Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 16 of 185
Found at i:4356463 original size:25 final size:23
Alignment explanation
Indices: 4356419--4356479 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
4356409 TGATATTTAA
*
4356419 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
4356443 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
4356468 ATATTATTAAAT
1 ATATAATTAAAT
4356480 GAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:4357748 original size:39 final size:40
Alignment explanation
Indices: 4357705--4357792 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 40
4357695 TGAATTATAG
* * * *
4357705 AATACTGGATATTGTTTTGAGTACTG-AGTGAATTGTGAA
1 AATACTGAATATAGTTATGAGTAATGCAGTGAATTGTGAA
* * *
4357744 AATACTAAATATAGTTATGTGTAATGCATTGAATTGTGAA
1 AATACTGAATATAGTTATGAGTAATGCAGTGAATTGTGAA
*
4357784 ATTACTGAA
1 AATACTGAA
4357793 GTAATAAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 20 0.51
40 19 0.49
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (40 bp):
AATACTGAATATAGTTATGAGTAATGCAGTGAATTGTGAA
Found at i:4358067 original size:45 final size:45
Alignment explanation
Indices: 4357999--4358098 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
4357989 GCCGACTACT
* ** *
4357999 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTCACC
* *
4358044 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGTCACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTCACC
*
4358089 GCTACTGTTA
1 GTTACTGTTA
4358099 TTGCTACCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTCACC
Found at i:4360956 original size:14 final size:14
Alignment explanation
Indices: 4360939--4360967 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4360929 TCAATTCTTT
4360939 CTTCATCAAATATC
1 CTTCATCAAATATC
4360953 CTTCATCAAATATC
1 CTTCATCAAATATC
4360967 C
1 C
4360968 AACAAAGATA
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:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (14 bp):
CTTCATCAAATATC
Found at i:4368276 original size:16 final size:16
Alignment explanation
Indices: 4368236--4368278 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4368226 TTAGTATTTT
4368236 AGAAAAAAATATATGAA
1 AGAAAAAAA-ATATGAA
* * *
4368253 ACACAAAAAATGTGAA
1 AGAAAAAAAATATGAA
4368269 AGAAAAAAAA
1 AGAAAAAAAA
4368279 AATGGAAGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.12
Consensus pattern (16 bp):
AGAAAAAAAATATGAA
Found at i:4372931 original size:22 final size:22
Alignment explanation
Indices: 4372901--4372943 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4372891 ACACCAAAAC
*
4372901 AGGCTTTTAGCGGCACTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
*
4372923 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCACTTTTT
4372944 AGAGCCACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:4373098 original size:42 final size:43
Alignment explanation
Indices: 4373049--4373140 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 43
4373039 ATATCACAAA
*
4373049 CGCCGCTGAAGAGTAAGAGCTTTACCGGCG-CTTTAGTAGAAG
1 CGCCGCTGAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAG
* * * * *
4373091 CGCCGCTGAAGAGTAATACCTTTAGCGGCGTTTTTGGTATAAG
1 CGCCGCTGAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAG
4373134 CGCCGCT
1 CGCCGCT
4373141 ATAGAATAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (43 bp):
CGCCGCTGAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAG
Found at i:4373157 original size:43 final size:43
Alignment explanation
Indices: 4373110--4373248 Score: 183
Period size: 43 Copynumber: 3.2 Consensus size: 43
4373100 AGAGTAATAC
*
4373110 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGAAT-AGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAG-ATCAGGGT
*
4373153 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAAGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
* * ***
4373196 CTTTAGTGGCGTTTGTGACCGAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAGGGT
4373239 CTTTAGCGGC
1 CTTTAGCGGC
4373249 ACTTTTCCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.02
43 80 0.94
44 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
Found at i:4373268 original size:43 final size:41
Alignment explanation
Indices: 4373134--4373274 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 41
4373124 TTGGTATAAG
* ***
4373134 CGCCGCTATAGAAT-AGGGTCTTTAGCGGCGTTTTTGGTAAAA
1 CGCCGCTATAG-ATCAGGGTCTTTAGCGGC-CTTTTACCAAAA
* * * *
4373176 GCGCCGCTATAGATCAAGGTCTTTAGTGGCGTTTGTGACCGAAA
1 -CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTT-T-ACCAAAA
*
4373220 CGCCGCTATAGATCAGGGTCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTATAGATCAGGGTCTTTAGCGGC-CTTTTACCA-AAA
* *
4373263 TGCCGCAATAGA
1 CGCCGCTATAGA
4373275 CCCTGATCTA
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
42 7 0.09
43 66 0.84
44 6 0.08
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (41 bp):
CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTTTACCAAAA
Found at i:4373289 original size:43 final size:43
Alignment explanation
Indices: 4373242--4373381 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 43
4373232 TCAGGGTCTT
* * *
4373242 TAGCGGCACTTTTCCCACAAATGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTCCCACAAACGCCACTAA-AGACCCTGATCTA
****
4373285 TAGCGGCGCTTCGGTCACAAACGCCACTAAAGACCCTGATCTA
1 TAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCCTGATCTA
* * ** *
4373328 TAGCGGCGCTTTTACCAAAAACATCGCTAAAGACCCT-ATTCTA
1 TAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCCTGA-TCTA
4373371 TAGCGGCGCTT
1 TAGCGGCGCTT
4373382 ATATCAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 77 0.96
44 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCCTGATCTA
Found at i:4373390 original size:43 final size:44
Alignment explanation
Indices: 4373272--4373405 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 44
4373262 ATGCCGCAAT
**** * * *
4373272 AGACCCTGATCTATAGCGGCGCTTCGGTC-ACAAACGCCACTAA
1 AGACCCTGATCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
* *
4373315 AGACCCTGATCTATAGCGGCGCTTTTACC-AAAAACATCGCTAA
1 AGACCCTGATCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
* *
4373358 AGACCCT-ATTCTATAGCGGCGCTTATATCAAAAAACGCCGCTAA
1 AGACCCTGA-TCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
4373402 AGAC
1 AGAC
4373406 TAACACCTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 60 0.78
44 16 0.21
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (44 bp):
AGACCCTGATCTATAGCGGCGCTTATACCAAAAAACACCGCTAA
Found at i:4373849 original size:21 final size:21
Alignment explanation
Indices: 4373754--4373846 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
4373744 TTTGACGCTG
*
4373754 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
**
4373775 CTCTACTTCCCTCGCTTTAGC
1 CTCTACTTCCCTCGCTGCAGC
*
4373796 CTCTACTTCCCTC-TTAGCAGC
1 CTCTACTTCCCTCGCT-GCAGC
* * *
4373817 CTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
*
4373838 CTCTGCTTC
1 CTCTACTTC
4373847 TCTTGTTGCC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.08, C:0.44, G:0.14, T:0.34
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:4373856 original size:21 final size:21
Alignment explanation
Indices: 4373822--4373865 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4373812 GCAGCCTGTA
*
4373822 CTTCTCTCGCTGCCGCCTCTG
1 CTTCTCTCGCTGCCGCATCTG
* *
4373843 CTTCTCTTGTTGCCGCATCTG
1 CTTCTCTCGCTGCCGCATCTG
4373864 CT
1 CT
4373866 CTAAGCTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.41, G:0.18, T:0.39
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCATCTG
Found at i:4373928 original size:66 final size:66
Alignment explanation
Indices: 4373857--4373983 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
4373847 TCTTGTTGCC
* *
4373857 GCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGTTTCTCTCGCT
1 GCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATC-TTCGTTGAACATCAGCTTCTCTCGCT
4373920 ACT
64 ACT
* * *
4373923 GCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCTTTGAACATCAGCTTCTCTCG
1 GCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCG
4373984 ATGTTGCCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 1 0.02
66 52 0.96
67 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (66 bp):
GCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCGCTAC
T
Found at i:4373999 original size:66 final size:66
Alignment explanation
Indices: 4373876--4374006 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
4373866 CTAAGCTGCT
* * * *
4373876 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGTTTCTCTCGCTACTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTGT
4373941 A
66 A
* ** *
4373942 GCTGGAGTTCTTCATA-TCTTCTTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATACT-TTCGTTGAACATCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTG
4374006 T
65 T
4374007 GTAATTTGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTGT
A
Found at i:4378974 original size:40 final size:42
Alignment explanation
Indices: 4378925--4379006 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
4378915 TTGTCGATTC
*
4378925 CAACTTTTACGGCG-CTT-ACAATCAAACGCCACTAAT-TTTA
1 CAACATTTACGGCGTCTTGACAAT-AAACGCCACTAATATTTA
* *
4378965 CAACATTTACGGCGTTTTGAGAATAAACGCCACTAATATTTA
1 CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
4379007 ATTCGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 13 0.36
41 15 0.42
42 8 0.22
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (42 bp):
CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
Found at i:4379751 original size:39 final size:39
Alignment explanation
Indices: 4379687--4379772 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
4379677 AATTCCTAAC
*
4379687 CCAT-AACCCCTAAATCCCCTAAACCCTTAAAGCATAAA
1 CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
* *
4379725 CCATAAACCCCTAAATCTCTCT-AACCCCTAAAGCATAAC
1 CCATAAACCCCTAAATC-CCCTAAACCCCTAAAGCATAAA
*
4379764 CCCTAAACC
1 CCATAAACC
4379773 ATTCCAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 4 0.10
39 35 0.83
40 3 0.07
ACGTcount: A:0.40, C:0.40, G:0.02, T:0.19
Consensus pattern (39 bp):
CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
Found at i:4380865 original size:7 final size:7
Alignment explanation
Indices: 4380832--4380894 Score: 81
Period size: 7 Copynumber: 8.7 Consensus size: 7
4380822 CTTACCGTTC
4380832 AAACCCT
1 AAACCCT
**
4380839 AAACCAG
1 AAACCCT
*
4380846 AAATCCAT
1 AAA-CCCT
4380854 AAACCCT
1 AAACCCT
4380861 AAACCCT
1 AAACCCT
4380868 AAACCCAT
1 AAACCC-T
4380876 AAACCCT
1 AAACCCT
4380883 AAACCCT
1 AAACCCT
4380890 AAACC
1 AAACC
4380895 TTAACTCTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
7 37 0.74
8 13 0.26
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:4380865 original size:29 final size:29
Alignment explanation
Indices: 4380832--4380894 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
4380822 CTTACCGTTC
4380832 AAACCCTAAA-CCAGAAATCCATAAACCCT
1 AAACCCTAAACCCAGAAA-CCATAAACCCT
* *
4380861 AAACCCTAAACCCATAAACCCTAAACCCT
1 AAACCCTAAACCCAGAAACCATAAACCCT
4380890 AAACC
1 AAACC
4380895 TTAACTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (29 bp):
AAACCCTAAACCCAGAAACCATAAACCCT
Found at i:4380888 original size:22 final size:22
Alignment explanation
Indices: 4380832--4380894 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
4380822 CTTACCGTTC
** *
4380832 AAACCCTAAACCAGAAATCCAT
1 AAACCCTAAACCCTAAACCCAT
4380854 AAACCCTAAACCCTAAACCCAT
1 AAACCCTAAACCCTAAACCCAT
4380876 AAACCCTAAACCCTAAACC
1 AAACCCTAAACCCTAAACC
4380895 TTAACTCTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACCCAT
Found at i:4381452 original size:114 final size:112
Alignment explanation
Indices: 4381182--4381516 Score: 372
Period size: 113 Copynumber: 2.9 Consensus size: 112
4381172 AATCCCTGAT
*
4381182 CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGACGTTGC
1 CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCT-GAAAGCACAGAAAACGACGACGTTGC
* *
4381247 GCTTAGTTTTTTTGCGGCGCTTTCCAAAAAACGCCGCTAAAGACTGAA
65 GCTTAGTTTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
* * * * * *
4381295 CATTAGCGGCGCTTTAACAAAAACGCCGCTAAAATCCCCGAAAGC-CAGAAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTTATAAAAACGCCGCT-AAATCCCTGAAAGCACAGAAAACGACGACGTTGC
*
4381359 GCTTAGGTTTTTTTGCGGCGCTTTA-ACAAAAACGCCGCTAAAGACTTCAG
65 GCTTA-GTTTTTTTGCGGCGCTTTACA-AAAAACGCCGCTAAAGAC-TCAA
* * * * *
4381409 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCA-AGAGACGACGTTCGTT
1 CATTAGCGGCGCTTT-TATAAAAACGCCGCTAAATCCCTGAAAGCACAGA-AAACGACG-ACGTT
* * * * *
4381473 GCGC-TAGTTTTAAGTAGCGGCGCTTTATAGAAAGCGCCGCTAAA
63 GCGCTTAGTTTT--TTTGCGGCGCTTTACAAAAAACGCCGCTAAA
4381517 TCCCTGAAAT
Statistics
Matches: 189, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
112 22 0.12
113 69 0.37
114 43 0.23
115 21 0.11
116 33 0.17
117 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (112 bp):
CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAACGACGACGTTGCG
CTTAGTTTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
Found at i:4381555 original size:74 final size:74
Alignment explanation
Indices: 4381412--4381555 Score: 175
Period size: 74 Copynumber: 1.9 Consensus size: 74
4381402 ACTTCAGCAT
* * * *
4381412 TAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCAAGAGACGACGTTCGTTGCGC
1 TAGCGGCGCTTTATG-AAAAGCGCCGCTAAATCCCTGAAAGCTCAAGAAACAACGATCGTTGCGC
4381477 TAGTTTTAAG
65 TAGTTTTAAG
* ** *
4381487 TAGCGGCGCTTTAT-AGAAAGCGCCGCTAAATCCCTGAAATCTCGGGAAACAAC-ATCGTTGGGC
1 TAGCGGCGCTTTATGA-AAAGCGCCGCTAAATCCCTGAAAGCTCAAGAAACAACGATCGTTGCGC
4381550 TTAGTT
65 -TAGTT
4381556 ATTTTTGCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
73 9 0.15
74 37 0.63
75 13 0.22
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (74 bp):
TAGCGGCGCTTTATGAAAAGCGCCGCTAAATCCCTGAAAGCTCAAGAAACAACGATCGTTGCGCT
AGTTTTAAG
Found at i:4396476 original size:24 final size:25
Alignment explanation
Indices: 4396442--4396506 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
4396432 TCATAATTTA
* *
4396442 TTTTTTAAAATTATAAA-A-ACTAT
1 TTTTTTTAAATTATAAATATACGAT
4396465 TTTTTTTGAAATTATAAATATACGAT
1 TTTTTTT-AAATTATAAATATACGAT
*
4396491 TTTTTTTAAATCATAA
1 TTTTTTTAAATTATAA
4396507 TTTTTTTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 6 0.17
24 10 0.28
25 9 0.25
26 11 0.31
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (25 bp):
TTTTTTTAAATTATAAATATACGAT
Found at i:4396493 original size:25 final size:24
Alignment explanation
Indices: 4396442--4396500 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
4396432 TCATAATTTA
*
4396442 TTTTTTAAAATTATAAAAACTATT
1 TTTTTTAAAATTATAAAAACGATT
*
4396466 TTTTTTGAAATTATAAATATACGATT
1 TTTTTTAAAATTATAAA-A-ACGATT
4396492 TTTTTTAAA
1 TTTTTTAAA
4396501 TCATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 16 0.53
25 1 0.03
26 13 0.43
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTTTTAAAATTATAAAAACGATT
Found at i:4399123 original size:31 final size:32
Alignment explanation
Indices: 4399088--4399156 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
4399078 GTGGGTGACC
** *
4399088 AAAATGAAAA-TGATTTTTAATGGCAATGCCT
1 AAAATGAAAAGTGAGCTTTAATGGCAATACCT
*
4399119 AAAAT-AAAAGTGGGCTTTAATGGCAATACCT
1 AAAATGAAAAGTGAGCTTTAATGGCAATACCT
4399150 AAAATGA
1 AAAATGA
4399157 TTTTTTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 4 0.12
31 27 0.84
32 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (32 bp):
AAAATGAAAAGTGAGCTTTAATGGCAATACCT
Found at i:4403364 original size:12 final size:12
Alignment explanation
Indices: 4403347--4403376 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4403337 TCCGGTGGTC
*
4403347 AAAACTAAAACA
1 AAAACTAAAAAA
4403359 AAAACTAAAAAA
1 AAAACTAAAAAA
4403371 AAAACT
1 AAAACT
4403377 TAACCTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAACTAAAAAA
Found at i:4403591 original size:13 final size:13
Alignment explanation
Indices: 4403573--4403597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4403563 GTAAACACAC
4403573 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
4403586 AAAAGAAAAAAA
1 AAAAGAAAAAAA
4403598 ACTGCGTAGA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:4404157 original size:27 final size:27
Alignment explanation
Indices: 4404127--4404179 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4404117 TTTGGACTGA
4404127 ATTT-ATTTATTATTTTCTTTGTTTTTG
1 ATTTGATTTATT-TTTTCTTTGTTTTTG
* *
4404154 ATTTGATTTCTTTTTTCTTTTTTTTT
1 ATTTGATTTATTTTTTCTTTGTTTTT
4404180 ATTCAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (27 bp):
ATTTGATTTATTTTTTCTTTGTTTTTG
Found at i:4408172 original size:27 final size:24
Alignment explanation
Indices: 4408136--4408187 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
4408126 AAAAAATTTA
*
4408136 TATTGTTAATGTACCAAATATTTAGCT
1 TATTGTTAATATA--AAATATTT-GCT
*
4408163 TATTTTTAATATAAAATATTTGCT
1 TATTGTTAATATAAAATATTTGCT
4408187 T
1 T
4408188 TAAATTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 8 0.35
27 11 0.48
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
TATTGTTAATATAAAATATTTGCT
Found at i:4417132 original size:29 final size:31
Alignment explanation
Indices: 4417064--4417140 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
4417054 TTAACGGCTC
* *
4417064 AGTAACTAAAATGTTACAATACGATAACGTA
1 AGTAACTAAAATGTAACAATACGATAACATA
* * *
4417095 AGTGACTAAAATGTAACATTTC-A-AACATA
1 AGTAACTAAAATGTAACAATACGATAACATA
4417124 AGTAACTAAAATGTAAC
1 AGTAACTAAAATGTAAC
4417141 CTGAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 1 0.03
31 18 0.45
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (31 bp):
AGTAACTAAAATGTAACAATACGATAACATA
Found at i:4420937 original size:10 final size:10
Alignment explanation
Indices: 4420922--4420949 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4420912 TTAGGCCTAC
4420922 TCAATTTAGT
1 TCAATTTAGT
4420932 TCAATTTAGT
1 TCAATTTAGT
4420942 TCAATTTA
1 TCAATTTA
4420950 TTATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (10 bp):
TCAATTTAGT
Found at i:4423404 original size:18 final size:18
Alignment explanation
Indices: 4423383--4423452 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 18
4423373 GAACAATTTA
4423383 TGGTCAAAATAGAAATGG
1 TGGTCAAAATAGAAATGG
*
4423401 TGGTCAAAATTGGAGTAATGG
1 TGGTCAAAA-T--AGAAATGG
**
4423422 CCAAAGTCAAAATAGAAATGG
1 ---TGGTCAAAATAGAAATGG
4423443 TGGTCAAAAT
1 TGGTCAAAAT
4423453 TGGGGTGCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
18 17 0.43
19 1 0.03
21 14 0.35
23 1 0.03
24 7 0.17
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
TGGTCAAAATAGAAATGG
Found at i:4427981 original size:18 final size:18
Alignment explanation
Indices: 4427960--4428008 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
4427950 ATTATTAAAT
*
4427960 TATTTTTATTTATTTTAA
1 TATTTTTATTTAATTTAA
* *
4427978 TATTATTA-TAAATTTAA
1 TATTTTTATTTAATTTAA
4427995 TATATTTTATTTAA
1 TAT-TTTTATTTAA
4428009 ATATAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 10 0.42
18 11 0.46
19 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTATTTAATTTAA
Found at i:4428982 original size:15 final size:16
Alignment explanation
Indices: 4428962--4428998 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4428952 CAAAAAATCA
4428962 ATAAAA-TTACATTAT
1 ATAAAAGTTACATTAT
4428977 ATAAAAGTTACATTAT
1 ATAAAAGTTACATTAT
4428993 ATAAAA
1 ATAAAA
4428999 ATTAAATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (16 bp):
ATAAAAGTTACATTAT
Found at i:4429195 original size:60 final size:60
Alignment explanation
Indices: 4429122--4429239 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
4429112 TAAACTAAAT
* * * * *
4429122 ACAACAATTTATAACTTAATCCTAAATTGCTAATAAATTAAATT-TTAAATAATTACAAAC
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTACAAAC
4429182 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAA
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAA
4429240 TATTCTTACA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAAAC
Found at i:4429256 original size:19 final size:19
Alignment explanation
Indices: 4429232--4429376 Score: 102
Period size: 19 Copynumber: 7.3 Consensus size: 19
4429222 ATTATAAAAT
*
4429232 AATTACAATATTCTTACAA
1 AATTACAATATTCATACAA
4429251 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
4429270 AA-TACTAATCA--AAAACTATA
1 AATTAC-AAT-ATTCATAC-A-A
*
4429290 AA-TACAAAATTAATT-ATAAAA
1 AATTAC--AA-T-ATTCATACAA
*
4429311 TAATTAAAATATTCATACAA
1 -AATTACAATATTCATACAA
4429331 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
4429352 AATTACAATATTTATACAA
1 AATTACAATATTCATACAA
4429371 AATTAC
1 AATTAC
4429377 CCATTGGCGC
Statistics
Matches: 102, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.06
19 51 0.50
20 13 0.13
21 23 0.23
22 5 0.05
23 4 0.04
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:4429354 original size:21 final size:21
Alignment explanation
Indices: 4429307--4429372 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
4429297 AATTAATTAT
*
4429307 AAAATAATTAAAATATTCATAC
1 AAAA-AATTACAATATTCATAC
4429329 --AAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
4429348 AAAAAATTACAATATTTATAC
1 AAAAAATTACAATATTCATAC
4429369 AAAA
1 AAAA
4429373 TTACCCATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.40
20 2 0.05
21 22 0.55
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:4429438 original size:27 final size:27
Alignment explanation
Indices: 4429381--4429442 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
4429371 AATTACCCAT
***
4429381 TGGCGCCTCCCTATGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACAACTAA
* * *
4429408 TGGCGCCTTCTTATGAGGCACAACTAG
1 TGGCGCCTCCCTATGAGGCACAACTAA
4429435 TGGCGCCT
1 TGGCGCCT
4429443 ACCTGATAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.27
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACAACTAA
Found at i:4429546 original size:27 final size:27
Alignment explanation
Indices: 4429516--4429578 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
4429506 TTTTATTTAA
4429516 ATTTTTTTAAAAA-AATAAAAAAATAAT
1 ATTTTTTTAAAAATAA-AAAAAAATAAT
* *
4429543 ATTTTATTAAAAATAAAAAAAATTAAT
1 ATTTTTTTAAAAATAAAAAAAAATAAT
*
4429570 AATTTTTTA
1 ATTTTTTTA
4429579 TTCATTAGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTTTTTTAAAAATAAAAAAAAATAAT
Found at i:4435262 original size:31 final size:31
Alignment explanation
Indices: 4435195--4435260 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
4435185 ATAGTAAAGG
*
4435195 TAAAATTGTAATTTAGTCTTTCTAAAAATGA
1 TAAAATTGTAATTTAATCTTTCTAAAAATGA
* * *
4435226 TAAAATTTTGATTTAATCTTT-TAAAAATTA
1 TAAAATTGTAATTTAATCTTTCTAAAAATGA
4435256 TAAAA
1 TAAAA
4435261 ATATAAACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (31 bp):
TAAAATTGTAATTTAATCTTTCTAAAAATGA
Found at i:4436439 original size:13 final size:13
Alignment explanation
Indices: 4436421--4436445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4436411 AGATAAGTTG
4436421 AATAAAATATAAT
1 AATAAAATATAAT
4436434 AATAAAATATAA
1 AATAAAATATAA
4436446 GTCTTTAAGG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAAATATAAT
Found at i:4442271 original size:17 final size:16
Alignment explanation
Indices: 4442246--4442279 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4442236 TCCCATTTTC
*
4442246 GTTATTTTAAATAAAAA
1 GTTAATTTAAA-AAAAA
4442263 GTTAATTTAAAAAAAA
1 GTTAATTTAAAAAAAA
4442279 G
1 G
4442280 GGGGTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
GTTAATTTAAAAAAAA
Found at i:4442728 original size:11 final size:11
Alignment explanation
Indices: 4442712--4442736 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4442702 ATTATGAAGT
4442712 ACTTGACCAAA
1 ACTTGACCAAA
4442723 ACTTGACCAAA
1 ACTTGACCAAA
4442734 ACT
1 ACT
4442737 CTTACGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (11 bp):
ACTTGACCAAA
Found at i:4446855 original size:10 final size:10
Alignment explanation
Indices: 4446840--4446864 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4446830 CTTAACTACC
4446840 ACTAAGAACA
1 ACTAAGAACA
4446850 ACTAAGAACA
1 ACTAAGAACA
4446860 ACTAA
1 ACTAA
4446865 AATAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.08, T:0.12
Consensus pattern (10 bp):
ACTAAGAACA
Found at i:4448645 original size:32 final size:32
Alignment explanation
Indices: 4448604--4448668 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
4448594 CATGTTTATA
4448604 ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
1 ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
*
4448636 ATTTTGAGGTTTTATGTTGTAATTTAGCCAAT
1 ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
4448668 A
1 A
4448669 GTAAATGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (32 bp):
ATTTGGAGGTTTTATGTTGTAATTTAGCCAAT
Found at i:4448804 original size:40 final size:38
Alignment explanation
Indices: 4448760--4448878 Score: 130
Period size: 40 Copynumber: 3.0 Consensus size: 38
4448750 AGAAAAAATC
*
4448760 GAGCATTAGCGGCGTTTTTAAGAAAACACCGCTAAAATA
1 GAGCATTAGCGGCGTTTTTAATAAAACACCGCTAAAA-A
* * * *
4448799 GGAGCATTAGCGGCATTTTAAATAACACGCCGCTAAAAA
1 -GAGCATTAGCGGCGTTTTTAATAAAACACCGCTAAAAA
* * *
4448838 GAGCCATTAGCGGCGGTTTTAATAAAAACGCCGCAAAAAA
1 GAG-CATTAGCGGCGTTTTTAAT-AAAACACCGCTAAAAA
4448878 G
1 G
4448879 CCAAAGCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 3 0.04
39 17 0.25
40 47 0.70
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (38 bp):
GAGCATTAGCGGCGTTTTTAATAAAACACCGCTAAAAA
Found at i:4449003 original size:41 final size:42
Alignment explanation
Indices: 4448915--4449071 Score: 169
Period size: 41 Copynumber: 3.8 Consensus size: 42
4448905 ACTTTCGGGT
* *
4448915 CTTTAGCGGCGTTTT-T-TAATAAGTGCCGCTAATTCTATGGGC
1 CTTTAGCGGCGTTTTCTGTAA-AAGCGCCGCTAATGCT-TGGGC
* * *
4448957 TTTTAGCGGCGTTTT-TGTAAAAGCACCGCTAATGCTTTGGC
1 CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTTGGGC
* * * * *
4448998 CTTTAGCGGCGTTTTGTGAAAAAACGCCGCTAATG-ATGGGT
1 CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTTGGGC
*
4449039 CTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAA
4449072 GGACATTTTA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 51 0.52
42 44 0.45
43 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTTGGGC
Found at i:4449062 original size:83 final size:83
Alignment explanation
Indices: 4448915--4449071 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 83
4448905 ACTTTCGGGT
* * ** * *
4448915 CTTTAGCGGCGTTTTTTAATAAGTGCCGCTAATTCTATGGGCTTTTAGCGGCGTTTTTGTAAAAG
1 CTTTAGCGGCGTTTTTGAAAAAACGCCGCTAATTCGATGGGCTTTTAGCGGCGTTTTTGGAAAAG
4448980 CACCGCTAATGCTTTGGC
66 CACCGCTAATGCTTTGGC
4448998 CTTTAGCGGCGTTTTGTGAAAAAACGCCGCTAA-T-GATGGG-TCTTTAGCGGCGTTTTCTGGAA
1 CTTTAGCGGCGTTTT-TGAAAAAACGCCGCTAATTCGATGGGCT-TTTAGCGGCGTTTT-TGGAA
*
4449060 AAGCGCCGCTAA
63 AAGCACCGCTAA
4449072 GGACATTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
81 1 0.02
82 19 0.30
83 31 0.48
84 13 0.20
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (83 bp):
CTTTAGCGGCGTTTTTGAAAAAACGCCGCTAATTCGATGGGCTTTTAGCGGCGTTTTTGGAAAAG
CACCGCTAATGCTTTGGC
Found at i:4449718 original size:15 final size:15
Alignment explanation
Indices: 4449695--4449729 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4449685 TAGGGATTAT
4449695 GGTTT-AAGGGTTGG
1 GGTTTAAAGGGTTGG
*
4449709 GGTTTAAAGGTTTGG
1 GGTTTAAAGGGTTGG
4449724 GGTTTA
1 GGTTTA
4449730 GGGATAGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (15 bp):
GGTTTAAAGGGTTGG
Found at i:4451175 original size:82 final size:81
Alignment explanation
Indices: 4450920--4451220 Score: 221
Period size: 82 Copynumber: 3.7 Consensus size: 81
4450910 AATTTAATTT
* * * * * * **
4450920 GTGGCGTTTTTTGGGAAAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTC-AG
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGGCACCGTTTCTTT
* *
4450984 AAGAGGAGTGTAATCTATTA
66 CAGA--AGT-TAAT-TTTTA
* * ** * * *
4451004 GTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTT-TTCAAAACGTCACCGTTTCTC
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTT-AAAACGGCACCGTTTCT-
* * *
4451068 TTCAGGACTTGAAATTTTA
64 TTCAGAAGTT-AATTTTTA
* * *
4451087 GT-GCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTCTTAAAACGGCACTGTTTCTTT
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGGCACCGTTTCTTT
4451151 CAGTAAGTTAATTTTTA
66 CAG-AAGTTAATTTTTA
**** * ** * *
4451168 GTGGCGTTTTTGATAAAAACGCCGCAACTATACATTGAAGGTTCTTAAAACGG
1 GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGG
4451221 TGCTGTTTCA
Statistics
Matches: 167, Mismatches: 43, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
81 14 0.08
82 90 0.54
83 10 0.06
84 51 0.31
86 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (81 bp):
GTGGCGTTTTTTCGGAAAACGCCGCAAATATGTATTAAAGTTTCTTAAAACGGCACCGTTTCTTT
CAGAAGTTAATTTTTA
Found at i:4451282 original size:448 final size:449
Alignment explanation
Indices: 4450365--4451699 Score: 2120
Period size: 448 Copynumber: 3.0 Consensus size: 449
4450355 TTGGATATAT
* ** **
4450365 AGGACCACATTATAAGAAATAAAAAACATTAGCAGCGTTTGGGTAGAAACGCCGCAACTATGTAC
1 AGGACCACATTATAAGGAA-AAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTAC
* * *
4450430 CCATTTTTTTCAAAACGGCGTCGTAT-CCATTTAGAAATTTAATTTAATTTGTGGCATTTTATGG
65 CCATTTTTTTCAAAACGACGTCGT-TCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGG
* * * * * * * ** * *
4450494 GAAAATGCCATAAATATGTATTTTAATTTATCAAAACGGCGTCGTTTCAGAAGAGTACTGTAATC
129 GAAAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATC
* * * * *
4450559 TATCAGTGGTGTTTATGCTAGAAACGCTGC-A--ATG-A-T-A----TTTCAAAATGTCACCGTT
194 TATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTT
* * * *
4450614 TCACTTCAGGACTTGACATTTTAGTGGCGTTTTTCCGGAAAACGCTGGAAATATGAATTAAAGTT
259 TCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTT
4450679 TCTTAAAACGGCACTGTTTCTTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCG
324 TCTTAAAACGGCACTGTTTC-TTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCG
* * *
4450744 AAACTATACATTGAAGGTTCTTAAAACAGTGCTATTTCAGAATTTAATTTTGGCAATTACGC
388 CAACTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
*
4450806 AGGACGACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
1 AGGACCACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
4450871 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
66 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
4450936 AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
131 AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
4451001 TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
196 TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
4451066 TCTTCAGGACTTGAAATTTTAGT-GCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
261 TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
4451130 TTAAAACGGCACTGTTTCTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCAA
326 TTAAAACGGCACTGTTTCTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCAA
4451195 CTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
391 CTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
*
4451254 AGGACCACATTATAAGGGAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
1 AGGACCACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
4451319 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
66 CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
*
4451384 AAACGTCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
131 AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
*
4451449 TTAGTGGCGTTTATGCTAAAAACGCCACAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
196 TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
* * * *
4451514 TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTT-GGGAAACGCCAGAACTATGGATTAAAGTTTC
261 TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
* * *
4451578 TTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGCA
326 TTAAAACGGCACTGTTTCT-TTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCA
* * * * *
4451643 AATATATATTTAAGGTTCTTAAAACGGTGCTGTTTCGGAATTTAATTTTGGAAATTA
390 ACTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTA
4451700 TGGAAGCAAT
Statistics
Matches: 833, Mismatches: 48, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
439 1 0.00
440 180 0.22
441 18 0.02
443 3 0.00
444 1 0.00
445 1 0.00
446 1 0.00
448 427 0.51
449 161 0.19
450 40 0.05
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (449 bp):
AGGACCACATTATAAGGAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCGCAACTATGTACC
CATTTTTTTCAAAACGACGTCGTTCCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGGA
AAACGCCGTAAATATGTGTTATAGTTTCTCAGAACGGCACCGTTTCAGAAGAGGAGTGTAATCTA
TTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTC
TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTCGGAAAACGCCGGAAATATGAATTAAAGTTTC
TTAAAACGGCACTGTTTCTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGATAAAAACGCCGCAA
CTATACATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACGC
Found at i:4451616 original size:82 final size:82
Alignment explanation
Indices: 4451468--4451627 Score: 198
Period size: 82 Copynumber: 2.0 Consensus size: 82
4451458 TTTATGCTAA
* * * * * * *
4451468 AAACGCCACAATTATGTATTAATGTTTTTCAAAACGTCACCGTTTCTCTTCAGGACTTGAAATTT
1 AAACGCCACAACTATGGATTAAAGTTTTTCAAAACGGCACCGTTTCTATTCAGAACGTGAAATTT
4451533 TAGTGGCGTTTTTTGGG
66 TAGTGGCGTTTTTTGGG
* * *
4451550 AAACGCCAGAACTATGGATTAAAGTTTCTT-AAAACGGCACCGTTTCTATTCAGTAAGGT-AATT
1 AAACGCCACAACTATGGATTAAAGTTT-TTCAAAACGGCACCGTTTCTATTCAG-AACGTGAAAT
4451613 TTTAGTGGCGTTTTT
64 TTTAGTGGCGTTTTT
4451628 GCTAAAAACG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
82 62 0.94
83 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (82 bp):
AAACGCCACAACTATGGATTAAAGTTTTTCAAAACGGCACCGTTTCTATTCAGAACGTGAAATTT
TAGTGGCGTTTTTTGGG
Found at i:4451911 original size:14 final size:14
Alignment explanation
Indices: 4451873--4451911 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4451863 ATCGAAAGGA
*
4451873 AAAGAAAAAAATAG
1 AAAGAAAAAAATAC
**
4451887 AAAGACCAAAATAC
1 AAAGAAAAAAATAC
4451901 AAAGAAAAAAA
1 AAAGAAAAAAA
4451912 ATCAGAGGAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAAATAC
Found at i:4452254 original size:16 final size:16
Alignment explanation
Indices: 4452233--4452293 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
4452223 ACCTGTTTTC
4452233 TTATTTTGGTATCTAA
1 TTATTTTGGTATCTAA
* **
4452249 TTATTTTGGTATAATTC
1 TTATTTTGGTAT-CTAA
4452266 TTATTTTGGTATCTAA
1 TTATTTTGGTATCTAA
4452282 TTATTTTGGTAT
1 TTATTTTGGTAT
4452294 ACTCAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (16 bp):
TTATTTTGGTATCTAA
Found at i:4452267 original size:33 final size:33
Alignment explanation
Indices: 4452230--4452294 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
4452220 TATACCTGTT
4452230 TTCTTATTTTGGTATCTAATTATTTTGGTATAA
1 TTCTTATTTTGGTATCTAATTATTTTGGTATAA
4452263 TTCTTATTTTGGTATCTAATTATTTTGGTATA
1 TTCTTATTTTGGTATCTAATTATTTTGGTATA
4452295 CTCAAATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.58
Consensus pattern (33 bp):
TTCTTATTTTGGTATCTAATTATTTTGGTATAA
Found at i:4452878 original size:12 final size:12
Alignment explanation
Indices: 4452863--4452893 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4452853 ATTCTTGGGT
4452863 TTTGTTTTCTAG
1 TTTGTTTTCTAG
4452875 TTTGTTTTCTAG
1 TTTGTTTTCTAG
*
4452887 TCTGTTT
1 TTTGTTT
4452894 AGCGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.10, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTGTTTTCTAG
Found at i:4453893 original size:29 final size:30
Alignment explanation
Indices: 4453852--4453911 Score: 68
Period size: 33 Copynumber: 1.9 Consensus size: 30
4453842 GATTAGTTTA
*
4453852 TTCGGTTTAATG-TGAATAAATTATCGATT
1 TTCGATTTAATGATGAATAAATTATCGATT
*
4453881 TTCGATTTTATGTCAATGAATAAATTATCGA
1 TTCGATTTAATG---ATGAATAAATTATCGA
4453912 CGTTAGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
33 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TTCGATTTAATGATGAATAAATTATCGATT
Found at i:4453957 original size:11 final size:11
Alignment explanation
Indices: 4453937--4453969 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
4453927 ATTGATTGAC
*
4453937 TGTCAGTGAAT
1 TGTCAATGAAT
4453948 TGTCAATGAA-
1 TGTCAATGAAT
4453958 TGTCAATGAAT
1 TGTCAATGAAT
4453969 T
1 T
4453970 ATTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (11 bp):
TGTCAATGAAT
Found at i:4454046 original size:13 final size:13
Alignment explanation
Indices: 4454028--4454060 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4454018 ATTACTAAAT
*
4454028 TTACTTAAATATA
1 TTACTTAAATACA
4454041 TTACTTAAATACA
1 TTACTTAAATACA
4454054 TTACTTA
1 TTACTTA
4454061 CTAAAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (13 bp):
TTACTTAAATACA
Found at i:4454057 original size:26 final size:27
Alignment explanation
Indices: 4454000--4454060 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 27
4453990 ATTTATAACT
*
4454000 TACATTACGTAAATATTAATTACTAAA
1 TACATTACTTAAATATTAATTACTAAA
4454027 T---TTACTTAAATA-T-ATTACTTAAA
1 TACATTACTTAAATATTAATTAC-TAAA
4454050 TACATTACTTA
1 TACATTACTTA
4454061 CTAAAGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
22 5 0.17
23 6 0.21
24 10 0.34
26 7 0.24
27 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (27 bp):
TACATTACTTAAATATTAATTACTAAA
Found at i:4465664 original size:42 final size:42
Alignment explanation
Indices: 4465600--4465719 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 42
4465590 ATAGGATTTA
*
4465600 CGATATGTGTTATCGTGTAAGACCACGTCTGGGA-A-TTGACAT
1 CGATATGTGTTA-CGTGTAAGACCACGTCTGGGACAGTCG-CAT
*
4465642 CGACT-TGTGTTTACGTGTAAGACC-CTGTCTAGGACAGTCGCAT
1 CGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGACAGTCGCAT
*
4465685 CGATATGTGATTACATGTAAGACCACGTCTGGGAC
1 CGATATGTG-TTACGTGTAAGACCACGTCTGGGAC
4465720 GTTGGCATTG
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
41 1 0.02
42 26 0.39
43 36 0.55
44 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
CGATATGTGTTACGTGTAAGACCACGTCTGGGACAGTCGCAT
Found at i:4466792 original size:23 final size:23
Alignment explanation
Indices: 4466638--4466801 Score: 123
Period size: 23 Copynumber: 7.0 Consensus size: 23
4466628 ATATACATAT
* * *
4466638 TTTGATGTTTAAATGCTGCCCAA
1 TTTGGTGTATAAATGCTGTCCAA
* * *
4466661 TTTGTTGTATATACGCTGTCCAA
1 TTTGGTGTATAAATGCTGTCCAA
*
4466684 TTTTGGTGTAAAAATGCTG-CTCAA
1 -TTTGGTGTATAAATGCTGTC-CAA
* * * *
4466708 ATTGTTGTATATATGCTGCCCAA
1 TTTGGTGTATAAATGCTGTCCAA
* * **
4466731 ATTGTTGTATTTATGCTGTCCAAA
1 TTTGGTGTATAAATGCTGTCC-AA
*
4466755 TTTTGGTGTAAAAATGCTGTCCAA
1 -TTTGGTGTATAAATGCTGTCCAA
* *
4466779 TTTGGTATATAAATGTTGTCCAA
1 TTTGGTGTATAAATGCTGTCCAA
4466802 ATTGATAGGG
Statistics
Matches: 113, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
23 75 0.66
24 22 0.19
25 16 0.14
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
TTTGGTGTATAAATGCTGTCCAA
Found at i:4466802 original size:71 final size:72
Alignment explanation
Indices: 4466647--4466805 Score: 218
Period size: 70 Copynumber: 2.2 Consensus size: 72
4466637 TTTTGATGTT
*
4466647 TAAATGCTGCCCAATTTGTTGTATATACGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTG
1 TAAATGCTGCCCAAATTGTTGTATATACGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTG
*
4466712 TTGTATA
66 TGGTATA
* * *
4466719 T--ATGCTGCCCAAATTGTTGTATTTATGCTGTCCAAATTTTGGTGTAAAAATGCTG-TCCAATT
1 TAAATGCTGCCCAAATTGTTGTATATACGCTGTCC-AATTTTGGTGTAAAAATGCTGCTCAAATT
4466781 -TGGTATA
65 GTGGTATA
* *
4466788 TAAATGTTGTCCAAATTG
1 TAAATGCTGCCCAAATTG
4466806 ATAGGGTAGT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
69 7 0.09
70 35 0.45
71 34 0.44
72 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (72 bp):
TAAATGCTGCCCAAATTGTTGTATATACGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTG
TGGTATA
Found at i:4467202 original size:5 final size:5
Alignment explanation
Indices: 4467192--4467253 Score: 74
Period size: 5 Copynumber: 12.2 Consensus size: 5
4467182 AAGTATGTTT
*
4467192 TTATA TTATA -T-TA TTATAA ATATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA
4467241 TATATA TATATA T
1 T-TATA T-TATA T
4467254 AAGACAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 32 0.63
6 15 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TTATA
Found at i:4467244 original size:2 final size:2
Alignment explanation
Indices: 4467193--4467254 Score: 59
Period size: 2 Copynumber: 35.0 Consensus size: 2
4467183 AGTATGTTTT
*
4467193 TA TA T- TA TA T- TA T- TA TA AA TA TA T- TA TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4467229 TA T- TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4467255 AGACAAAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
1 8 0.16
2 42 0.84
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4468282 original size:19 final size:19
Alignment explanation
Indices: 4468258--4468332 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
4468248 TTATGTGTGA
4468258 ATATGTGAATTGTGAATTG
1 ATATGTGAATTGTGAATTG
*
4468277 ATATGTGAATTG-GAAATCG
1 ATATGTGAATTGTG-AATTG
* *
4468296 AGATATGAGATT-TGAA-T-
1 ATATGTGA-ATTGTGAATTG
4468313 ATATGTGAATATGTGAATTG
1 ATATGTGAAT-TGTGAATTG
4468333 TGTATTGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.05
17 7 0.16
18 5 0.12
19 25 0.58
20 4 0.09
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.37
Consensus pattern (19 bp):
ATATGTGAATTGTGAATTG
Found at i:4475009 original size:15 final size:16
Alignment explanation
Indices: 4474989--4475023 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4474979 ATTAAATTTG
*
4474989 AAAAAT-AATTAAATA
1 AAAAATAAATAAAATA
4475004 AAAAATAAATAAAATA
1 AAAAATAAATAAAATA
4475020 AAAA
1 AAAA
4475024 CGAAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATAAATAAAATA
Found at i:4476500 original size:30 final size:31
Alignment explanation
Indices: 4476466--4476533 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
4476456 AAGTTAGTCT
* *
4476466 TTGAACTCGACAATTGTTCC-ACATTAGGGC
1 TTGAACTAGACAATTATTCCTACATTAGGGC
* *
4476496 TTGAACTAGACAATTATTCCTCCATTGGGGC
1 TTGAACTAGACAATTATTCCTACATTAGGGC
4476527 TTGAACT
1 TTGAACT
4476534 TTTTTTCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (31 bp):
TTGAACTAGACAATTATTCCTACATTAGGGC
Found at i:4476509 original size:89 final size:86
Alignment explanation
Indices: 4476386--4476600 Score: 252
Period size: 89 Copynumber: 2.4 Consensus size: 86
4476376 CTGAATTAGG
** *
4476386 CAATTGTTCCCATATTAGGGCCCAAATTAGACAATTGTT-CTCACATTGGGGCTTGAACTTTTTT
1 CAATTGTT-CCATATTAGGGCTTAAACTAGACAATTGTTCCTC-CATTGGGGCTTGAAC--TTTT
*
4476450 TTGTCCAAGTTAGTCTTTGAACTCGA
62 TT-TCCAAGTTAGTCCTTGAACTCGA
* * *
4476476 CAATTGTTCCACATTAGGGCTTGAACTAGACAATTATTCCTCCATTGGGGCTTGAACTTTTTTTC
1 CAATTGTTCCATATTAGGGCTTAAACTAGACAATTGTTCCTCCATTGGGGCTTGAACTTTTTTTC
* *
4476541 CAAGTTAGTCCTTGAACTTGC
66 CAAGTTAGTCCTTGAACTCGA
* * * *
4476562 CATTTGTTCTCGTATTAGGGTTTAAACTTGACAATTGTT
1 CAATTGTTC-CATATTAGGGCTTAAACTAGACAATTGTT
4476601 TTCATACAAG
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
86 28 0.26
87 29 0.27
89 39 0.36
90 11 0.10
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (86 bp):
CAATTGTTCCATATTAGGGCTTAAACTAGACAATTGTTCCTCCATTGGGGCTTGAACTTTTTTTC
CAAGTTAGTCCTTGAACTCGA
Found at i:4481362 original size:15 final size:15
Alignment explanation
Indices: 4481342--4481428 Score: 53
Period size: 14 Copynumber: 6.1 Consensus size: 15
4481332 TAATTGTAAT
4481342 AAATATTTATTATTA
1 AAATATTTATTATTA
*
4481357 AAATA-TTAATATT-
1 AAATATTTATTATTA
** *
4481370 GGATATTT-TTAATA
1 AAATATTTATTATTA
* *
4481384 ATATA-ATATTATTTA
1 AAATATTTATTA-TTA
4481399 AAAT-TATTATT-TTA
1 AAATAT-TTATTATTA
4481413 AAA-ATTTATTATTA
1 AAATATTTATTATTA
4481427 AA
1 AA
4481429 TAAAATTGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 17
0.65 0.14 0.21
Matches are distributed among these distances:
13 12 0.23
14 27 0.51
15 10 0.19
16 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AAATATTTATTATTA
Found at i:4481435 original size:17 final size:16
Alignment explanation
Indices: 4481413--4481471 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
4481403 TATTATTTTA
4481413 AAAATTTATTATTAAAT
1 AAAATTTATTA-TAAAT
* *
4481430 AAAATTGAATACTAAAT
1 AAAATTTATTA-TAAAT
4481447 --AATTTATTA-AAAT
1 AAAATTTATTATAAAT
4481460 AATAATTTATTA
1 AA-AATTTATTA
4481472 ATATAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 4 0.12
15 7 0.21
16 9 0.26
17 14 0.41
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAATTTATTATAAAT
Found at i:4481465 original size:16 final size:16
Alignment explanation
Indices: 4481444--4481477 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4481434 TTGAATACTA
4481444 AATAATTTATTAAAAT
1 AATAATTTATTAAAAT
*
4481460 AATAATTTATTAATAT
1 AATAATTTATTAAAAT
4481476 AA
1 AA
4481478 ATTATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATTTATTAAAAT
Found at i:4485641 original size:18 final size:19
Alignment explanation
Indices: 4485608--4485645 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
4485598 AGACTCCAGG
*
4485608 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
4485627 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
4485645 T
1 T
4485646 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:4493057 original size:18 final size:18
Alignment explanation
Indices: 4493019--4493054 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4493009 TTATTATTTT
*
4493019 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
4493037 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
4493055 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:4493511 original size:12 final size:11
Alignment explanation
Indices: 4493494--4493582 Score: 70
Period size: 9 Copynumber: 8.5 Consensus size: 11
4493484 CTGAGAGTGG
4493494 TAAAGTAAATAA
1 TAAA-TAAATAA
4493506 TAAAGTAAATAA
1 TAAA-TAAATAA
4493518 TAAATAAAGTAA
1 TAAATAAA-TAA
4493530 TATAAT-AATAA
1 TA-AATAAATAA
4493541 T-AAT-AATAA
1 TAAATAAATAA
4493550 T-AAT-AATAA
1 TAAATAAATAA
4493559 T-AAT-AATAA
1 TAAATAAATAA
4493568 T-AAT-AATAA
1 TAAATAAATAA
4493577 TCAAAT
1 T-AAAT
4493583 CACATCATCT
Statistics
Matches: 73, Mismatches: 0, Indels: 9
0.89 0.00 0.11
Matches are distributed among these distances:
9 36 0.49
11 11 0.15
12 23 0.32
13 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:4493519 original size:3 final size:3
Alignment explanation
Indices: 4493513--4493577 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
4493503 TAATAAAGTA
*
4493513 AAT AAT AAAT AA- AGT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4493557 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
4493578 CAAATCACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 3 0.05
3 51 0.89
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4495471 original size:43 final size:43
Alignment explanation
Indices: 4495418--4495531 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
4495408 ATAGGATTTA
* *
4495418 CGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATGTGTTATCATGTAAGACCACGTCTGGGACAGTGGCAT
*
4495461 CGATTTGTGTT-TACATGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATGTGTTAT-CATGTAAGACCAC-GTCTGGGACAGTGGCAT
*
4495504 CGATATATGATTA-CATGTAAGACCACGT
1 CGATATGTG-TTATCATGTAAGACCACGT
4495532 TTAGAACGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.03
43 56 0.92
44 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CGATATGTGTTATCATGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:4496441 original size:2 final size:2
Alignment explanation
Indices: 4496434--4496482 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
4496424 TTACCGAATG
* *
4496434 TA TA TA TA TA TA AA TA TA TA TA TA TA AA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4496476 TA CA TA T
1 TA TA TA T
4496483 TTTGATGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4496482 original size:14 final size:14
Alignment explanation
Indices: 4496434--4496473 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
4496424 TTACCGAATG
4496434 TATATATATATAAA
1 TATATATATATAAA
4496448 TATATATATATAAA
1 TATATATATATAAA
4496462 TATATATATATA
1 TATATATATATA
4496474 TATACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATATATATAAA
Found at i:4496523 original size:23 final size:23
Alignment explanation
Indices: 4496495--4496601 Score: 88
Period size: 23 Copynumber: 4.6 Consensus size: 23
4496485 TGATGTTTAA
*
4496495 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAAATTGTTGTATAT
* * * * * *
4496518 ACGCTGTCCAATTTTGGTGTAAAA
1 ATGCTGCCCAA-ATTGTTGTATAT
* *
4496542 ATGTTGCTCAAATTGTTGTATAT
1 ATGCTGCCCAAATTGTTGTATAT
* * *
4496565 ATGCTTCCTAAATTGTTGTATTT
1 ATGCTGCCCAAATTGTTGTATAT
*
4496588 ATGCTGTCCAAATT
1 ATGCTGCCCAAATT
4496602 TTGGTGTGAA
Statistics
Matches: 62, Mismatches: 21, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
23 46 0.74
24 16 0.26
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (23 bp):
ATGCTGCCCAAATTGTTGTATAT
Found at i:4496640 original size:71 final size:72
Alignment explanation
Indices: 4496492--4496670 Score: 206
Period size: 71 Copynumber: 2.5 Consensus size: 72
4496482 TTTTGATGTT
* * *
4496492 TAAATGCTGCCCAATTTGTTGTATATACGCTGTCC-AATTTTGGTGTAAAAATGTTGCTCAAATT
1 TAAATGCT-TCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAAATT
*
4496556 GTTGTATA
65 GTGGTATA
* * * *
4496564 T--ATGCTTCCTAAATTGTTGTATTTATGCTGTCCAAATTTTGGTGTGAAAATGTTG-TCTAATT
1 TAAATGCTTCC-AAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAAATT
4496626 -TGGTATA
65 GTGGTATA
* *
4496633 TAAATGCTATCCAAATTGATGTATAAAAGCTGTCCAAA
1 TAAATGCT-TCCAAATTGTTGTATATAAGCTGTCCAAA
4496671 CAGGGTAGAT
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
69 9 0.10
70 31 0.34
71 47 0.52
72 4 0.04
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (72 bp):
TAAATGCTTCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAAATTG
TGGTATA
Found at i:4499400 original size:40 final size:40
Alignment explanation
Indices: 4499356--4499466 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
4499346 TAAATATTTT
* *
4499356 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTGTAAA
4499396 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTGTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTGTAAA
*
4499436 ATTTTTTTAATTTAAAAATATTTTTAAAATA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATA
4499467 AATTTTTTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTGTAAA
Found at i:4499466 original size:11 final size:11
Alignment explanation
Indices: 4499366--4499445 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
4499356 ATTTTTTTAA
*
4499366 TTTTAAAATAC
1 TTTTAAAATAT
4499377 TTTTAAAATACT
1 TTTTAAAATA-T
4499389 TTTTAAAAT-T
1 TTTTAAAATAT
*
4499399 TTTT----TAA
1 TTTTAAAATAT
4499406 TTTTAAAATAT
1 TTTTAAAATAT
4499417 TTTTAAAATACT
1 TTTTAAAATA-T
* *
4499429 TTGTAAAATTT
1 TTTTAAAATAT
4499440 TTTTAA
1 TTTTAA
4499446 TTTAAAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
10 5 0.09
11 28 0.50
12 18 0.32
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4499482 original size:40 final size:40
Alignment explanation
Indices: 4499356--4499482 Score: 182
Period size: 40 Copynumber: 3.1 Consensus size: 40
4499346 TAAATATTTT
* *
4499356 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTAAA
* *
4499396 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTGTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTAAA
* **
4499436 ATTTTTTTAATTTAAAAATATTTTTAAAATAAATTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAAT-AATTTTTAAA
4499477 ATTTTT
1 ATTTTT
4499483 AAAATAATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 67 0.85
41 12 0.15
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTAAA
Found at i:4499491 original size:21 final size:22
Alignment explanation
Indices: 4499455--4499495 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4499445 ATTTAAAAAT
4499455 ATTTTTAAAATAAATTTTTTTA
1 ATTTTTAAAATAAATTTTTTTA
4499477 ATTTTTAAAAT-AATTTTTT
1 ATTTTTAAAATAAATTTTTT
4499496 GGCATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTTTAAAATAAATTTTTTTA
Found at i:4501945 original size:21 final size:22
Alignment explanation
Indices: 4501907--4501954 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
4501897 ATGAATTTGT
4501907 TTTTTAATTTGAACTTTA-TTA
1 TTTTTAATTTGAACTTTAGTTA
* * *
4501928 TTTTTATTTTTAATTTTAGTTTA
1 TTTTTAATTTGAACTTTAG-TTA
4501951 TTTT
1 TTTT
4501955 CTGTTTCGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 15 0.68
23 7 0.32
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTTAATTTGAACTTTAGTTA
Found at i:4507966 original size:20 final size:20
Alignment explanation
Indices: 4507928--4507967 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4507918 AAATTAATCG
*
4507928 AACCGAAATATTTTAGTTTT
1 AACCGAAATATTATAGTTTT
4507948 AACCGAAAT-TTATATGTTTT
1 AACCGAAATATTATA-GTTTT
4507968 GTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
AACCGAAATATTATAGTTTT
Found at i:4509052 original size:30 final size:30
Alignment explanation
Indices: 4509016--4509073 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
4509006 ACTTTTTGTC
4509016 TTATGTACATTCTATGTTTTATTATTTATG
1 TTATGTACATTCTATGTTTTATTATTTATG
4509046 TTATGTACATTCTATGTTTTATTATTTA
1 TTATGTACATTCTATGTTTTATTATTTA
4509074 ATTTAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (30 bp):
TTATGTACATTCTATGTTTTATTATTTATG
Found at i:4509387 original size:15 final size:16
Alignment explanation
Indices: 4509369--4509404 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4509359 TATTATGTAC
4509369 TAAAATAATAT-AAAA
1 TAAAATAATATGAAAA
*
4509384 TAAAATAATCTGAAAA
1 TAAAATAATATGAAAA
4509400 TAAAA
1 TAAAA
4509405 AAAATACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
TAAAATAATATGAAAA
Found at i:4509580 original size:11 final size:11
Alignment explanation
Indices: 4509537--4509582 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
4509527 AATAAAATAC
4509537 TTGTATTA-TT
1 TTGTATTATTT
*
4509547 TTG-ATTTTTT
1 TTGTATTATTT
*
4509557 TTTTATT-TTT
1 TTGTATTATTT
4509567 TTGTATTATTT
1 TTGTATTATTT
4509578 TTGTA
1 TTGTA
4509583 AAAAACCGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 3 0.10
10 16 0.53
11 11 0.37
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (11 bp):
TTGTATTATTT
Found at i:4512335 original size:21 final size:22
Alignment explanation
Indices: 4512309--4512355 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4512299 CTCTGCTCAA
*
4512309 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
4512330 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
4512352 ACTC
1 ACTC
4512356 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:4517290 original size:19 final size:20
Alignment explanation
Indices: 4517251--4517298 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
4517241 AATACAAAAC
*
4517251 AAATTCAAAATAATTTTTAA
1 AAATTCAAAATAATTTATAA
4517271 AAATTCAAAAT-ATTTATAA
1 AAATTCAAAATAATTTATAA
*
4517290 AATTTCAAA
1 AAATTCAAA
4517299 TTTTATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTCAAAATAATTTATAA
Found at i:4517303 original size:17 final size:18
Alignment explanation
Indices: 4517251--4517304 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
4517241 AATACAAAAC
*
4517251 AAATTCAAAATAATTTTTAA
1 AAATTCAAAAT--TTTATAA
4517271 AAATTCAAAATATTTATAA
1 AAATTCAAAAT-TTTATAA
*
4517290 AATTTC-AAATTTTAT
1 AAATTCAAAATTTTAT
4517305 GTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 5 0.16
18 4 0.12
19 12 0.38
20 11 0.34
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTCAAAATTTTATAA
Found at i:4518056 original size:37 final size:37
Alignment explanation
Indices: 4517999--4518150 Score: 164
Period size: 37 Copynumber: 3.9 Consensus size: 37
4517989 TATGATCACT
*
4517999 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
4518034 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
*
4518071 TATCACTTTGTCTCTTAATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
4518116 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
4518151 GAAGCTATCA
Statistics
Matches: 98, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 53 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 31 0.32
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:4518138 original size:46 final size:46
Alignment explanation
Indices: 4518067--4518439 Score: 388
Period size: 52 Copynumber: 7.6 Consensus size: 46
4518057 TAAGTGTAGC
* * **
4518067 CACTTATCACTTTGTCTCTTAATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
4518113 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4518159 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4518211 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAG------C-TAT
* *
4518270 CACTTATCACTTTGTCACTTGATTAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4518316 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
4518362 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4518414 CACTTATCACTTTG-CACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4518440 AGTACTCAAA
Statistics
Matches: 290, Mismatches: 17, Indels: 41
0.83 0.05 0.12
Matches are distributed among these distances:
45 12 0.04
46 112 0.39
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 3 0.01
52 116 0.40
53 28 0.10
57 1 0.00
58 1 0.00
59 13 0.04
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:4518186 original size:52 final size:52
Alignment explanation
Indices: 4518110--4518433 Score: 453
Period size: 52 Copynumber: 6.3 Consensus size: 52
4518100 TAGCTAAAGC
* *
4518110 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4518163 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
4518215 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
4518267 TATCACTTATCACTTTGTCACTTGATTAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4518320 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
4518366 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4518418 TATCACTTTGCACTTG
1 TATCACTTTTCACTTG
4518434 ATCAGAAGTA
Statistics
Matches: 245, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
46 43 0.18
50 1 0.00
52 147 0.60
53 54 0.22
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:4518388 original size:151 final size:153
Alignment explanation
Indices: 4518110--4518425 Score: 528
Period size: 151 Copynumber: 2.1 Consensus size: 153
4518100 TAGCTAAAGC
*
4518110 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCA
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TT--
*
4518175 CTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGAT
62 CTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGAT
* *
4518240 CAGATAAGTGTAGCTGAAGCTATCACT
127 CAGATAAGTGTAGCTAAAGCTACCACT
*
4518267 TATCACTTATCACTTTGTCACTTGATTAGATAAGTATAGCCGAAGCTATCACTTATCAC-T-TTG
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTG
*
4518330 TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGA
66 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGA
4518395 TAAGTGTAGCTAAAGCTACCACT
131 TAAGTGTAGCTAAAGCTACCACT
4518418 TATCACTT
1 TATCACTT
4518426 TGCACTTGAT
Statistics
Matches: 153, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
151 95 0.62
154 1 0.01
157 57 0.37
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (153 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTG
TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGA
TAAGTGTAGCTAAAGCTACCACT
Found at i:4518420 original size:203 final size:203
Alignment explanation
Indices: 4518067--4518433 Score: 617
Period size: 203 Copynumber: 1.8 Consensus size: 203
4518057 TAAGTGTAGC
* * * *
4518067 CACTTATCACTTTGTCTCTTAATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTAATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCACT
*
4518132 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
4518197 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
4518262 TCACTTAT
196 TCACTTAT
* * *
4518270 CACTTATCACTTTGTCACTTGATTAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTAATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCACT
*
4518335 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
4518400 GTAGCTAAAGCTACCACTTATCACTTTGCACTTG
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTG
4518434 ATCAGAAGTA
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
203 151 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (203 bp):
CACTTATCACTTTGTCACTTAATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
TCACTTAT
Found at i:4528265 original size:21 final size:21
Alignment explanation
Indices: 4528239--4528286 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
4528229 TCAAAATCTG
4528239 ATGTGTTGAATACATTATCAT
1 ATGTGTTGAATACATTATCAT
4528260 ATGTGTTGAATACATTATCAT
1 ATGTGTTGAATACATTATCAT
4528281 ATGTGT
1 ATGTGT
4528287 AATTGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (21 bp):
ATGTGTTGAATACATTATCAT
Found at i:4529655 original size:19 final size:20
Alignment explanation
Indices: 4529616--4529663 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
4529606 AATACAAAAC
*
4529616 AAATTCAAAATAATTTTTAA
1 AAATTCAAAATAATTTATAA
4529636 AAATTCAAAAT-ATTTATAA
1 AAATTCAAAATAATTTATAA
*
4529655 AATTTCAAA
1 AAATTCAAA
4529664 TTTTATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTCAAAATAATTTATAA
Found at i:4529668 original size:17 final size:18
Alignment explanation
Indices: 4529616--4529669 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
4529606 AATACAAAAC
*
4529616 AAATTCAAAATAATTTTTAA
1 AAATTCAAAAT--TTTATAA
4529636 AAATTCAAAATATTTATAA
1 AAATTCAAAAT-TTTATAA
*
4529655 AATTTC-AAATTTTAT
1 AAATTCAAAATTTTAT
4529670 GTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 5 0.16
18 4 0.12
19 12 0.38
20 11 0.34
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTCAAAATTTTATAA
Found at i:4531416 original size:23 final size:22
Alignment explanation
Indices: 4531371--4531417 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4531361 CGAAAATATA
*
4531371 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
4531393 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
4531415 TTA
1 TTA
4531418 TTTTAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:4531651 original size:70 final size:70
Alignment explanation
Indices: 4531574--4531715 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
4531564 TTTACTAACA
4531574 AAATGTTAGATTTTATAAAATGTTGATTGGTACAAAAAATATATAATTTGATACAATTTTAATAA
1 AAATGTTAGATTTTATAAAATGTTGATTGGTACAAAAAATATATAATTTGATACAATTTTAATAA
4531639 TAATT
66 TAATT
4531644 AAATGTTAGATTTTATAAAATGTTGATTGGTACAAAAAATATATAATTTGATACAATTTTAATAA
1 AAATGTTAGATTTTATAAAATGTTGATTGGTACAAAAAATATATAATTTGATACAATTTTAATAA
4531709 TAATT
66 TAATT
4531714 AA
1 AA
4531716 TTTTGATAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (70 bp):
AAATGTTAGATTTTATAAAATGTTGATTGGTACAAAAAATATATAATTTGATACAATTTTAATAA
TAATT
Found at i:4531717 original size:16 final size:16
Alignment explanation
Indices: 4531698--4531754 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
4531688 AATTTGATAC
*
4531698 AATTTTAATAATAATT
1 AATTTTAATAACAATT
*
4531714 AATTTTGATAACAATT
1 AATTTTAATAACAATT
4531730 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
4531746 AGTTTTAAT
1 AATTTTAAT
4531755 TTTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:4531738 original size:22 final size:23
Alignment explanation
Indices: 4531728--4531789 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
4531718 TTGATAACAA
* *
4531728 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
4531750 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
4531773 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
4531790 ATGGGCCGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 14 0.39
24 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:4535037 original size:491 final size:492
Alignment explanation
Indices: 4533866--4535053 Score: 1203
Period size: 500 Copynumber: 2.4 Consensus size: 492
4533856 TACAATGGAT
* * * * * * *
4533866 TATACAATTGATCAATACTCTTACAAATACTTATACACTACAATGTAATTACCTTCATGCATAGA
1 TATACAATTGATAAATACTTTTAAAAATACTTATACACTACAATGTCATAACTTTCATACATAGA
* * * *
4533931 TTCGTTCAATTAGATCAAAGATTGTACAATTAATGTCATAACTCATTCAATTACGTTAAAAATTA
66 TTCATTCAATTAGATCAATGATTGTACAATTAATGTCATAATTCATTCAATTACGTT-AATATTA
* * * * * * *
4533996 GAGAAATGTAAAAGTGATCATTACTTTTCAAATCACTTGTAG-ACCACAATGTTACTGCATTCAT
130 AAGAAATGTACAATTGATCA-TACATTTCAAATTACTTGT-GCACCACAATGTTAATACATTCAT
* * * *
4534060 ATATAGACTCAATTTAATTAGTTCAATGTCATAATCATTCAATTACGTTAGCAGTTAGAGGAATA
193 ATATAGACTCAATTCAACTAGTTCAATATCATAATCATTCAATTACGTTAGCAGTTAAAGGAATA
* * *
4534125 CATAATTGATAAATACTCTGAAGTTGATTAAACATTTGAAATTAAACATTGGTGGTCCAAAGTTT
258 CATAATTGATAAATACTCTGAAGTTGATCAAACATTTCAAATTAAACATTGATGGTCCAAA----
* * * ***
4534190 TGATATATTTCACTGTATGATATTGAATTCTAAACATGTATACTCAATGTTGAGTTTACATAGAC
319 TG--ATATTTCACTGTACGATATTGAATTCCAAACATGTATACTAAACACTGAGTTTACATAGAC
* * *
4534255 TGATTCAATTAGACCAATGATTGTATGATTAATTATACAATTTATTCAATTAGATCAATAACTGT
382 TGATTCAATTAGACAAATGATTGTACGATTAATTATACAATTTATTCAATTAGATCAATAACTCT
* * * *
4534320 ACAACTAATGTCAGAATTTATTCAATTGCACTAGTGATTAGAGGAA
447 ACAACTAATGTCACAATTCATTCAATTGCACTAGTAATTAAAGGAA
* * *
4534366 CATACAATTAATAAATACTTTTAAAAATACTTATACACTACAATG-CTATTACCTTTC-TACATA
1 TATACAATTGATAAATACTTTTAAAAATACTTATACACTACAATGTC-A-TAACTTTCATACATA
* ** * * *
4534429 GATTCATTCAATTAGATAAATGGCTGTACAATTAATATAATAACTT-ATTCAATTACATTAATAA
64 GATTCATTCAATTAGATCAATGATTGTACAATTAATGTCATAA-TTCATTCAATTACGTTAAT-A
* ** * * * * *
4534493 TTAAAGAAATATACAATACATTAATACATTTCAAGTTACTTGTACAACACAATGTTAATACACTC
127 TTAAAGAAATGTACAATTGA-TCATACATTTCAAATTACTTGTGCACCACAATGTTAATACATTC
* * * * * * *
4534558 ATATATAGATTCGATTCAACTGGTTCGATATCATAATTATTCAAATT-TGTTAGTAGTTAAAGGA
191 ATATATAGACTCAATTCAACTAGTTCAATATCATAATCATTC-AATTACGTTAGCAGTTAAAGGA
* * * *
4534622 ATGCATAATTGATAAATACTCTTAAGTTGATCAAA-ATTTTCCAATTAAACATTGATGGTCTAAA
255 ATACATAATTGATAAATACTCTGAAGTTGATCAAACA-TTTCAAATTAAACATTGATGGTCCAAA
* * *
4534686 -G-T-TTTCACTGTACGGTATTGAATTCCAAACATTTATACTAAACACT-ATGTTTACATGGACT
319 TGATATTTCACTGTACGATATTGAATTCCAAACATGTATACTAAACACTGA-GTTTACATAGACT
* * * * * * * *
4534747 GATTTAATTGGATAAATGATTGTACGAGTT-ATTATACAATTTATTCCATTGGTTCATTGGA-TC
383 GATTCAATTAGACAAATGATTGTACGA-TTAATTATACAATTTATTCAATTAGATCAAT-AACTC
* * * * ***
4534810 TACGATTAATGTGACAATTCATTCGATTTTGCTAGTAATTAAAGGAA
446 TACAACTAATGTCACAATTCATTCAATTGCACTAGTAATTAAAGGAA
* * * *
4534857 TATAGAATTGATAAATACTTTTAAAAACACTTATAACACTATAATGTCATAAGTTTCATACATAG
1 TATACAATTGATAAATACTTTTAAAAATACTTAT-ACACTACAATGTCATAACTTTCATACATAG
* * * * * * *
4534922 ATTTATTCAATTAGATCAATGATTCTACAACTGATGTCATAATTCATTCAATTATGTTAGTATCA
65 ATTCATTCAATTAGATCAATGATTGTACAATTAATGTCATAATTCATTCAATTACGTTAATATTA
* * * * *
4534987 TAGAAATGTACAATTGATCGATACACTTCAAATTACTTATGCACCACAATGTCAGTACATTCATA
130 AAGAAATGTACAATTGATC-ATACATTTCAAATTACTTGTGCACCACAATGTTAATACATTCATA
4535052 TA
194 TA
4535054 CTCGATTCAA
Statistics
Matches: 555, Mismatches: 117, Indels: 41
0.78 0.16 0.06
Matches are distributed among these distances:
490 2 0.00
491 224 0.40
492 68 0.12
493 1 0.00
495 1 0.00
499 3 0.01
500 244 0.44
501 12 0.02
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (492 bp):
TATACAATTGATAAATACTTTTAAAAATACTTATACACTACAATGTCATAACTTTCATACATAGA
TTCATTCAATTAGATCAATGATTGTACAATTAATGTCATAATTCATTCAATTACGTTAATATTAA
AGAAATGTACAATTGATCATACATTTCAAATTACTTGTGCACCACAATGTTAATACATTCATATA
TAGACTCAATTCAACTAGTTCAATATCATAATCATTCAATTACGTTAGCAGTTAAAGGAATACAT
AATTGATAAATACTCTGAAGTTGATCAAACATTTCAAATTAAACATTGATGGTCCAAATGATATT
TCACTGTACGATATTGAATTCCAAACATGTATACTAAACACTGAGTTTACATAGACTGATTCAAT
TAGACAAATGATTGTACGATTAATTATACAATTTATTCAATTAGATCAATAACTCTACAACTAAT
GTCACAATTCATTCAATTGCACTAGTAATTAAAGGAA
Found at i:4535648 original size:15 final size:15
Alignment explanation
Indices: 4535628--4535662 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4535618 AAGCTTTGAT
* *
4535628 ATATTTCACTATATG
1 ATATTTCAATATATA
4535643 ATATTTCAATATATA
1 ATATTTCAATATATA
4535658 ATATT
1 ATATT
4535663 GAATTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATTTCAATATATA
Found at i:4539961 original size:31 final size:31
Alignment explanation
Indices: 4539926--4539987 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
4539916 TTGAGTAATA
4539926 ATAATGCAACTGAATATTCATAATAACAAAC
1 ATAATGCAACTGAATATTCATAATAACAAAC
* *
4539957 ATAATGCAACTGAATATTCATACTAAGAAAC
1 ATAATGCAACTGAATATTCATAATAACAAAC
4539988 CAGTACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (31 bp):
ATAATGCAACTGAATATTCATAATAACAAAC
Found at i:4550550 original size:41 final size:43
Alignment explanation
Indices: 4550437--4550569 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 43
4550427 AGGATTTTCG
*
4550437 ATATGTGTTCTCGTGTAAGACCAC-GTCTGGGACGATGGCATCGAT
1 ATATGTGAT-TCGTGTAAGACC-CTGTCTGGGAC-ATGGCATCGAT
** *
4550482 ATATGTGATTACGTGTAAGACAATGTCTAGGACATTGGCATCG-T
1 ATATGTGATT-CGTGTAAGACCCTGTCTGGGACA-TGGCATCGAT
4550526 AT-T-TGATTCGTGTAAGACCCTGTCTGGGACAATGGCATCGAT
1 ATATGTGATTCGTGTAAGACCCTGTCTGGGAC-ATGGCATCGAT
4550568 AT
1 AT
4550570 GAGATAGCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
41 27 0.36
42 9 0.12
43 1 0.01
44 5 0.07
45 34 0.45
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
ATATGTGATTCGTGTAAGACCCTGTCTGGGACATGGCATCGAT
Found at i:4552021 original size:23 final size:23
Alignment explanation
Indices: 4551989--4552032 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
4551979 TGCTATGAAT
4551989 ATTTGGTAAA-TTGAAATGGCTA
1 ATTTGGTAAATTTGAAATGGCTA
*
4552011 ATTTGAGTAAATTTGTAATGGC
1 ATTTG-GTAAATTTGAAATGGC
4552033 ATGAGTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (23 bp):
ATTTGGTAAATTTGAAATGGCTA
Found at i:4560606 original size:21 final size:23
Alignment explanation
Indices: 4560577--4560625 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
4560567 CATCCACCTA
*
4560577 TTTATAATAACAAAAAAA-T-AT
1 TTTAAAATAACAAAAAAATTAAT
**
4560598 TTTAAAATATTAAAAAAATTAAT
1 TTTAAAATAACAAAAAAATTAAT
4560621 TTTAA
1 TTTAA
4560626 CTTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 1 0.04
23 7 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTAAAATAACAAAAAAATTAAT
Found at i:4561886 original size:21 final size:21
Alignment explanation
Indices: 4561862--4561912 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4561852 TGGATGGATT
*
4561862 AGCTCTTTTGAGCTTCTGTTC
1 AGCTCTTTCGAGCTTCTGTTC
4561883 AGCTCTTTCGAGCTTCTGTTC
1 AGCTCTTTCGAGCTTCTGTTC
4561904 AGCTCTTTC
1 AGCTCTTTC
4561913 AAGTTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.10, C:0.27, G:0.18, T:0.45
Consensus pattern (21 bp):
AGCTCTTTCGAGCTTCTGTTC
Found at i:4561925 original size:21 final size:21
Alignment explanation
Indices: 4561862--4561931 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
4561852 TGGATGGATT
** *
4561862 AGCTCTTTTGAGCTTCTGTTC
1 AGCTCTTTCAAGCTTCTATTC
* *
4561883 AGCTCTTTCGAGCTTCTGTTC
1 AGCTCTTTCAAGCTTCTATTC
* *
4561904 AGCTCTTTCAAGTTTTTATTC
1 AGCTCTTTCAAGCTTCTATTC
*
4561925 AACTCTT
1 AGCTCTT
4561932 ATGAGTTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.47
Consensus pattern (21 bp):
AGCTCTTTCAAGCTTCTATTC
Found at i:4563482 original size:21 final size:22
Alignment explanation
Indices: 4563440--4563484 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4563430 ACACCAAAAC
*
4563440 AGGCTTTTAGCGGCACTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
*
4563462 AGGCCTTTAGCGGC-GTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
4563483 AG
1 AG
4563485 CGCCACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.13, C:0.18, G:0.27, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:4563601 original size:42 final size:42
Alignment explanation
Indices: 4563554--4563730 Score: 153
Period size: 42 Copynumber: 4.2 Consensus size: 42
4563544 GCGTCACTAA
** * *
4563554 CTTTAGCGGCGCTTCCTTACTAACGCCACTAAAGACCAAGAT
1 CTTTAGCGGCGCTTCCCCACAAACGCCACTAAAGACCAAGAC
*
4563596 CTTTAGCGGCGCTTCCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTCCCCACAAACGCCACTAAAGACCAAGAC
* * * * * * *
4563638 CTTTAGCAGCGCTTTTCCCACAAACCCCGCTAAAGA-TATTGAG
1 CTTTAGCGGCGC-TTCCCCACAAACGCCACTAAAGACCA-AGAC
* * *
4563681 CTTTAGCGGCGCTTTTTCCCACAAACGCCGCTATAGA--ATAGAC
1 CTTTAGCGGCGC--TTCCCCACAAACGCCACTAAAGACCA-AGAC
4563724 CTTTAGC
1 CTTTAGC
4563731 AACGCTTTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
42 49 0.42
43 45 0.39
44 22 0.19
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTCCCCACAAACGCCACTAAAGACCAAGAC
Found at i:4563672 original size:43 final size:43
Alignment explanation
Indices: 4563575--4563757 Score: 194
Period size: 42 Copynumber: 4.3 Consensus size: 43
4563565 CTTCCTTACT
* * * *
4563575 AACGCCACTAAAGACCA-AGATCTTTAGCGGCGC-TTCCCCACA
1 AACGCCGCTAAAGA-CATAGACCTTTAGCAGCGCTTTTCCCACA
4563617 AACGCCGCTAAAGACCA-AGACCTTTAGCAGCGCTTTTCCCACA
1 AACGCCGCTAAAGA-CATAGACCTTTAGCAGCGCTTTTCCCACA
* * * * *
4563660 AACCCCGCTAAAGATATTGAGCTTTAGCGGCGCTTTTTCCCACA
1 AACGCCGCTAAAGACATAGACCTTTAGCAGCGC-TTTTCCCACA
* * **
4563704 AACGCCGCTATAGA-ATAGACCTTTAGCAACGCTTTTAACACA
1 AACGCCGCTAAAGACATAGACCTTTAGCAGCGCTTTTCCCACA
4563746 AACGCCGCTAAA
1 AACGCCGCTAAA
4563758 AATATATCTT
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
42 50 0.42
43 48 0.40
44 22 0.18
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (43 bp):
AACGCCGCTAAAGACATAGACCTTTAGCAGCGCTTTTCCCACA
Found at i:4563746 original size:86 final size:84
Alignment explanation
Indices: 4563596--4563762 Score: 228
Period size: 86 Copynumber: 2.0 Consensus size: 84
4563586 AGACCAAGAT
* **
4563596 CTTTAGCGGCGCTTCCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACAA
1 CTTTAGCGGCGCTTCCCCACAAACGCCGCTAAAGA-CAAGACCTTTAGCAACGCTTTTAACACAA
*
4563661 ACCCCGCTAAAGATATTGAG
65 ACCCCGCTAAAAATATTGAG
* *
4563681 CTTTAGCGGCGCTTTTTCCCACAAACGCCGCTATAGA-ATAGACCTTTAGCAACGCTTTTAACAC
1 CTTTAGCGGCGC--TTCCCCACAAACGCCGCTAAAGACA-AGACCTTTAGCAACGCTTTTAACAC
*
4563745 AAACGCCGCTAAAAATAT
63 AAACCCCGCTAAAAATAT
4563763 ATCTTTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 13 0.18
86 38 0.53
87 21 0.29
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (84 bp):
CTTTAGCGGCGCTTCCCCACAAACGCCGCTAAAGACAAGACCTTTAGCAACGCTTTTAACACAAA
CCCCGCTAAAAATATTGAG
Found at i:4564098 original size:43 final size:43
Alignment explanation
Indices: 4564032--4564122 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
4564022 ACATATGCAA
* * * *
4564032 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
4564075 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
4564118 -GTAAT
1 GGTAAT
4564123 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:4568116 original size:13 final size:13
Alignment explanation
Indices: 4568098--4568124 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4568088 ATTATCAATC
4568098 TGTTACATTAATT
1 TGTTACATTAATT
4568111 TGTTACATTAATT
1 TGTTACATTAATT
4568124 T
1 T
4568125 ATTTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:4568590 original size:7 final size:7
Alignment explanation
Indices: 4568580--4568631 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
4568570 CAATAACTCT
*
4568580 TAACCTC
1 TAACCCC
**
4568587 TAACCTT
1 TAACCCC
4568594 TAACCCC
1 TAACCCC
4568601 TAACCCC
1 TAACCCC
4568608 TAACCCC
1 TAACCCC
**
4568615 TAACTAC
1 TAACCCC
4568622 TAACCCC
1 TAACCCC
4568629 TAA
1 TAA
4568632 ATCTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCCC
Done.