGGTAATTTCAATTTA
5114305 TGTTTCA
66 TGTTTCA
* * *
5114312 AAAATCAACCCATATTGCAAGA-AGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCAAT
1 AAAATCAACCCATATTGCAAGAGA-TGAGTTGAGCCTCAAG-ACACGT-CTGAGGTAATTTCAAT
*
5114375 TTCTGTTTC
63 TTATGTTTC
5114384 TGTTTGTCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
70 2 0.03
71 37 0.61
73 22 0.36
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (72 bp):
AAAATCAACCCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGTCTGAGGTAATTTCAATTTA
TGTTTCA
Found at i:5114445 original size:80 final size:79
Alignment explanation
Indices: 5114146--5115152 Score: 595
Period size: 89 Copynumber: 12.5 Consensus size: 79
5114136 TTTTGTTTTT
* * * *
5114146 TTTTCAAAAATCAACCCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GTCACGTTGAGGTATTTTCA
5114211 ATTTCTGCTTTTTAATTCATG
65 ATTTCTG----TT--TTCATG
* * *
5114232 TTTTCCAAGAAAATCAGCTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
1 TTTT-C-A-AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTC-AGTCACGTTGAGGTATT
5114296 TTCAA-------TTT-ATG
61 TTCAATTTCTGTTTTCATG
* * *
5114307 -TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-TCACGT--TGAGGTATTTT
5114371 CAATTTCTG-TTTC-TG
63 CAATTTCTGTTTTCATG
* *
5114386 TTTGTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTCAGTCACATATCGAGGTATTT
1 TTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC-TCAGTCACGT-T-GAGGTATTT
** *
5114450 TCAAAATCTGCTTTTCAAG
62 TCAATTTCTG-TTTTCATG
* *
5114469 TTAAGTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
1 -T---TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GTCACGTTGAGGTAT
5114534 TTTCAATTTCTGCTTTTCAATTCATG
60 TTTCAATTTCTG---TT---TTCATG
* * *
5114560 TTTTTCAAGAAAATCAGCTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
1 -TTTTC-A-AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTC-AGTCACGTTGAGGTATT
5114624 TTCAA-------TTT-ATG
61 TTCAATTTCTGTTTTCATG
** * *
5114635 -TTTCAAAAATCAACTCATATTGTAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GTCACGTTGAGGTATTTTCA
5114699 ATTTCTGCTTTTCAATTCATG
65 ATTTCTG---TT---TTCATG
* * *
5114720 TTTTCCAAGAAAATCAGCTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
1 TTTT-C-A-AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTC-AGTCACGTTGAGGTATT
5114784 TTCAA-------TTT-ATG
61 TTCAATTTCTGTTTTCATG
* * *
5114795 -TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-TCACGT--TGAGGTATTTT
5114859 CAATTTCTG-TTTC-TG
63 CAATTTCTGTTTTCATG
* * *
5114874 TTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGTCACATATCGAGGTATTT
1 TTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC-TCAGTCACGT-T-GAGGTATTT
** *
5114938 TCAAAATCTGCTTTTCAAG
62 TCAATTTCTG-TTTTCATG
* ** *
5114957 TTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCT
1 -T---TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-TCACGT--TGAGGT
5115022 ATTTTCAATTTCTG----C---
58 ATTTTCAATTTCTGTTTTCATG
* * * **
5115037 TTTTCAAAAGAATCAACTCATATTGCGAG-TGATGAGTTGAGCCTCGGGTCACACGCTGAGGCGT
1 TTTTC-AAA-AATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTC-AGT--CACGTTGAGGTAT
*
5115101 TTTCAATTTC-----T-A-C
60 TTTCAATTTCTGTTTTCATG
*
5115114 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
5115153 TCTCGGGCCA
Statistics
Matches: 749, Mismatches: 77, Indels: 201
0.73 0.07 0.20
Matches are distributed among these distances:
70 3 0.00
71 121 0.16
72 9 0.01
73 32 0.04
74 6 0.01
75 37 0.05
76 19 0.03
77 52 0.07
78 2 0.00
79 19 0.03
80 111 0.15
81 11 0.01
82 8 0.01
83 3 0.00
84 4 0.01
85 3 0.00
86 28 0.04
87 12 0.02
88 109 0.15
89 150 0.20
90 3 0.00
91 7 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTCACGTTGAGGTATTTTCAA
TTTCTGTTTTCATG
Found at i:5114505 original size:168 final size:159
Alignment explanation
Indices: 5114147--5115189 Score: 783
Period size: 160 Copynumber: 6.5 Consensus size: 159
5114137 TTTGTTTTTT
* * * *
5114147 TTTCAAAAATCAACCCATATTGCGAGAAGTGAGTTAAGCCTCAGG-GCAC--GCTGAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTT
*
5114209 CAATTTCTGCTTTTTAATTCATGTTT-TCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGA
65 CAATTTCTG----TT-ATTCATGTTTGT-C-A-AAAATCAACTCATATTGCGAGAGATGAGTTGA
* *
5114273 GCCTCAAGACACGTTGAGGTAATTTCAATTT--A-T-G
122 ACCTCAAGACACATTGAGGTAATTTCAATTTCAATTAG
*
5114307 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTC
5114372 AATTTCTG-T-TTC-TGTTTGTC-AAAATCAACTCATATTGCGAGA-AGTGAGTTGAACCTTC-A
66 AATTTCTGTTATTCATGTTTGTCAAAAATCAACTCATATTGCGAGAGA-TGAGTTGAACC-TCAA
* *
5114431 GTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAG
129 GACACAT-T-GAGGTAATTTC--AA------TTTCAA-TT-AG
* *
5114474 TTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTT
1 TTTC-AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTT
* *
5114536 TCAATTTCTGCTTTTCAATTCATGTTTTTCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGA
64 TCAATTTCTG---TT--ATTCATGTTTGTC-A-AAAATCAACTCATATTGCGAGAGATGAGTTGA
* *
5114601 GCCTCAAGACACGTTGAGGTAATTTCAATTT--A-T-G
122 ACCTCAAGACACATTGAGGTAATTTCAATTTCAATTAG
* *
5114635 TTTCAAAAATCAACTCATATTGTAAGAAGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTT
*
5114697 CAATTTCTGCTTTTCAATTCATGTTT-TCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGA
65 CAATTTCTG---TT--ATTCATGTTTGT-C-A-AAAATCAACTCATATTGCGAGAGATGAGTTGA
* *
5114761 GCCTCAAGACACGTTGAGGTAATTTCAATTT--A-T-G
122 ACCTCAAGACACATTGAGGTAATTTCAATTTCAATTAG
*
5114795 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTC
*
5114860 AATTTCTG-T-TTC-TGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTC-AG
66 AATTTCTGTTATTCATGTTTGTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAACC-TCAAG
* *
5114920 TCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAG
130 ACACAT-T-GAGGTAATTTC--AA------TTTCAA-TT-AG
* * ** *
5114962 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTT
1 TTTC-AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTT
* * *
5115027 CAATTTCTG-----C---TTT-TCAAAAGAATCAACTCATATTGCGAGTGATGAGTTGAGCCTCG
65 CAATTTCTGTTATTCATGTTTGTC-AAA-AATCAACTCATATTGCGAGAGATGAGTTGAACCTCA
* ** *** * *
5115083 GGTCACACGCTGAGGCGTTTTCAATTTCTACT--
128 AG--ACACATTGAGGTAATTTCAATTTCAATTAG
* * * *** *
5115115 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC-CACACACTGAGGTCTTTT
1 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTT
*
5115179 CAAATTCTGTT
65 CAATTTCTGTT
5115190 CTTAATTTCT
Statistics
Matches: 760, Mismatches: 54, Indels: 144
0.79 0.06 0.15
Matches are distributed among these distances:
150 1 0.00
151 75 0.10
152 63 0.08
153 26 0.03
154 12 0.02
155 12 0.02
156 1 0.00
157 6 0.01
158 1 0.00
159 5 0.01
160 238 0.31
161 11 0.01
162 46 0.06
163 8 0.01
164 4 0.01
165 44 0.06
166 23 0.03
167 16 0.02
168 102 0.13
169 2 0.00
170 1 0.00
173 5 0.01
174 7 0.01
175 10 0.01
176 3 0.00
177 37 0.05
178 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (159 bp):
TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTC
AATTTCTGTTATTCATGTTTGTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGA
CACATTGAGGTAATTTCAATTTCAATTAG
Found at i:5114665 original size:160 final size:160
Alignment explanation
Indices: 5114147--5114867 Score: 961
Period size: 160 Copynumber: 4.4 Consensus size: 160
5114137 TTTGTTTTTT
* *
5114147 TTTCAAAAATCAACCCATATTGCGAGAAGTGAGTTAAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
5114212 TTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCT
66 TTTCTGCTTTTCAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCT
5114277 CAAGACACGTTGAGGTAATTTCAATTTATG
131 CAAGACACGTTGAGGTAATTTCAATTTATG
*
5114307 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTT
1 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTT
*
5114371 CAATTTCTG----T---TTC-TGTTTGT-C---AAAATCAACTCATATTGCGAGA-AGTGAGTTG
63 CAATTTCTGCTTTTCAATTCATGTTT-TCCAAGAAAATCAGCTCATATTGCGAGAGA-TGAGTTG
* * * *
5114423 AACCTTC-AGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAG
126 AGCC-TCAAGACACGT-T-GAGGTAATTTC--AA------TTT--A--T--G
* *
5114474 TTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
1 TTTC-AAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
*
5114539 ATTTCTGCTTTTCAATTCATGTTTTTCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCC
65 ATTTCTGCTTTTCAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCC
5114604 TCAAGACACGTTGAGGTAATTTCAATTTATG
130 TCAAGACACGTTGAGGTAATTTCAATTTATG
* *
5114635 TTTCAAAAATCAACTCATATTGTAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
5114700 TTTCTGCTTTTCAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCT
66 TTTCTGCTTTTCAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCT
5114765 CAAGACACGTTGAGGTAATTTCAATTTATG
131 CAAGACACGTTGAGGTAATTTCAATTTATG
*
5114795 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTT
1 TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTT
5114859 CAATTTCTG
63 CAATTTCTG
5114868 TTTCTGTTTG
Statistics
Matches: 498, Mismatches: 22, Indels: 80
0.83 0.04 0.13
Matches are distributed among these distances:
150 1 0.00
151 37 0.07
152 3 0.01
153 10 0.02
154 6 0.01
155 6 0.01
158 1 0.00
159 4 0.01
160 239 0.48
161 8 0.02
162 44 0.09
163 2 0.00
165 2 0.00
166 22 0.04
167 8 0.02
168 39 0.08
169 2 0.00
170 1 0.00
173 6 0.01
174 6 0.01
175 10 0.02
176 3 0.01
177 37 0.07
178 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (160 bp):
TTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTCTGCTTTTCAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCT
CAAGACACGTTGAGGTAATTTCAATTTATG
Found at i:5114668 original size:71 final size:71
Alignment explanation
Indices: 5114569--5114702 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 71
5114559 GTTTTTCAAG
* * *
5114569 AAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
5114634 GTTTCA
66 GTTTCA
* * * *
5114640 AAAATCAACTCATATTGTAAGA-AGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGA-TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
5114703 CTGCTTTTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 1 0.02
71 54 0.98
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (71 bp):
AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:5114828 original size:71 final size:72
Alignment explanation
Indices: 5114729--5114871 Score: 175
Period size: 71 Copynumber: 2.0 Consensus size: 72
5114719 GTTTTCCAAG
* * *
5114729 AAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAAG-ACACGT-TGAGGTAATTTCAATTT
1 AAAATCAACCCATATTGCAAGAGATGAGTTGAGCCTC-AGCACACGTCTGAGGTAATTTCAATTT
5114792 ATGTTTCA
65 ATGTTTCA
* * *
5114800 AAAATCAACCCATATTGCAAGA-AGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATT
1 AAAATCAACCCATATTGCAAGAGA-TGAGTTGAGCCTCAGCACACGT-CTGAGGTAATTTCAATT
*
5114864 TCTGTTTC
64 TATGTTTC
5114872 TGTTTGTCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
70 2 0.03
71 37 0.61
73 22 0.36
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (72 bp):
AAAATCAACCCATATTGCAAGAGATGAGTTGAGCCTCAGCACACGTCTGAGGTAATTTCAATTTA
TGTTTCA
Found at i:5115025 original size:88 final size:88
Alignment explanation
Indices: 5114880--5115043 Score: 233
Period size: 88 Copynumber: 1.9 Consensus size: 88
5114870 TCTGTTTGTC
*
5114880 AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGTCACATATCGAGCTATTTTCAAAAT
5114945 CTGCTTTTCAAGTTAAGTTTCAA
66 CTGCTTTTCAAGTTAAGTTTCAA
* * * * *
5114968 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-TGCTCACGT-GCTGAGCTATTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAG-TCACATATC-GAGCTATTTTCAAA
*
5115031 TTCTGCTTTTCAA
64 ATCTGCTTTTCAA
5115044 AAGAATCAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 2 0.03
88 65 0.97
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (88 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGTCACATATCGAGCTATTTTCAAAAT
CTGCTTTTCAAGTTAAGTTTCAA
Found at i:5115104 original size:77 final size:75
Alignment explanation
Indices: 5114962--5115187 Score: 285
Period size: 77 Copynumber: 3.0 Consensus size: 75
5114952 TCAAGTTAAG
** * **
5114962 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGA-GCTATTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGC--TTT
5115026 TCAATTTCTGCT
64 TCAATTTCTGCT
* *
5115038 TTTCAAAAGAATCAACTCATATTGCGAGTGATGAGTTGAGCCTCGGGTCACACGCTGAGGCGTTT
1 TTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGC-TTT
*
5115103 TCAATTTCTACT
64 TCAATTTCTGCT
* * *
5115115 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACACTGAGGTCTTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG-CTTTT
*
5115179 CAAATTCTG
65 CAATTTCTG
5115188 TTCTTAATTT
Statistics
Matches: 131, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
75 57 0.44
76 12 0.09
77 60 0.46
78 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (75 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGCTTTTC
AATTTCTGCT
Found at i:5115212 original size:14 final size:14
Alignment explanation
Indices: 5115174--5115225 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
5115164 ACACTGAGGT
*
5115174 CTTTTCAAATTCTG
1 CTTTTCAATTTCTG
5115188 -TTCTT-AATTTCTG
1 CTT-TTCAATTTCTG
5115201 CTTTTCAATTTCTG
1 CTTTTCAATTTCTG
*
5115215 TTTTTCAATTT
1 CTTTTCAATTT
5115226 ATATTTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 11 0.33
14 22 0.67
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:5115232 original size:14 final size:14
Alignment explanation
Indices: 5115202--5115236 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5115192 TAATTTCTGC
* *
5115202 TTTTCAATTTCTGT
1 TTTTCAATTTATAT
5115216 TTTTCAATTTATAT
1 TTTTCAATTTATAT
5115230 TTTTCAA
1 TTTTCAA
5115237 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:5115233 original size:28 final size:27
Alignment explanation
Indices: 5115174--5115237 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
5115164 ACACTGAGGT
* *
5115174 CTTTTCAAATTCTGTTCTTAATTTCTG
1 CTTTTCAAATTCTGTTCTTAATTTATA
* *
5115201 CTTTTCAATTTCTGTTTTTCAATTTATA
1 CTTTTCAAATTCTGTTCTT-AATTTATA
*
5115229 TTTTTCAAA
1 CTTTTCAAA
5115238 AATCAACTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.58
Consensus pattern (27 bp):
CTTTTCAAATTCTGTTCTTAATTTATA
Found at i:5117566 original size:23 final size:22
Alignment explanation
Indices: 5117534--5117579 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
5117524 ATAAGTTTTA
5117534 ATTATTATATTTT-ATATATATT
1 ATTATTATATTTTAATAT-TATT
5117556 ATTATGTATATTTTAATATTATT
1 ATTAT-TATATTTTAATATTATT
5117579 A
1 A
5117580 GGTATCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTATTATATTTTAATATTATT
Found at i:5117592 original size:23 final size:22
Alignment explanation
Indices: 5117539--5117584 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
5117529 TTTTAATTAT
*
5117539 TATATTTTATATATATTATTATG
1 TATATTTT-TATATATTATTAGG
5117562 TATA-TTTTA-ATATTATTAGG
1 TATATTTTTATATATTATTAGG
5117582 TAT
1 TAT
5117585 CTATTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 3 0.14
23 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TATATTTTTATATATTATTAGG
Found at i:5121086 original size:71 final size:71
Alignment explanation
Indices: 5120999--5121334 Score: 307
Period size: 71 Copynumber: 4.7 Consensus size: 71
5120989 TATTTAGTGC
*** **
5120999 TACTCACT-TGAGTTGTCGAGAATCCACAACATATATTGGATCTTGGCCATTGATAAAGAAAGAT
1 TACTCACTCT-AGTTGTCGAGAATCCACAACATATATTGGATCTCAACCATCAATAAAGAAAGAT
5121063 TTGATGT
65 TTGATGT
* * * * *
5121070 TGCTCACTCTAGTTGTCGAGAATCCACAACATGTGTTTGATCTCAACCATCAATTAAGAAAGATT
1 TACTCACTCTAGTTGTCGAGAATCCACAACATATATTGGATCTCAACCATCAATAAAGAAAGATT
5121135 TGATGT
66 TGATGT
* * * * * * * * **
5121141 TACTCACT-TAAGCTGTCGGGAACCCGCAACATATACTGGATTTTAGCCATTGATAAAGAAAGAT
1 TACTCACTCT-AGTTGTCGAGAATCCACAACATATATTGGATCTCAACCATCAATAAAGAAAGAT
5121205 TTGATGT
65 TTGATGT
* * * * * *** *
5121212 TGCTCACCCAAGTTGTCAAGAATCCATAACATGCGTTGGATCTCAACCATCAATTAAGAAAGATT
1 TACTCACTCTAGTTGTCGAGAATCCACAACATATATTGGATCTCAACCATCAATAAAGAAAGATT
5121277 TGATGT
66 TGATGT
* * * * ** * *
5121283 TATTCACTCAAGCTGTCGAGAATCCGCAACATATGCTAGATCTCAGCCATCA
1 TACTCACTCTAGTTGTCGAGAATCCACAACATATATTGGATCTCAACCATCA
5121335 GATTAATCCC
Statistics
Matches: 206, Mismatches: 56, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
70 1 0.00
71 204 0.99
72 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (71 bp):
TACTCACTCTAGTTGTCGAGAATCCACAACATATATTGGATCTCAACCATCAATAAAGAAAGATT
TGATGT
Found at i:5121255 original size:142 final size:142
Alignment explanation
Indices: 5120999--5121332 Score: 497
Period size: 142 Copynumber: 2.4 Consensus size: 142
5120989 TATTTAGTGC
* * * * *
5120999 TACTCACTTGAGTTGTCGAGAATCCACAACATATATTGGATCTTGGCCATTGATAAAGAAAGATT
1 TACTCACTTAAGCTGTCGAGAATCCGCAACATATACTGGATCTTAGCCATTGATAAAGAAAGATT
* * * * *
5121064 TGATGTTGCTCACTCTAGTTGTCGAGAATCCACAACATGTGTTTGATCTCAACCATCAATTAAGA
66 TGATGTTGCTCACCCAAGTTGTCAAGAATCCACAACATGCGTTGGATCTCAACCATCAATTAAGA
5121129 AAGATTTGATGT
131 AAGATTTGATGT
* * *
5121141 TACTCACTTAAGCTGTCGGGAACCCGCAACATATACTGGATTTTAGCCATTGATAAAGAAAGATT
1 TACTCACTTAAGCTGTCGAGAATCCGCAACATATACTGGATCTTAGCCATTGATAAAGAAAGATT
*
5121206 TGATGTTGCTCACCCAAGTTGTCAAGAATCCATAACATGCGTTGGATCTCAACCATCAATTAAGA
66 TGATGTTGCTCACCCAAGTTGTCAAGAATCCACAACATGCGTTGGATCTCAACCATCAATTAAGA
5121271 AAGATTTGATGT
131 AAGATTTGATGT
* * * * *
5121283 TATTCACTCAAGCTGTCGAGAATCCGCAACATATGCTAGATCTCAGCCAT
1 TACTCACTTAAGCTGTCGAGAATCCGCAACATATACTGGATCTTAGCCAT
5121333 CAGATTAATC
Statistics
Matches: 170, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
142 170 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (142 bp):
TACTCACTTAAGCTGTCGAGAATCCGCAACATATACTGGATCTTAGCCATTGATAAAGAAAGATT
TGATGTTGCTCACCCAAGTTGTCAAGAATCCACAACATGCGTTGGATCTCAACCATCAATTAAGA
AAGATTTGATGT
Found at i:5126613 original size:17 final size:14
Alignment explanation
Indices: 5126588--5126748 Score: 153
Period size: 14 Copynumber: 10.7 Consensus size: 14
5126578 AAAAGGGGGA
5126588 AGCAAAAAAATTTTCC
1 AGCAAAAAAA--TTCC
5126604 AGCAAAAAAATTCC
1 AGCAAAAAAATTCC
*
5126618 AGCAGTAAAAAAATTTTTTC
1 AGC---AAAAAAA---TTCC
5126638 AGCAAAAAAATTCCAGC
1 AGCAAAAAAATT-C--C
5126655 AGCAAAAAAATTCC
1 AGCAAAAAAATTCC
*
5126669 AACAAAAAAATTCC
1 AGCAAAAAAATTCC
*
5126683 AGC-AAAAAATTCT
1 AGCAAAAAAATTCC
* *
5126696 AGCCAAAAAATTTC
1 AGCAAAAAAATTCC
5126710 AGCAAAGAAAATTCC
1 AGCAAA-AAAATTCC
*
5126725 AGCAAAAAATTTCC
1 AGCAAAAAAATTCC
5126739 AGCAAAAAAA
1 AGCAAAAAAA
5126749 ACCAAAAAAG
Statistics
Matches: 123, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
13 12 0.10
14 54 0.44
15 13 0.11
16 11 0.09
17 27 0.22
20 6 0.05
ACGTcount: A:0.55, C:0.19, G:0.08, T:0.19
Consensus pattern (14 bp):
AGCAAAAAAATTCC
Found at i:5126641 original size:34 final size:33
Alignment explanation
Indices: 5126588--5126686 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 33
5126578 AAAAGGGGGA
5126588 AGCAAAAAAATTTTCCAGCAAAAAAATTCCAGC
1 AGCAAAAAAATTTTCCAGCAAAAAAATTCCAGC
* *
5126621 AGTAAAAAAATTTTTTCAGCAAAAAAATTCCAGC
1 AGCAAAAAAA-TTTTCCAGCAAAAAAATTCCAGC
*
5126655 AGCAAAAAAA--TTCCAACAAAAAAATTCCAGC
1 AGCAAAAAAATTTTCCAGCAAAAAAATTCCAGC
5126686 A
1 A
5126687 AAAAATTCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
31 20 0.33
33 9 0.15
34 31 0.52
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (33 bp):
AGCAAAAAAATTTTCCAGCAAAAAAATTCCAGC
Found at i:5127239 original size:31 final size:34
Alignment explanation
Indices: 5127171--5127243 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
5127161 GGGTGATATG
* *
5127171 TTAAGTTAGTGGGTTGGGTTGGTTGTGTTGGGTTTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGTT--GATTA
*
5127207 TTAAGTTAGTGAGTTGGGTTGGTT-TGTATTATTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGT-TGATTA
5127241 TTA
1 TTA
5127244 TTATTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 3 0.09
36 24 0.73
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (34 bp):
TTAAGTTAGTGAGTTGGGTTGGTTGTGTTGATTA
Found at i:5127918 original size:16 final size:17
Alignment explanation
Indices: 5127875--5127919 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
5127865 AAAATTCAGG
5127875 TTTCAAAAATTTTCGTGT
1 TTTC-AAAATTTTCGTGT
5127893 TTTCAAAATTTTCGTGT
1 TTTCAAAATTTTCGTGT
5127910 TTT-AAAATTT
1 TTTCAAAATTT
5127920 CTCATTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.26
17 16 0.59
18 4 0.15
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (17 bp):
TTTCAAAATTTTCGTGT
Found at i:5129270 original size:12 final size:12
Alignment explanation
Indices: 5129253--5129286 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5129243 TCATTTGACG
5129253 TTCATGCATTCA
1 TTCATGCATTCA
*
5129265 TTCATGCATCCA
1 TTCATGCATTCA
*
5129277 TTCATACATT
1 TTCATGCATT
5129287 GCATATCCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.41
Consensus pattern (12 bp):
TTCATGCATTCA
Found at i:5131537 original size:6 final size:6
Alignment explanation
Indices: 5131486--5131518 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
5131476 GACAGTCATG
*
5131486 AAAAGA AAAAGA AAAA-A AAAATA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
5131519 AGACAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:5133776 original size:73 final size:72
Alignment explanation
Indices: 5133675--5133899 Score: 299
Period size: 73 Copynumber: 3.1 Consensus size: 72
5133665 TTGATGTTTT
*
5133675 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGTTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGT
*
5133740 AATTTCA
66 ATTTTCA
* ** * * *
5133747 ATTTCTGTTTGTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGG
5133812 TATTTTCA
65 TATTTTCA
* *
5133820 A-TTCATGCTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCACGCT
1 ATTTC-TG-TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTT
5133884 GAGGTATTTTCA
61 GAGGTATTTTCA
5133896 ATTT
1 ATTT
5133900 TCGTTTTTCA
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
72 13 0.10
73 59 0.45
74 3 0.02
76 53 0.41
77 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGT
ATTTTCA
Found at i:5133908 original size:76 final size:75
Alignment explanation
Indices: 5133687--5133986 Score: 284
Period size: 76 Copynumber: 3.9 Consensus size: 75
5133677 TTCTGTTTTC
* * *
5133687 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGTTGAGGTAATTTCAA-TTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTT
*
5133751 CTGTTTGTC--
66 C-GTTTTTCAA
* ** * * * * *
5133760 AAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAAGACACGTTGAGGTATTTTCAATTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT-T
*
5133825 T-GCTTTTCAAA
65 TCGTTTTTC-AA
*
5133836 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTT
5133901 CGTTTTTCAATTTA
66 CGTTTTTC-A---A
* * *
5133915 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
1 --------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
5133980 TCAATTT
58 TCAATTT
5133987 CTGTTTTCTT
Statistics
Matches: 185, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
73 58 0.31
74 1 0.01
75 2 0.01
76 63 0.34
79 1 0.01
87 60 0.32
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTT
CGTTTTTCAA
Found at i:5133963 original size:87 final size:90
Alignment explanation
Indices: 5133814--5134077 Score: 410
Period size: 90 Copynumber: 2.9 Consensus size: 90
5133804 CGTTGAGGTA
* *
5133814 TTTTCAATTCATGCTTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTCAATTTATGCTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
5133879 ACGCTGAGGTATTTTCAATTTTC-G-T
64 ACGCTGAGGTATTTTCAATTTTCTGTT
* *
5133904 TTTTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
1 TTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
*
5133968 GCTGAGGTAATTTCAA-TTTCTGTT
66 GCTGAGGTATTTTCAATTTTCTGTT
* *
5133992 TTCTTCAATTTATGTTTTTCAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TT-TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
5134057 CGCTGAGGTATTTTCAATTTT
65 CGCTGAGGTATTTTCAATTTT
5134078 TTGCTTTTCA
Statistics
Matches: 159, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
86 4 0.03
87 58 0.36
88 3 0.02
89 16 0.10
90 75 0.47
91 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (90 bp):
TTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
GCTGAGGTATTTTCAATTTTCTGTT
Found at i:5134000 original size:16 final size:16
Alignment explanation
Indices: 5133979--5134009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5133969 CTGAGGTAAT
*
5133979 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
5133995 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
5134010 TCAAAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:5134210 original size:75 final size:74
Alignment explanation
Indices: 5133995--5134269 Score: 337
Period size: 75 Copynumber: 3.7 Consensus size: 74
5133985 TTCTGTTTTC
*
5133995 TTCAATTTATGTTTTTC-AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
5134059 CTGAGGTATT
65 CTGAGGTATT
* * * *
5134069 TTCAATTTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGACAC
1 TTCAA-TTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
*
5134134 GCTGAGGTAAT
64 GCTGAGGTATT
* * *
5134145 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCGGGGCACG
1 TTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
5134210 CTGAGGTATT
65 CTGAGGTATT
* * * ** *
5134220 TTTAGTTTATG--TTC---TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
5134270 TTTAATTTTT
Statistics
Matches: 175, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
69 30 0.17
72 2 0.01
73 1 0.01
74 8 0.05
75 77 0.44
76 57 0.33
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (74 bp):
TTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATT
Found at i:5134419 original size:127 final size:127
Alignment explanation
Indices: 5134164--5134669 Score: 515
Period size: 127 Copynumber: 3.9 Consensus size: 127
5134154 TGTTTGTCAA
* * * * * * *
5134164 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
* ** *
5134229 TG--T-TCTAAATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTTTGTTTTTC
66 TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTTTTCTTTTTC
* * *
5134287 AAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
*
5134352 TGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTTTACTTTTTC
66 TGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTTTT-CTTTTTC
* *
5134415 -AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
**
5134479 TGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
66 TGTTTGTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGA-----A-G---C-CT--TTTAA-
*
5134544 TTCAATTTATATTTTTC
116 -T---TTT-TCTTTTTC
* * * * *
5134561 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTAAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
*
5134626 TGTTT-TCAAAATTCAACTCATATTGCGAGAAGTGAGTTG-AGCCT
66 TGTTTGTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAAGCCT
5134670 CGGCTCACAT
Statistics
Matches: 323, Mismatches: 31, Indels: 47
0.81 0.08 0.12
Matches are distributed among these distances:
123 57 0.18
125 1 0.00
126 3 0.01
127 105 0.33
128 37 0.11
129 2 0.01
133 1 0.00
134 2 0.01
135 1 0.00
138 2 0.01
139 3 0.01
141 3 0.01
143 1 0.00
144 4 0.01
145 26 0.08
146 11 0.03
147 64 0.20
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (127 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTTTTCTTTTTC
Found at i:5134536 original size:74 final size:72
Alignment explanation
Indices: 5134410--5134705 Score: 407
Period size: 74 Copynumber: 4.1 Consensus size: 72
5134400 AATTTTTACT
* *
5134410 TTTTC-AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
5134474 ATTTATG
66 ATTTATG
5134481 TTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TTT-TC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
5134546 CAATTTATAT
64 CAATTTAT-G
* * * *
5134556 TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTAA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
*
5134621 ATTTCTG
66 ATTTATG
* * * *
5134628 TTTTCAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATT
*
5134692 TCAATTTCTG
63 TCAATTTATG
5134702 TTTT
1 TTTT
5134706 TCAATTTCTG
Statistics
Matches: 201, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
71 4 0.02
72 42 0.21
73 61 0.30
74 91 0.45
75 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTATG
Found at i:5134684 original size:147 final size:145
Alignment explanation
Indices: 5134400--5134853 Score: 536
Period size: 147 Copynumber: 3.0 Consensus size: 145
5134390 TGAACCTTTT
* *
5134400 AATTTTTACTTTTTCAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCATGACACGCTGAG
1 AATTTTTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
5134465 GTAATTTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GTAATTTCAATTTATGTTT-TC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
5134530 CACGCTGAGGTAATTTC
129 CACGCTGAGGTAATTTC
* * *
5134547 AATTTATA-TTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 AATTTTTACTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
* * * *
5134611 GGTAATTTAAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCT
65 GGTAATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* *
5134675 CACATGCTGAGGTATTTTC
128 -ACACGCTGAGGTAATTTC
*
5134694 AATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AA------TTTTT--A---CT-TT-TTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * *
5134759 AAGGCACGCTGAGATATTTTCAATTTAT-TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTT
53 AAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
5134823 GAGCCTCAAGACACGTTGATGTATTTTC
118 GAGCCTCAGGACACGCTGAGGTAATTTC
5134851 AAT
1 AAT
5134854 CTCTGTCTTT
Statistics
Matches: 261, Mismatches: 27, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
144 2 0.01
145 36 0.14
146 8 0.03
147 88 0.34
151 1 0.00
153 4 0.02
155 1 0.00
157 17 0.07
159 41 0.16
160 61 0.23
161 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (145 bp):
AATTTTTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTC
Found at i:5134708 original size:14 final size:14
Alignment explanation
Indices: 5134689--5134717 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5134679 TGCTGAGGTA
5134689 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
5134703 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
5134717 T
1 T
5134718 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:5134746 original size:160 final size:159
Alignment explanation
Indices: 5134561--5135034 Score: 503
Period size: 160 Copynumber: 3.0 Consensus size: 159
5134551 TATATTTTTC
* * *
5134561 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTAAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-
* * * *
5134626 TGTTTTCAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATT
65 TGTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACACGCTGAGGTATT
* ******* **
5134691 TTCAATTTCTGTTTTTC-AATTTCTGTTCGT
129 TTCAATTTCTGTCTTTCAAAAAAAAAATCAA
* * * *
5134721 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGATATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-
* * *
5134786 T-TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGATGTATT
65 TGTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACACGCTGAGGTATT
*
5134848 TTCAATCTCTGTCTTTCAAAAAAAAAAAATCAA
129 TTCAATTTCTGTCTTTC--AAAAAAAAAATCAA
* * *
5134881 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTCAA--TT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
** * *
5134944 GATCATCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTGT
66 G-TTTTC-AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACACGCTGAGGT-A
* *
5135009 TTTTCAATTTTTGTGTTT-AAAAAAAA
127 TTTTCAATTTCTGTCTTTCAAAAAAAA
5135035 TCAACTCATA
Statistics
Matches: 261, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
157 28 0.11
158 1 0.00
159 43 0.16
160 165 0.63
162 9 0.03
163 15 0.06
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (159 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
GTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCTGAGGTATTTT
CAATTTCTGTCTTTCAAAAAAAAAATCAA
Found at i:5134820 original size:71 final size:71
Alignment explanation
Indices: 5134722--5134853 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
5134712 TCTGTTCGTC
*
5134722 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGA-GATATTTTCAATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGATG-TATTTTCAATTTA
5134786 TTTTTCA
65 TTTTTCA
* *
5134793 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGATGTATTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGATGTATTTTCAAT
5134854 CTCTGTCTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 56 0.98
72 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGATGTATTTTCAATTTAT
TTTTCA
Done.