Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 158 of 199
Found at i:46467785 original size:9 final size:9
Alignment explanation
Indices: 46467771--46467799 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
46467761 TATCGAATAT
46467771 ATATAATTA
1 ATATAATTA
46467780 ATATAATTA
1 ATATAATTA
46467789 ATATAATTA
1 ATATAATTA
46467798 AT
1 AT
46467800 TTGATAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATAATTA
Found at i:46467792 original size:20 final size:20
Alignment explanation
Indices: 46467748--46467799 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
46467738 ATTCAATATA
*
46467748 AATATATAATTATTATCGAAT
1 AATATATAATTAATATC-AAT
46467769 -ATATATAATTAATAT-AAT
1 AATATATAATTAATATCAAT
*
46467787 TA-ATATAATTAAT
1 AATATATAATTAAT
46467800 TTGATAAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 14 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AATATATAATTAATATCAAT
Found at i:46481202 original size:12 final size:12
Alignment explanation
Indices: 46481187--46481217 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46481177 TTCTAGTTTT
46481187 CACACGGCCTAG
1 CACACGGCCTAG
*
46481199 CACACGGCTTAG
1 CACACGGCCTAG
46481211 CACACGG
1 CACACGG
46481218 GCGACTGAGG
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:0.26, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:46487703 original size:19 final size:18
Alignment explanation
Indices: 46487679--46487717 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46487669 AAGACTAAGA
46487679 AATAATTATAAAGAAAAAT
1 AATAATT-TAAAGAAAAAT
* *
46487698 AATAATTTCATGAAAAAT
1 AATAATTTAAAGAAAAAT
46487716 AA
1 AA
46487718 AGACAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAATTTAAAGAAAAAT
Found at i:46490844 original size:27 final size:27
Alignment explanation
Indices: 46490814--46490991 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
46490804 ATATTGAGCC
* *
46490814 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
46490841 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
46490868 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
46490896 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
46490923 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
46490950 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
46490977 AGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46490992 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:46496408 original size:47 final size:47
Alignment explanation
Indices: 46496337--46496428 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
46496327 GTGATTGGTG
* *
46496337 AAACTATATTTGGTGATCAGGAATTATATATTGTCTCATTAAATGTT
1 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATGTT
*
46496384 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCTTTAAATG
1 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATG
46496429 CTTACTTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (47 bp):
AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATGTT
Found at i:46496860 original size:20 final size:20
Alignment explanation
Indices: 46496782--46496862 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
46496772 TTGTACGGGA
* * * *
46496782 TTGCACTTTGGTGTCTCTAT
1 TTGCACTTCGATGCCTCTGT
*
46496802 TTGCACTTCGATGCCTCTGA
1 TTGCACTTCGATGCCTCTGT
46496822 TTGCA-TAATC-ATGCCTCTGT
1 TTGCACT--TCGATGCCTCTGT
*
46496842 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGATGCCTCTGT
46496862 T
1 T
46496863 ACACATATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 3 0.06
20 44 0.88
21 3 0.06
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:46499194 original size:27 final size:29
Alignment explanation
Indices: 46499161--46499237 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 29
46499151 TCAAGATAAA
*
46499161 TATTAAATTAAATTTAATATTAAATCTT-
1 TATTAAAATAAATTTAATATTAAATCTTG
** * *
46499189 T-TTAAAAT-AATAGAATGTT-TATCTTG
1 TATTAAAATAAATTTAATATTAAATCTTG
*
46499215 TATTAAACTAAATTTAATATTAA
1 TATTAAAATAAATTTAATATTAA
46499238 GATAATCACT
Statistics
Matches: 35, Mismatches: 10, Indels: 7
0.67 0.19 0.13
Matches are distributed among these distances:
25 5 0.14
26 9 0.26
27 12 0.34
28 9 0.26
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (29 bp):
TATTAAAATAAATTTAATATTAAATCTTG
Found at i:46499290 original size:24 final size:24
Alignment explanation
Indices: 46499263--46499324 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
46499253 ATTAAAAGAA
* *
46499263 TAAAATACTATTAATA-TAAGTTTT
1 TAAAATA-TATTAATATTAAATTAT
*
46499287 TAAATTATATTTAATATTAAATTAT
1 TAAAATATA-TTAATATTAAATTAT
46499312 TAAAATAATATTA
1 TAAAAT-ATATTA
46499325 TTTTTGGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 2 0.06
24 12 0.39
25 14 0.45
26 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAAATATATTAATATTAAATTAT
Found at i:46508097 original size:25 final size:25
Alignment explanation
Indices: 46508069--46508124 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
46508059 TCTACTAAGC
46508069 CTTTGTGGTGTATTATGTATGTTGA
1 CTTTGTGGTGTATTATGTATGTTGA
* *
46508094 CTTTGTGTTGTATTATGTATGTTGC
1 CTTTGTGGTGTATTATGTATGTTGA
46508119 CTTTGT
1 CTTTGT
46508125 AGTGAGTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.12, C:0.07, G:0.25, T:0.55
Consensus pattern (25 bp):
CTTTGTGGTGTATTATGTATGTTGA
Found at i:46512008 original size:21 final size:21
Alignment explanation
Indices: 46511967--46512025 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
46511957 ATTTTGTATC
*
46511967 AAAGAAAGTGAAAGGAAAAGAGA
1 AAAG-AAG-GAAAGCAAAAGAGA
*
46511990 AAAGAAGGAATGCAAAAGAGA
1 AAAGAAGGAAAGCAAAAGAGA
46512011 AAAGAAGGAAAGCAA
1 AAAGAAGGAAAGCAA
46512026 GTGTTACTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 26 0.79
22 3 0.09
23 4 0.12
ACGTcount: A:0.64, C:0.03, G:0.29, T:0.03
Consensus pattern (21 bp):
AAAGAAGGAAAGCAAAAGAGA
Found at i:46527411 original size:9 final size:9
Alignment explanation
Indices: 46527399--46527430 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
46527389 TTTTAAATTG
46527399 TTTAATAAT
1 TTTAATAAT
46527408 TTTAATAAT
1 TTTAATAAT
46527417 TTTAATAAT
1 TTTAATAAT
46527426 TTTAA
1 TTTAA
46527431 ATACAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAATAAT
Found at i:46527412 original size:18 final size:17
Alignment explanation
Indices: 46527389--46527432 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
46527379 TTTGTTTTTC
46527389 TTTTAAATTGTTTAATAA
1 TTTTAAATT-TTTAATAA
*
46527407 TTTTAATAATTTTAATAA
1 TTTTAA-ATTTTTAATAA
46527425 TTTTAAAT
1 TTTTAAAT
46527433 ACAAATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTTAAATTTTTAATAA
Found at i:46534347 original size:21 final size:23
Alignment explanation
Indices: 46534323--46534366 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
46534313 TTTTTTTATC
46534323 TCAAAAGTA-CTT-TTGAAAAAT
1 TCAAAAGTATCTTATTGAAAAAT
*
46534344 TCAAAAGTATCTTATTTAAAAAT
1 TCAAAAGTATCTTATTGAAAAAT
46534367 ATTTTTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 8 0.40
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (23 bp):
TCAAAAGTATCTTATTGAAAAAT
Found at i:46535200 original size:13 final size:14
Alignment explanation
Indices: 46535182--46535211 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
46535172 ATTGTTTATA
46535182 TTTAAAGG-AATAT
1 TTTAAAGGAAATAT
46535195 TTTAAAGGAAATAT
1 TTTAAAGGAAATAT
46535209 TTT
1 TTT
46535212 CATTTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TTTAAAGGAAATAT
Found at i:46536803 original size:18 final size:17
Alignment explanation
Indices: 46536773--46536806 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46536763 CTGATTACCT
46536773 AATTAAATTTTAAATAA
1 AATTAAATTTTAAATAA
*
46536790 AATTTAATTATTAAATA
1 AATTAAATT-TTAAATA
46536807 TAACAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTTTAAATAA
Found at i:46539049 original size:23 final size:23
Alignment explanation
Indices: 46539021--46539066 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46539011 TAGATTTTTC
*
46539021 TTAAATATTATCACTAAATAATT
1 TTAAATATTATCACCAAATAATT
46539044 TTAAATATTATCACCAAATAATT
1 TTAAATATTATCACCAAATAATT
46539067 CAAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAATATTATCACCAAATAATT
Found at i:46539072 original size:23 final size:23
Alignment explanation
Indices: 46539023--46539072 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
46539013 GATTTTTCTT
* **
46539023 AAATATTATCACTAAATAATTTT
1 AAATATTATCACCAAATAATTCA
46539046 AAATATTATCACCAAATAATTCA
1 AAATATTATCACCAAATAATTCA
46539069 AAAT
1 AAAT
46539073 TTAAAACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATTATCACCAAATAATTCA
Found at i:46539729 original size:39 final size:40
Alignment explanation
Indices: 46539677--46539765 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
46539667 AAAATTTATA
** *
46539677 TTTAATACCATAAAACATTTAGTATATTTAT-TTATAT-TT
1 TTTAATATAATAAAACATTTAGTATATTTATGGTA-ATGTT
* *
46539716 TTTAATATAATAAAACTTTTATTATATTTATGGTAATGTT
1 TTTAATATAATAAAACATTTAGTATATTTATGGTAATGTT
46539756 TTTAATATAA
1 TTTAATATAA
46539766 ATACTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 29 0.67
40 14 0.33
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTAGTATATTTATGGTAATGTT
Found at i:46545557 original size:4 final size:4
Alignment explanation
Indices: 46545548--46545574 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46545538 TTCATCTTCT
46545548 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
46545575 TACCTTCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:46545820 original size:28 final size:28
Alignment explanation
Indices: 46545764--46545865 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 28
46545754 TTCTCTTGAA
*
46545764 TAAGGTTTAAAATTTTAAGATTTAGTGT
1 TAAGGTTTACAATTTTAAGATTTAGTGT
* *
46545792 TAAGGCTTACAATTTTATGATTTTA-TGT
1 TAAGGTTTACAATTTTAAGA-TTTAGTGT
** * ** *
46545820 TTGGGTTTACAATTTAAACCTTTTGTGTT
1 TAAGGTTTACAATTTTAAGATTTAGTG-T
*
46545849 TAATGTTTA-AATTTTAA
1 TAAGGTTTACAATTTTAA
46545866 AGTTTAAGAA
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
27 3 0.05
28 42 0.75
29 11 0.20
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (28 bp):
TAAGGTTTACAATTTTAAGATTTAGTGT
Found at i:46546703 original size:12 final size:12
Alignment explanation
Indices: 46546686--46546763 Score: 67
Period size: 11 Copynumber: 6.8 Consensus size: 12
46546676 AACTAATCCT
46546686 CTCTCAAATTTC
1 CTCTCAAATTTC
*
46546698 CTCTC-AATTTT
1 CTCTCAAATTTC
* *
46546709 TTTTCTAAATTTC
1 CTCTC-AAATTTC
*
46546722 CTCTC-AATTTG
1 CTCTCAAATTTC
46546733 CTCTCAAA-TTC
1 CTCTCAAATTTC
46546744 CT-TCAAAATTT-
1 CTCTC-AAATTTC
46546755 CTCTCAAAT
1 CTCTCAAAT
46546764 CCATATTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
10 2 0.04
11 31 0.60
12 11 0.21
13 8 0.15
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.46
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:46546789 original size:51 final size:51
Alignment explanation
Indices: 46546725--46546822 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
46546715 AAATTTCCTC
* *
46546725 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTACTCTCAAATTCCTCT-AAAATATCTCTCAAATCCATATTTATTT
* * * *
46546776 TCAATTTACTCTCAAGTTCCTCTTAAATATCTCTTAAATCCCTATTT
1 TCAATTTACTCTCAAATTCCTCTAAAATATCTCTCAAATCCATATTT
46546823 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.45
Consensus pattern (51 bp):
TCAATTTACTCTCAAATTCCTCTAAAATATCTCTCAAATCCATATTTATTT
Found at i:46548624 original size:18 final size:18
Alignment explanation
Indices: 46548597--46548636 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46548587 CATGTGCGTT
* *
46548597 TCCTATCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
46548615 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
46548633 TCCT
1 TCCT
46548637 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.05, T:0.47
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:46549157 original size:22 final size:22
Alignment explanation
Indices: 46549132--46549737 Score: 677
Period size: 22 Copynumber: 28.0 Consensus size: 22
46549122 TTTAATTGAC
* *
46549132 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
46549154 AAACTCT-AACCCTTAAAC-TAA
1 AAACCCTAAACCCTT-AACTTAA
* *
46549175 AAACCCTAAACCTTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
46549197 AAACTCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
46549219 AAACCTTAACCCCTTAACCT-A
1 AAACCCTAAACCCTTAACTTAA
* *
46549240 AAACCCT-AACCATTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46549261 AAACCATAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46549283 GAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
46549304 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
46549326 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
46549347 AAACCCATAAACCCTTAACCTAA
1 AAACCC-TAAACCCTTAACTTAA
*
46549370 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
** * *
46549391 AAACTTTAAACTCTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46549413 AAACCCTAAACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
46549435 AAGCCCT-AACCCATTAACTTAA
1 AAACCCTAAACCC-TTAACTTAA
*
46549457 AAACCCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
46549478 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46549500 AAACCCT-AACTCTTTAAATTAA
1 AAACCCTAAAC-CCTTAACTTAA
*
46549522 AAACCCT-AACCCTTAACTCAA
1 AAACCCTAAACCCTTAACTTAA
*
46549543 AAACCCTAAACCCTAAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
46549565 AAACCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46549586 AAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
46549608 AAACCCTAAACCCTTAAATT-A
1 AAACCCTAAACCCTTAACTTAA
*
46549629 AAACCCATAAACCCTTAACATAA
1 AAACCC-TAAACCCTTAACTTAA
*
46549652 AAACCCT-AACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
46549673 AAA-CTTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
46549694 AAACCCTAAACTCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
46549716 AAATCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
46549737 A
1 A
46549738 TATAATTTGA
Statistics
Matches: 491, Mismatches: 75, Indels: 37
0.81 0.12 0.06
Matches are distributed among these distances:
20 11 0.02
21 181 0.37
22 285 0.58
23 14 0.03
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:46549191 original size:65 final size:67
Alignment explanation
Indices: 46549132--46549737 Score: 623
Period size: 65 Copynumber: 9.3 Consensus size: 67
46549122 TTTAATTGAC
* * * *
46549132 AAACCTTAAACCCTTAACCTAAAAACTCT-AACCCTTAAAC-TAAAAACCCTAAACCTTTAACCT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAACCTTTAACTT
46549195 AA
66 AA
* * * * *
46549197 AAACTCTAAACCCTTAACTTAAAAACCTTAACCCCTT-AACCT-AAAACCCT-AACCATTAACTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAACCTTTAACTT
*
46549259 TA
66 AA
* * * * * *
46549261 AAACCATAAACCCTTAATTTAAGAACCCT-AACCCTT-AACTTTAAAACCCTAAACCCTTAAATT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAACCTTTAACTT
46549324 AA
66 AA
* *
46549326 AAACCCTAAACCCTTAACTT-AAAACCCATAAACCCTT-AACCTAAAAACCCT-AACCCTTAACT
1 AAACCCTAAACCCTTAACTTAAAAACCC-TAAACCCTTAAACTTAAAAACCCTAAACCTTTAACT
*
46549388 TTA
65 TAA
** * * * * * *
46549391 AAACTTTAAACTCTTAATTTAAAAACCCTAAACCATT-AACTTAAAAGCCCTAACCCATTAACTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAACCTTTAACTT
46549455 AA
66 AA
* *
46549457 AAACCCT-AACCTTTAACTTAAAAACCCTAAACCCTT-AACTTAAAAACCCT-AACTCTTTAAAT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAAC-CTTTAACT
46549519 TAA
65 TAA
*
46549522 AAACCCT-AACCCTTAACTCAAAAACCCTAAACCC-TAAACTTAAAAACCCT-AA-CTCTTAACT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAACCT-TTAACT
*
46549583 TTA
65 TAA
* * * *
46549586 AAACCCTAAACCTTTAAATTAAAAACCCTAAACCCTTAAA-TT-AAAACCCATAAACCCTTAACA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCC-TAAACCTTTAACT
46549649 TAA
65 TAA
* * * * *
46549652 AAACCCT-AACTCTTAACTTAAAAA-CTTTAACCCTT-AACTTTAAAACCCTAAA-CTCTTAAAT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAACCT-TTAACT
46549713 TAA
65 TAA
*
46549716 AAATCCT-AACCCTTAACTTAAA
1 AAACCCTAAACCCTTAACTTAAA
46549738 TATAATTTGA
Statistics
Matches: 456, Mismatches: 66, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
63 15 0.03
64 115 0.25
65 256 0.56
66 69 0.15
67 1 0.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (67 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAAACCTTTAACTT
AA
Found at i:46549193 original size:43 final size:43
Alignment explanation
Indices: 46549132--46549737 Score: 679
Period size: 43 Copynumber: 14.0 Consensus size: 43
46549122 TTTAATTGAC
* * *
46549132 AAACCTTAAACCCTTAACCTAAAAACTCTAACCCTTAAAC-TAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTT-AACTTAA
* * *
46549175 AAACCCTAAACCTTTAACCTAAAAACTCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * * * *
46549219 AAACCTTAACCCCTTAACCT-AAAACCCTAACCATTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * *
46549261 AAACCATAAACCCTTAATTTAAGAACCCTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
*
46549304 AAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* *
46549347 AAACCCATAAACCCTTAACCTAAAAACCCTAACCCTTAACTTTA
1 AAACCC-TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
** * * *
46549391 AAACTTTAAACTCTTAATTTAAAAACCCTAAACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* *
46549435 AAGCCCT-AACCCATTAACTTAAAAACCCTAACCTTTAACTTAA
1 AAACCCTAAACCC-TTAACTTAAAAACCCTAACCCTTAACTTAA
* *
46549478 AAACCCTAAACCCTTAACTTAAAAACCCTAACTCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAC-CCTTAACTTAA
* *
46549522 AAACCCT-AACCCTTAACTCAAAAACCCTAAACCCTAAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * * *
46549565 AAACCCT-AACTCTTAACTTTAAAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* *
46549608 AAACCCTAAACCCTTAAATT-AAAACCCATAAACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAAAAACCC-T-AACCCTTAACTTAA
* ** *
46549652 AAACCCT-AACTCTTAACTTAAAAACTTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
46549694 AAACCCTAAACTCTTAAATTAAAAATCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
46549737 A
1 A
46549738 TATAATTTGA
Statistics
Matches: 488, Mismatches: 60, Indels: 30
0.84 0.10 0.05
Matches are distributed among these distances:
42 47 0.10
43 285 0.58
44 156 0.32
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (43 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
Found at i:46553252 original size:125 final size:125
Alignment explanation
Indices: 46552904--46553470 Score: 658
Period size: 125 Copynumber: 4.5 Consensus size: 125
46552894 CCTAAACATG
* *
46552904 CTACTGTAGCAAAAGCACGTCCACATGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
46552969 TAGAAGCGA--TTTCATACTATTTACTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGAC
66 TTGAAGC-ATTTTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * * * ** **
46553028 CTACTGTCGTAAAAGCGCGTCTACGAGGGTGCAATTTCACAAATTCTTCTCA-AATAGCAAGCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * * *
46553092 TTTGCAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
65 CTTGAAGCATT-TTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * * *
46553154 CTACTGT-GCAAAAGTGCGTCCACGTGGGCGCGACTTCACAAATTATTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
46553218 TTGAAGCATTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TTGAAGCA-TTTTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGAC
* * * *
46553280 CAACTGTAGCAAAAGCGCGTCCATGAGGGCATGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
46553345 TTGAAGCATTTTTTAAACTATTTACTCAAAAACGTCAAGTCGAAATTATTTTTCCAAGAC
66 TTGAAGCATTTTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * ** * * *
46553405 CTACTGTAGCAAAAGTGCGTACACGTGGGCGTGACTTCA-AAAACCTTCTGATAAATCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
46553469 TT
66 TT
46553471 TGATTTTATC
Statistics
Matches: 374, Mismatches: 61, Indels: 16
0.83 0.14 0.04
Matches are distributed among these distances:
123 2 0.01
124 77 0.21
125 127 0.34
126 111 0.30
127 57 0.15
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:46553443 original size:252 final size:249
Alignment explanation
Indices: 46552904--46553443 Score: 694
Period size: 252 Copynumber: 2.2 Consensus size: 249
46552894 CCTAAACATG
** * * *
46552904 CTACTGTAGCAAAAGCACGTCCACATGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGTGCGTCCACGTGGGCGTGACTTCACAAATTATTCTCATAAAGCATCCTGC
* * * *
46552969 TAGAAGCGATTTCATACTATTTACTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTG
66 TAGAAGCGATTTCAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTG
* * * * * *
46553034 TCGTAAAAGCGCGTCTACGAGGGTGCAATTTCACAAATTCTTCTCAAATAGCAAGCTGTTTGCAG
131 TAGCAAAAGCGCGTCCACGAGGGTG-AATTTCACAAATTCTTCTCAAATAGCAACCTGCTTGAAG
* * * * * *
46553099 CGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
195 CATTGTTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAAGAC
* *
46553154 CTACTGT-GCAAAAGTGCGTCCACGTGGGCGCGACTTCACAAATTATTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGTGCGTCCACGTGGGCGTGACTTCACAAATTATTCTCATAAAGCATCCTGC
* * *
46553218 TTGAAGC-ATTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTCTTCCAGGACCA
66 TAGAAGCGA---TTTCAAACTATTTACTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGACCA
* *
46553282 ACTGTAGCAAAAGCGCGTCCATGAGGGCATG-ATTTCACAAATTCTTCTCATAA-AGCATCCTGC
127 ACTGTAGCAAAAGCGCGTCCACGAGGG--TGAATTTCACAAATTCTTCTCA-AATAGCAACCTGC
* *
46553345 TTGAAGCATT-TTTTAAACTATTTACTCAAAAACGTCAAGTCGAAATTATTTTTCCAAGAC
189 TTGAAGCATTGTTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAAGAC
*
46553405 CTACTGTAGCAAAAGTGCGTACACGTGGGCGTGACTTCA
1 CTACTGTAGCAAAAGTGCGTCCACGTGGGCGTGACTTCA
46553444 AAAACCTTCT
Statistics
Matches: 250, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
248 1 0.00
249 56 0.22
250 7 0.03
251 86 0.34
252 96 0.38
253 2 0.01
254 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (249 bp):
CTACTGTAGCAAAAGTGCGTCCACGTGGGCGTGACTTCACAAATTATTCTCATAAAGCATCCTGC
TAGAAGCGATTTCAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTG
TAGCAAAAGCGCGTCCACGAGGGTGAATTTCACAAATTCTTCTCAAATAGCAACCTGCTTGAAGC
ATTGTTTTAAACTATTTACTCAAAAACGTCAACTCAAAATTATTTTTCCAAGAC
Found at i:46566481 original size:20 final size:20
Alignment explanation
Indices: 46566453--46566509 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
46566443 AAGATTATGA
*
46566453 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
46566473 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* **
46566493 TCCATTATATTTACTTA
1 ACCATTCCATTTACTTA
46566510 GCATAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:46570138 original size:17 final size:16
Alignment explanation
Indices: 46570115--46570175 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
46570105 TTTAATCACT
46570115 TTAATATTAAATTTAA
1 TTAATATTAAATTTAA
* *
46570131 TGTAATATT-TATCTTGA
1 T-TAATATTAAAT-TTAA
*
46570148 TAAATATTAAATTTAA
1 TTAATATTAAATTTAA
46570164 TTTAATATTAAA
1 -TTAATATTAAA
46570176 ATAATCACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 12 0.34
17 23 0.66
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (16 bp):
TTAATATTAAATTTAA
Found at i:46573199 original size:27 final size:26
Alignment explanation
Indices: 46573142--46573200 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
46573132 CTCATTTCTG
* *
46573142 TAAAATAAAATTTAAAAAATATGAAA
1 TAAATTAAAATTTAAAAAATATCAAA
*
46573168 AAAATTAAAATATTAAAAAAT-TCAATA
1 TAAATTAAAAT-TTAAAAAATATCAA-A
46573195 TAAATT
1 TAAATT
46573201 TAATTTAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAATTAAAATTTAAAAAATATCAAA
Found at i:46577153 original size:123 final size:123
Alignment explanation
Indices: 46576934--46577183 Score: 482
Period size: 123 Copynumber: 2.0 Consensus size: 123
46576924 GGGTATGTGT
*
46576934 TTCCATCAAAACTTACGGCCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
1 TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
46576999 AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
66 AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
46577057 TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
1 TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
*
46577122 AAAACAGTTTAGAGCAGAGGTCGATGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
66 AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
46577180 TTCC
1 TTCC
46577184 TTATCCTGCA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (123 bp):
TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
Found at i:46579536 original size:13 final size:14
Alignment explanation
Indices: 46579512--46579540 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46579502 ACCTAGAGTA
46579512 TTTTTCTAATTTTT
1 TTTTTCTAATTTTT
46579526 TTTTTCT-ATTTTT
1 TTTTTCTAATTTTT
46579539 TT
1 TT
46579541 CGAATTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTAATTTTT
Found at i:46580134 original size:11 final size:10
Alignment explanation
Indices: 46580107--46580171 Score: 67
Period size: 11 Copynumber: 6.0 Consensus size: 10
46580097 ACTTAAATCC
46580107 TTTCTCTCAA
1 TTTCTCTCAA
*
46580117 ATTCTCTCATA
1 TTTCTCTCA-A
46580128 TTTCTCTCCAA
1 TTTCTCT-CAA
46580139 TATTCTCTCATA
1 T-TTCTCTCA-A
46580151 TTTCTCTCAAA
1 TTTCTCTC-AA
*
46580162 TTCCTCTCAA
1 TTTCTCTCAA
46580172 GTTCCTCTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 10 0.21
11 26 0.55
12 11 0.23
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:46580143 original size:23 final size:21
Alignment explanation
Indices: 46580107--46580170 Score: 101
Period size: 23 Copynumber: 2.9 Consensus size: 21
46580097 ACTTAAATCC
46580107 TTTCTCTCAAATTCTCTCATA
1 TTTCTCTCAAATTCTCTCATA
46580128 TTTCTCTCCAATATTCTCTCATA
1 TTTCTCT-CAA-ATTCTCTCATA
46580151 TTTCTCTCAAATTCCTCTCA
1 TTTCTCTCAAATT-CTCTCA
46580171 AGTTCCTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.25
22 12 0.30
23 18 0.45
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTCTCTCAAATTCTCTCATA
Found at i:46580176 original size:11 final size:11
Alignment explanation
Indices: 46580110--46580179 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
46580100 TAAATCCTTT
46580110 CTCTCAAATT-
1 CTCTCAAATTC
* *
46580120 CTCTCATATTT
1 CTCTCAAATTC
46580131 CTCTCCAATATT-
1 CTCT-CAA-ATTC
* *
46580143 CTCTCATATTT
1 CTCTCAAATTC
46580154 CTCTCAAATTC
1 CTCTCAAATTC
*
46580165 CTCTCAAGTTC
1 CTCTCAAATTC
46580176 CTCT
1 CTCT
46580180 TAAAGCTCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
10 12 0.24
11 29 0.58
12 6 0.12
13 3 0.06
ACGTcount: A:0.21, C:0.33, G:0.01, T:0.44
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:46585630 original size:44 final size:44
Alignment explanation
Indices: 46585582--46585767 Score: 282
Period size: 44 Copynumber: 4.2 Consensus size: 44
46585572 TGCAATGTCG
** *
46585582 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTGCTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
* *
46585626 GGGAGATAAGACTTACAATCTCCCACCTATTCCACTGCTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
** * *
46585670 GGGAGATAGGACTTGTAATCTTCGACCTATTCCACTACTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
46585714 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
*
46585758 GAGAGATAGG
1 GGGAGATAGG
46585768 GCTAGTATCT
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 126 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (44 bp):
GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
Found at i:46585681 original size:88 final size:88
Alignment explanation
Indices: 46585582--46585767 Score: 327
Period size: 88 Copynumber: 2.1 Consensus size: 88
46585572 TGCAATGTCG
*
46585582 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTTACAATCT
1 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTACTGGTCAGGGAGATAAGACTTACAATCT
46585647 CCCACCTATTCCACTGCTGGTCA
66 CCCACCTATTCCACTGCTGGTCA
* *
46585670 GGGAGATAGGACTTGTAATCTTCGACCTATTCCACTACTGGTCAGGGAGATAGGACTTACAATCT
1 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTACTGGTCAGGGAGATAAGACTTACAATCT
*
46585735 TCCACCTATTCCACTGCTGGTCA
66 CCCACCTATTCCACTGCTGGTCA
*
46585758 GAGAGATAGG
1 GGGAGATAGG
46585768 GCTAGTATCT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (88 bp):
GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTACTGGTCAGGGAGATAAGACTTACAATCT
CCCACCTATTCCACTGCTGGTCA
Found at i:46586000 original size:45 final size:45
Alignment explanation
Indices: 46585863--46586001 Score: 131
Period size: 45 Copynumber: 3.1 Consensus size: 45
46585853 AAGGCTAGTG
* * *
46585863 TCTTCAATCTGCTTTACTGTCAGTATAGAAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * *** * *
46585908 TCTTCAACCTACTCCACTG-CAACCCAGGGAGGCAACG--CTGATA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAA-GATCTGCTA
* *
46585951 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
46585996 TCTTCA
1 TCTTCA
46586002 GCCTATTCCG
Statistics
Matches: 68, Mismatches: 22, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
43 20 0.29
44 22 0.32
45 26 0.38
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (45 bp):
TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
Found at i:46586130 original size:87 final size:87
Alignment explanation
Indices: 46585893--46586730 Score: 891
Period size: 87 Copynumber: 9.6 Consensus size: 87
46585883 CAGTATAGAA
* * * *
46585893 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAGGGAGGCAACGCTGATATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * * *
46585958 TCTGCTTCGCTGTCAG-TACAGGA
66 TCTGCTCCACT-ACTGCT-TAGGG
* ** * * *
46585981 AGGCAAGATCTGCTATCTTCAGCCTATTCCGCTACAACGGAGGGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
*
46586046 TTTGCTCCACTACTGCTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
46586068 AGGTAAGAT-TCGTTATATTCAACCTGCTCCGCTGCAACCCAGAGAAGCAAGGCTAGTGTCTTCG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCG
* * * * *
46586132 ATCTGCTTCACTGTCAG-TACAGGA
65 ATCTGCTCCACT-ACTGCT-TAGGG
* * **
46586156 AGGTATGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTAA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* *
46586221 TCTGCTCTACTACTGTTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* * * *
46586243 AGGGAAGATCTGCTATCTTTAACCTGTTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
*
46586308 TCTGCTCCACTACTGCTTAAGG
66 TCTGCTCCACTACTGCTTAGGG
* * * * * * *
46586330 AGGCAAGAT-TCGTTATATTCAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCG
* * * * *
46586394 ATCTGCTTCACTGTCAG-TACAGGA
65 ATCTGCTCCACT-ACTGCT-TAGGG
** *** *
46586418 AGGCAAGATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAGGGAGGAAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
*
46586483 TCTGCTCCACTATTGCTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* *
46586505 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAGAGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
46586570 TCTGCTCCACTACTGCTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* * *
46586592 AGGCAAGGTCTGCTATTTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * *
46586656 TCTGCTTCGCTGTCGATGC--AGGA
66 TCTGCTCCACT-AC--TGCTTAGGG
46586679 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGG
46586731 ATTTGTGATT
Statistics
Matches: 621, Mismatches: 114, Indels: 30
0.81 0.15 0.04
Matches are distributed among these distances:
86 41 0.07
87 357 0.57
88 218 0.35
89 5 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (87 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
TCTGCTCCACTACTGCTTAGGG
Found at i:46586148 original size:175 final size:174
Alignment explanation
Indices: 46585893--46586730 Score: 970
Period size: 175 Copynumber: 4.8 Consensus size: 174
46585883 CAGTATAGAA
* * * *
46585893 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAGGGAGGCAACGCTGATATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * * *
46585958 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGCCTATTCCGCTACAACGGAG
66 TCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
*
46586023 GGAGGCAAGGCTGGTATCTTCGATTTGCTCCACTACTGCTTAGGG
130 GGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
46586068 AGGTAAGAT-TCGTTATATTCAACCTGCTCCGCTGCAACCCAGAGAAGCAAGGCTAGTGTCTTCG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCG
* * *
46586132 ATCTGCTTCACTGTCAGTACAGGAAGGTATGATCTGCTATCTTCAACCTGCTCCACTGCAACCGA
65 ATCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGA
** * *
46586197 GGGAGGCAAGGCTGGTATCTTTAATCTGCTCTACTACTGTTTAGGG
129 GGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * *
46586243 AGGGAAGATCTGCTATCTTTAACCTGTTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * * * *
46586308 TCTGCTCCACTACTGCTTA-AGG-AGGCAAGAT-TCGTTATATTCAACCTACTCCGCTGCAACCC
66 TCTGCTTCACT-GT-CGTACAGGAAGGCAAGATCT-GCTATCTTCAACCTACTCCACTGCAACCG
* * * * * * *
46586370 AGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAG-TACAGGA
128 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACTGCT-TAGGG
** *** *
46586418 AGGCAAGATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAGGGAGGAAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * *
46586483 TCTGCTCCACTATTGCT-TAGGGAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
66 TCTGCTTCACTGTCG-TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
*
46586547 AGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
130 GGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
* * *
46586592 AGGCAAGGTCTGCTATTTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * *
46586656 TCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
66 TCTGCTTCACTGTCG-TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
46586721 GGAGGCAAGG
130 GGAGGCAAGG
46586731 ATTTGTGATT
Statistics
Matches: 550, Mismatches: 100, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
173 43 0.08
174 151 0.27
175 350 0.64
176 5 0.01
177 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (174 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
TCTGCTTCACTGTCGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAGG
GAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
Found at i:46586287 original size:44 final size:44
Alignment explanation
Indices: 46586162--46586729 Score: 253
Period size: 43 Copynumber: 13.0 Consensus size: 44
46586152 AGGAAGGTAT
*
46586162 GATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * * * * ***** *
46586206 G-GCTGGTATCTTTAATCTGCTCTACTACTGTTTAGGGAGGGAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
*
46586249 GATCTGCTATCTTTAACCTGTTCCACTGCAACCGAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * * * * ** ** *
46586293 G-GCTGGTATCTTTGATCTGCTCCACTACTGCTTAAGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * * * * *
46586336 GAT-TCGTTATATTCAACCTACTCCGCTGCAACCCAGGGAGGCAA
1 GATCT-GCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * * *
46586380 G-GCTAG-TGTCTTCGATCTGCTTCACTGTCAGTA-C-AGGAAGGCAA
1 GATCT-GCTATCTTTAACCTGCTCCACTG-CA--ACCGAGGGAGGCAA
* ** *** *
46586424 GATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAGGGAGGAAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * **** **
46586468 G-GCTGGTATCTTCGATCTGCTCCACTATTGCTTAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * *
46586511 GATCTGCTATCTTCAACCTACTCCACTGCAACCGAGAGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * * ** **
46586555 G-GCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* *
46586598 GGTCTGCTAT-TTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAA
1 GATCTGCTATCTTT-AACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * * * * * *
46586641 G-GCTGGTATCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTG-CAACCG-AGGGAGGCAA
*
46586685 GATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
46586729 G
1 G
46586730 GATTTGTGAT
Statistics
Matches: 371, Mismatches: 133, Indels: 40
0.68 0.24 0.07
Matches are distributed among these distances:
42 15 0.04
43 159 0.43
44 156 0.42
45 40 0.11
46 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (44 bp):
GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
Found at i:46586369 original size:262 final size:262
Alignment explanation
Indices: 46585805--46586730 Score: 1275
Period size: 262 Copynumber: 3.5 Consensus size: 262
46585795 CAGTACAAGA
* * * * *
46585805 AGGCAAGATTCATTATATTCAACTTGCTCCGCTACAACCCAGGGAGGTAAGGCTAGTGTCTTCAA
1 AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
* * * * *
46585870 TCTGCTTTACTGTCAGTATAGAAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAG
66 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
* * * * * ** *
46585935 GGAGGCAACGCTGATATCTTCGATCTGCT-TCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCT
131 GGAGGCAAGGCTGGTATCTTCGATCTGCTCT-ACT-ACTGTTTAGGGAGGCAAGATCTGCTATCT
* * * * *
46585999 TCAGCCTATTCCGCTACAACGGAGGGAGGCAAGGCTGGTATCTTCGATTTGCTCCACTACTGCTT
194 TCAACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTT
46586064 AGGG
259 AGGG
* * *
46586068 AGGTAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGAGAAGCAAGGCTAGTGTCTTCGA
1 AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
* *
46586133 TCTGCTTCACTGTCAGTACAGGAAGGTATGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
66 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
** * *
46586198 GGAGGCAAGGCTGGTATCTTTAATCTGCTCTACTACTGTTTAGGGAGGGAAGATCTGCTATCTTT
131 GGAGGCAAGGCTGGTATCTTCGATCTGCTCTACTACTGTTTAGGGAGGCAAGATCTGCTATCTTC
* * *
46586263 AACCTGTTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTGATCTGCTCCACTACTGCTTAA
196 AACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
46586328 GG
261 GG
*
46586330 AGGCAAGATTCGTTATATTCAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
1 AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
** ***
46586395 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAG
66 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
* * * *
46586460 GGAGGAAAGGCTGGTATCTTCGATCTGCTCCACTATTGCTTAGGGAGGCAAGATCTGCTATCTTC
131 GGAGGCAAGGCTGGTATCTTCGATCTGCTCTACTACTGTTTAGGGAGGCAAGATCTGCTATCTTC
* *
46586525 AACCTACTCCACTGCAACCGAGAGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
196 AACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
46586590 GG
261 GG
* * * * * * * *
46586592 AGGCAAG-GTCTGCTATTTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAAGGCTGGTATCTTCG
1 AGGCAAGATTC-GTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCG
* *
46586655 ATCTGCTTCGCTGTC-GATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCG
65 ATCTGCTTCACTGTCAG-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCG
46586719 AGGGAGGCAAGG
129 AGGGAGGCAAGG
46586731 ATTTGTGATT
Statistics
Matches: 584, Mismatches: 76, Indels: 8
0.87 0.11 0.01
Matches are distributed among these distances:
260 1 0.00
261 95 0.16
262 345 0.59
263 142 0.24
264 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (262 bp):
AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
GGAGGCAAGGCTGGTATCTTCGATCTGCTCTACTACTGTTTAGGGAGGCAAGATCTGCTATCTTC
AACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
GG
Found at i:46589002 original size:24 final size:25
Alignment explanation
Indices: 46588956--46589013 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
46588946 ATTTTCATAT
46588956 TTTTTATTTTGACTTTGATTTTTTTC
1 TTTTT-TTTTGACTTTGATTTTTTTC
46588982 TTTTTTTTTG-CTTCTGATTTTTTTC
1 TTTTTTTTTGACTT-TGATTTTTTTC
46589007 TTTTTTT
1 TTTTTTT
46589014 CATTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 3 0.10
25 23 0.74
26 5 0.16
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.78
Consensus pattern (25 bp):
TTTTTTTTTGACTTTGATTTTTTTC
Found at i:46597556 original size:19 final size:19
Alignment explanation
Indices: 46597529--46597567 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
46597519 CCCTATTTTA
46597529 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
46597548 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
46597567 C
1 C
46597568 TTCCTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:46601019 original size:88 final size:91
Alignment explanation
Indices: 46600847--46601051 Score: 283
Period size: 88 Copynumber: 2.3 Consensus size: 91
46600837 TTGATTTTAG
* *
46600847 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
46600912 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATATTAATTATTTTAAATTATA
*
46600939 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAA-T-TATAT-ATTATTATATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
46601001 TGTAATAATT-ATTATTTTAAATTATA
66 TGTAAT-ATTAATTATTTTAAATTATA
* * * *
46601027 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
46601052 GTTATAATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
88 54 0.52
89 8 0.08
90 1 0.01
91 24 0.23
92 16 0.16
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:46601093 original size:47 final size:49
Alignment explanation
Indices: 46600969--46601094 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
46600959 TATTATCAAG
* * *
46600969 AATTTTATGAAATTATATATTATTATATTATATGTAATAATTATTATTTTA
1 AATTTTATCAAATCATATATT-TTA-ATTATATGTAATAATAATTATTTTA
* * * * * *
46601020 AATTATA-CAAATTCATAAAATATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
46601067 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
46601095 AAATATATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
47 32 0.55
48 6 0.10
49 3 0.05
50 5 0.09
51 12 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:46601222 original size:16 final size:16
Alignment explanation
Indices: 46601201--46601242 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46601191 TTATTAAATT
*
46601201 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46601217 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46601232 AT-TATGTTTAA
1 ATATAT-TTTAA
46601243 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46601227 original size:15 final size:15
Alignment explanation
Indices: 46601192--46601233 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46601182 TTAAGAATTT
*
46601192 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46601206 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46601220 TATTTAATAATAAT
1 TATTTAATTATAAT
46601234 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46601439 original size:44 final size:45
Alignment explanation
Indices: 46601390--46601480 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
46601380 ACCTCTATTC
* *
46601390 CATTCAACCAAACACAAGA-TTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCAATA
*** *
46601434 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCAATA
1 CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCAATA
46601479 CA
1 CA
46601481 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCAATA
Found at i:46601482 original size:16 final size:16
Alignment explanation
Indices: 46601461--46601510 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
46601451 GATTTGCTAT
*
46601461 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
46601477 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
46601493 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46601509 TA
1 TA
46601511 TAGCGAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46601993 original size:126 final size:126
Alignment explanation
Indices: 46601769--46602180 Score: 646
Period size: 126 Copynumber: 3.3 Consensus size: 126
46601759 CAGGCCAAAT
* * * * *
46601769 AGGAACTACTATAGC-AAAAAGCATCCACGTGGGAGCTTCATTCAGTACTTTTGCTAACAAAGCA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
* *
46601833 TCCTGCTTAAAGCGTTATTGACACTATTTGCTCAGAAACGTCCTCTCGAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
*
46601894 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTTAGTACTTTTGCTGACAATGCA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
*
46601959 TCCTGCTTAAAGCGTTTTTGGCACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
* * * *
46602020 AGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATACA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
* * * *
46602085 TCCTACTTAAAGCGTTTTTGCCACCATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
* *
46602146 AGTAAATACTGTAGCAAAAAAGCATCCACGTAGGA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGA
46602181 TCTTTTTTAA
Statistics
Matches: 263, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 14 0.05
126 249 0.95
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (126 bp):
AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
Found at i:46602364 original size:96 final size:94
Alignment explanation
Indices: 46602221--46602521 Score: 381
Period size: 96 Copynumber: 3.1 Consensus size: 94
46602211 AGTAACCCTA
*
46602221 AACCCCAAACCCTAATTTATTTAAGTTTTTCCTT-AAAACCCTAAACACTAAACCTTAATCTAAA
1 AACCCTAAACCCTAATTTATTTAA-TTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCT-AA
*
46602285 TTGTTTAAAATTTATAATTAATTTACTCAAGT
64 TT-TTTAAAATTTATAATTAATTTAATCAAGT
* * * * * *
46602317 AACCCTAAACCCTAATTTGTTTGATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATATGATT
1 AACCCTAAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCT-AAT
46602382 TTTTAAAAATTTATAATTAATTTAATCAAGT
65 TTTT-AAAATTTATAATTAATTTAATCAAGT
* * * * *
46602413 AACCTTAAACCTTAATTTCA-TTAATTTTTCTTTAAAAACCATAAACACGAAACCTTAATCTAAT
1 AACCCTAAACCCTAATTT-ATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCTAAT
* * *
46602477 TTTGAAAAATTTATAATTAATTTAATTAAGA
65 TTT-TAAAATTTATAATTAATTTAATCAAGT
46602508 AACCCTAAACCCTA
1 AACCCTAAACCCTA
46602522 GCCCTTATTT
Statistics
Matches: 176, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
95 53 0.30
96 123 0.70
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCTAATT
TTTAAAATTTATAATTAATTTAATCAAGT
Found at i:46602573 original size:15 final size:16
Alignment explanation
Indices: 46602545--46602581 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
46602535 TAATTTTTTC
46602545 CTTTAAACCCCTAAAA
1 CTTTAAACCCCTAAAA
46602561 CTTTAAA-CCCTAAAA
1 CTTTAAACCCCTAAAA
*
46602576 CCTTAA
1 CTTTAA
46602582 TCCTAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (16 bp):
CTTTAAACCCCTAAAA
Found at i:46602588 original size:14 final size:15
Alignment explanation
Indices: 46602547--46602628 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 15
46602537 ATTTTTTCCT
*
46602547 TTAAACCCCTAAAACT
1 TTAAA-CCCTAAAACC
46602563 TTAAACCCTAAAACC
1 TTAAACCCTAAAACC
*
46602578 TT-AATCCT-AAACC
1 TTAAACCCTAAAACC
* *
46602591 CTAAACCAT-AAACC
1 TTAAACCCTAAAACC
* *
46602605 CTAAACCAT-AAACC
1 TTAAACCCTAAAACC
*
46602619 CT-AACCCTAA
1 TTAAACCCTAA
46602629 CCCTAACGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.19
14 31 0.53
15 11 0.19
16 5 0.09
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
TTAAACCCTAAAACC
Found at i:46602635 original size:6 final size:7
Alignment explanation
Indices: 46602564--46602634 Score: 83
Period size: 7 Copynumber: 10.4 Consensus size: 7
46602554 CCTAAAACTT
46602564 TAAACCC
1 TAAACCC
*
46602571 TAAAACC
1 TAAACCC
* *
46602578 TTAATCC
1 TAAACCC
46602585 TAAACCC
1 TAAACCC
*
46602592 TAAACCA
1 TAAACCC
46602599 TAAACCC
1 TAAACCC
*
46602606 TAAACCA
1 TAAACCC
46602613 TAAACCC
1 TAAACCC
46602620 T-AACCC
1 TAAACCC
46602626 T-AACCC
1 TAAACCC
46602632 TAA
1 TAA
46602635 CGCAGAGACA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
6 12 0.22
7 42 0.78
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:46603481 original size:40 final size:39
Alignment explanation
Indices: 46603433--46603544 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
46603423 TGGCGTTTGA
46603433 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGC-TT
* * *
46603473 ACATAAAACGCCGCTAAAGATCGAGCATTAGCTGCGCTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTT
* * *
46603512 CCAAAAAAGCGCCACTAAAAAT-TAGCATTAGCA
1 ACAAAAAA-CGCCGCTAAAAATCGAGCATTAGCA
46603545 ACGTTTTTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 17 0.27
40 45 0.73
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (39 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTT
Found at i:46603674 original size:41 final size:41
Alignment explanation
Indices: 46603612--46603805 Score: 268
Period size: 41 Copynumber: 4.8 Consensus size: 41
46603602 CATTTGGTTC
* *
46603612 TTTAGCGGCGTTTTTGAAAAAGCGCCTCTAATGCTCAGAG-A
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG-GCT
* * * * *
46603653 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATACACA-GAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
*
46603693 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 -TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
46603735 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
*
46603776 TTTAGCGTCGTTTTTG-AAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
46603806 AAGCCTGATA
Statistics
Matches: 138, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 14 0.10
41 121 0.88
42 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:46603963 original size:26 final size:26
Alignment explanation
Indices: 46603915--46603965 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
46603905 AAAATGGATA
** * *
46603915 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
46603941 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
46603966 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:46604166 original size:14 final size:14
Alignment explanation
Indices: 46604149--46604182 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
46604139 GGGTTTAATA
46604149 TATATGTTTTAAGG
1 TATATGTTTTAAGG
*
46604163 TATATGTTTTAGGG
1 TATATGTTTTAAGG
46604177 TATATG
1 TATATG
46604183 GTTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (14 bp):
TATATGTTTTAAGG
Found at i:46604262 original size:14 final size:15
Alignment explanation
Indices: 46604234--46604266 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
46604224 AAGGTTTATA
46604234 GATTATGGAATTAGG
1 GATTATGGAATTAGG
46604249 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
46604263 GATT
1 GATT
46604267 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:46604750 original size:129 final size:130
Alignment explanation
Indices: 46604504--46604750 Score: 275
Period size: 129 Copynumber: 1.9 Consensus size: 130
46604494 CGAGGTCGGG
*
46604504 TTAGGGTTTAAGGTTTAGATTAAGTAGTATTTTTTAATTTATATATTAATTAAGTTCTTATATAA
1 TTAGGGTTTAAGGTTTAGATTAAGTAGTAGTTTTTAATTTATATATTAATTAAGTTCTTATATAA
* ** ** * * ** * *
46604569 TTGTAAAAGAGGGGTTAGGGGTTTAGTGTTTATATTTTATGATTTAGGGTTTAGAAGCTAGGGGT
66 TTGTAAAAGAGAGAATAGAAGTTTAATATTTATAAATTATGAGTTAGAGTTTAGAAGCTAGGGGT
* * * *
46604634 TTAGGGTTTAGGGTTTAGATTAATTGGT-GTTTTTAATTTATATATTAATTAATTTCTTATATAA
1 TTAGGGTTTAAGGTTTAGATTAAGTAGTAGTTTTTAATTTATATATTAATTAAGTTCTTATATAA
* * * *
46604698 TTGTAAAAGAGATAATATTAATTTTAATATATTA-AAATTAT-AGTTATAGTTTA
66 TTGTAAAAGAGAGAATA-GAAGTTTAATAT-TTATAAATTATGAGTTAGAGTTTA
46604751 AATTATTTAA
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
129 56 0.59
130 36 0.38
131 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (130 bp):
TTAGGGTTTAAGGTTTAGATTAAGTAGTAGTTTTTAATTTATATATTAATTAAGTTCTTATATAA
TTGTAAAAGAGAGAATAGAAGTTTAATATTTATAAATTATGAGTTAGAGTTTAGAAGCTAGGGGT
Found at i:46610027 original size:14 final size:14
Alignment explanation
Indices: 46610010--46610043 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
46610000 GGGTTTAATA
46610010 TATATGTTTTAAGG
1 TATATGTTTTAAGG
*
46610024 TATATGTTTTAGGG
1 TATATGTTTTAAGG
46610038 TATATG
1 TATATG
46610044 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (14 bp):
TATATGTTTTAAGG
Found at i:46610100 original size:7 final size:7
Alignment explanation
Indices: 46610090--46610141 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
46610080 ATTTTAAGGT
*
46610090 TTATAGA
1 TTATGGA
46610097 TTATGGAA
1 TTATGG-A
46610105 TTATGGA
1 TTATGGA
46610112 TTATGGA
1 TTATGGA
*
46610119 TTAGGGA
1 TTATGGA
* *
46610126 TTCTGGT
1 TTATGGA
*
46610133 TTAAGGA
1 TTATGGA
46610140 TT
1 TT
46610142 GTGATTTAGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (7 bp):
TTATGGA
Found at i:46610304 original size:139 final size:139
Alignment explanation
Indices: 46610151--46610408 Score: 360
Period size: 139 Copynumber: 1.9 Consensus size: 139
46610141 TGTGATTTAG
* * * * *
46610151 GGGTTAAGGGTTAGGTGTTAGAGATTAAGAGTTAGA-AATTTAGGGTTTATG-G-ATTCGGTGTT
1 GGGTTAAGGGTTAGGGGTTAGAGATTAAGAATTA-ATAATTTAAGGTTTA-GAGTATTAGG-GTC
46610213 AGGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGG
63 AGGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGG
46610278 GGTAGTAGTTAA
128 GGTAGTAGTTAA
* * * * *
46610290 GGGTTTAGGGTTAGGGGTTAGGGGTTAAGAATTAATGATTTAAGGTTTAGAGTTTTAGGGTCAGG
1 GGGTTAAGGGTTAGGGGTTAGAGATTAAGAATTAATAATTTAAGGTTTAGAGTATTAGGGTCAGG
* *
46610355 TTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAATTAAG
66 ATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAG
46610409 TTCTTATATA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
138 2 0.02
139 98 0.94
140 4 0.04
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.41
Consensus pattern (139 bp):
GGGTTAAGGGTTAGGGGTTAGAGATTAAGAATTAATAATTTAAGGTTTAGAGTATTAGGGTCAGG
ATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGGGGT
AGTAGTTAA
Found at i:46613092 original size:43 final size:40
Alignment explanation
Indices: 46613007--46613198 Score: 156
Period size: 43 Copynumber: 4.5 Consensus size: 40
46612997 TTAATTTTTT
* *
46613007 TAAAAG-CATGTTTTTAGTGGCGTTTGTGAAAAAGCGTCGC
1 TAAAAGTCATATTTTTAGCGGCGTTTGT-AAAAAGCGTCGC
*
46613047 TAAAAGTCATTTTTTATAGCGGCGTTTGTAATAGAAGCGTCGC
1 TAAAAGTCATATTTT-TAGCGGCGTTTGTAA-A-AAGCGTCGC
*
46613090 TAAAGGTCATGATTTTTAGCGGCGTTTGTAGCAAAAGCG-CTGC
1 TAAAAGTCAT-ATTTTTAGCGGCGTTTGTA--AAAAGCGTC-GC
* * * * *
46613133 TAAAGGCCATGATCTTTAGCGTCGTTTGTGGCAAAAGCGTCGC
1 TAAAAGTCAT-ATTTTTAGCGGCGTTTGT--AAAAAGCGTCGC
*
46613176 TAAAGAG-CATGATCTTTAGCGGC
1 TAAA-AGTCAT-ATTTTTAGCGGC
46613199 ATTTTGCGCT
Statistics
Matches: 130, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
40 6 0.05
41 9 0.07
42 14 0.11
43 93 0.72
44 7 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (40 bp):
TAAAAGTCATATTTTTAGCGGCGTTTGTAAAAAGCGTCGC
Found at i:46613161 original size:86 final size:85
Alignment explanation
Indices: 46613007--46613198 Score: 205
Period size: 86 Copynumber: 2.3 Consensus size: 85
46612997 TTAATTTTTT
* * * *
46613007 TAAA-AGCATG-TTTTTAGTGGCGTTTGTGAAAAAGCGTCGCTAAAAGTCATTTTTTATAGCGGC
1 TAAAGAGCATGATTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAAGCCATATCTTATAGCGGC
* *
46613070 GTTTGTAATAGAAGCGTCGC
66 GTTTGTAACAAAAGCGTCGC
* *
46613090 TAAAG-GTCATGATTTTTAGCGGCGTTTGTAGCAAAAGCG-CTGCTAAAGGCCATGATCTT-TAG
1 TAAAGAG-CATGATTTTTAGCGGCGTTTGT-GAAAAAGCGTC-GCTAAAAGCCAT-ATCTTATAG
* **
46613152 CGTCGTTTGTGGCAAAAGCGTCGC
62 CGGCGTTTGTAACAAAAGCGTCGC
*
46613176 TAAAGAGCATGATCTTTAGCGGC
1 TAAAGAGCATGATTTTTAGCGGC
46613199 ATTTTGCGCT
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
83 5 0.06
84 4 0.04
85 17 0.19
86 60 0.67
87 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (85 bp):
TAAAGAGCATGATTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAAGCCATATCTTATAGCGGC
GTTTGTAACAAAAGCGTCGC
Found at i:46613387 original size:30 final size:30
Alignment explanation
Indices: 46613353--46613415 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
46613343 ACTTATTTTA
46613353 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
46613383 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
46613413 TTG
1 TTG
46613416 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:46623198 original size:36 final size:37
Alignment explanation
Indices: 46623151--46623237 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
46623141 CCACTTTTGT
* * * *
46623151 GGTGTGTAGGGTGAATGGCCTATTATGGTCTT-ATGC
1 GGTGTGCAGGGTGAATGGCCTACTATAGCCTTAATGC
* * *
46623187 GGTGTGCAGGGTGGATTGGCCTACTGTAGCCTTAATGT
1 GGTGTGCAGGGT-GAATGGCCTACTATAGCCTTAATGC
46623225 GGTGTGCAGGGTG
1 GGTGTGCAGGGTG
46623238 GACGAAGTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 11 0.26
37 16 0.38
38 15 0.36
ACGTcount: A:0.15, C:0.13, G:0.40, T:0.32
Consensus pattern (37 bp):
GGTGTGCAGGGTGAATGGCCTACTATAGCCTTAATGC
Found at i:46623231 original size:38 final size:37
Alignment explanation
Indices: 46623148--46623239 Score: 105
Period size: 38 Copynumber: 2.5 Consensus size: 37
46623138 GTTCCACTTT
* * * *
46623148 TGTGGTGTGTAGGGT-GAATGGCCTATTATGGTCTTA
1 TGTGGTGTGCAGGGTGGAATGGCCTACTATAGCCTTA
* * *
46623184 TGCGGTGTGCAGGGTGGATTGGCCTACTGTAGCCTTAA
1 TGTGGTGTGCAGGGTGGAATGGCCTACTATAGCCTT-A
46623222 TGTGGTGTGCAGGGTGGA
1 TGTGGTGTGCAGGGTGGA
46623240 CGAAGTGGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 13 0.28
37 15 0.33
38 18 0.39
ACGTcount: A:0.15, C:0.12, G:0.40, T:0.33
Consensus pattern (37 bp):
TGTGGTGTGCAGGGTGGAATGGCCTACTATAGCCTTA
Found at i:46629259 original size:18 final size:18
Alignment explanation
Indices: 46629236--46629275 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
46629226 GATACTGTAT
46629236 ACTGAAAA-TAGTAGTAAA
1 ACTGAAAACTA-TAGTAAA
*
46629254 ACTGAAAACTATAGTAAG
1 ACTGAAAACTATAGTAAA
46629272 ACTG
1 ACTG
46629276 CGATTCGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (18 bp):
ACTGAAAACTATAGTAAA
Found at i:46636591 original size:49 final size:46
Alignment explanation
Indices: 46636535--46636651 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 46
46636525 TTTATTTTCT
46636535 CGATGCCATAGTCCAACTATTGTCTTACACATAATCACATAACATATAC
1 CGATGCCATAG-CC-ACTA-TGTCTTACACATAATCACATAACATATAC
46636584 CGATGCCATAGCC-C-A-G-----CACATAATCACATAACATATAC
1 CGATGCCATAGCCACTATGTCTTACACATAATCACATAACATATAC
46636622 CGATGCCATAGCCCAGCTATGGTCTTACAC
1 CGATGCCATAG-CCA-CTAT-GTCTTACAC
46636652 GAAATTACAT
Statistics
Matches: 57, Mismatches: 0, Indels: 22
0.72 0.00 0.28
Matches are distributed among these distances:
38 33 0.58
39 2 0.04
41 1 0.02
42 1 0.02
43 1 0.02
44 1 0.02
45 1 0.02
46 1 0.02
48 2 0.04
49 14 0.25
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (46 bp):
CGATGCCATAGCCACTATGTCTTACACATAATCACATAACATATAC
Found at i:46636613 original size:38 final size:38
Alignment explanation
Indices: 46636562--46636638 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
46636552 TATTGTCTTA
46636562 CACATAATCACATAACATATACCGATGCCATAGCCCAG
1 CACATAATCACATAACATATACCGATGCCATAGCCCAG
46636600 CACATAATCACATAACATATACCGATGCCATAGCCCAG
1 CACATAATCACATAACATATACCGATGCCATAGCCCAG
46636638 C
1 C
46636639 TATGGTCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.18
Consensus pattern (38 bp):
CACATAATCACATAACATATACCGATGCCATAGCCCAG
Found at i:46637580 original size:23 final size:22
Alignment explanation
Indices: 46637550--46637596 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
46637540 GAAAATAGAG
46637550 TCATTTAGCTT-TAATTTCATATT
1 TCATTTAGCTTCTAA-TTCA-ATT
46637573 TCATTTAGCTTCTAATTCAATT
1 TCATTTAGCTTCTAATTCAATT
46637595 TC
1 TC
46637597 CACCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.26, C:0.17, G:0.04, T:0.53
Consensus pattern (22 bp):
TCATTTAGCTTCTAATTCAATT
Found at i:46637888 original size:26 final size:26
Alignment explanation
Indices: 46637857--46637909 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
46637847 AATAAATAAT
46637857 TCGGGGAAT-TAACACTTAGAAACCCC
1 TCGGGGAATCT-ACACTTAGAAACCCC
* *
46637883 TCGGGGAATCTGCACTTAGCAACCCC
1 TCGGGGAATCTACACTTAGAAACCCC
46637909 T
1 T
46637910 TTTTGATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (26 bp):
TCGGGGAATCTACACTTAGAAACCCC
Found at i:46640511 original size:10 final size:10
Alignment explanation
Indices: 46640496--46640528 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
46640486 TAGCATAAAG
46640496 AAGTGTTTTA
1 AAGTGTTTTA
46640506 AAGTGTTTT-
1 AAGTGTTTTA
46640515 -AGTGTTTTA
1 AAGTGTTTTA
46640524 AAGTG
1 AAGTG
46640529 GTTTGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (10 bp):
AAGTGTTTTA
Found at i:46643514 original size:19 final size:19
Alignment explanation
Indices: 46643487--46643524 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46643477 ATCAAAGCTT
*
46643487 GAAATGGTATCGATACTTA
1 GAAAGGGTATCGATACTTA
*
46643506 GAAAGGGTATTGATACTTA
1 GAAAGGGTATCGATACTTA
46643525 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (19 bp):
GAAAGGGTATCGATACTTA
Found at i:46644061 original size:35 final size:35
Alignment explanation
Indices: 46644022--46644094 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
46644012 AACAAACCAG
* *
46644022 ATGCTCGTAAGAGCCAATCCATCCGAAACACACTA
1 ATGCTCATAAGAGCCAATCCATCCAAAACACACTA
* *
46644057 ATGCTCATAAGAGCTAATCCCTCCAAAACACACTA
1 ATGCTCATAAGAGCCAATCCATCCAAAACACACTA
46644092 ATG
1 ATG
46644095 TTTACCGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.19
Consensus pattern (35 bp):
ATGCTCATAAGAGCCAATCCATCCAAAACACACTA
Found at i:46651398 original size:41 final size:41
Alignment explanation
Indices: 46651295--46651414 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
46651285 TTCTTACCTT
* *
46651295 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCCAATGA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGA
* * ** * * *
46651336 TCAGGGCTCTAATGGCATTTTTGAAAATGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGA
* * *
46651377 TCGGGGTTTTAGCGGCGTTTTTTAAAAAGTGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
46651415 AAATATTTTA
Statistics
Matches: 61, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGA
Found at i:46651801 original size:14 final size:15
Alignment explanation
Indices: 46651766--46651812 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
46651756 TATTTTAAAG
*
46651766 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
46651781 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
46651796 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
46651809 TTTA
1 TTTA
46651813 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:46651833 original size:21 final size:22
Alignment explanation
Indices: 46651778--46651848 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 22
46651768 TAGGGAGTAT
* * * *
46651778 GGATTTAGGGATTATGGATTAG
1 GGATTTAAGGTTTAAGGGTTAG
*
46651800 GGA-TTATGGTTTAAGGGTT-G
1 GGATTTAAGGTTTAAGGGTTAG
*
46651820 GGATTTAAGGTTTACGGGTTAG
1 GGATTTAAGGTTTAAGGGTTAG
*
46651842 GGGTTTA
1 GGATTTA
46651849 GGGGTTAGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.10
21 26 0.65
22 10 0.25
ACGTcount: A:0.23, C:0.01, G:0.38, T:0.38
Consensus pattern (22 bp):
GGATTTAAGGTTTAAGGGTTAG
Found at i:46651865 original size:14 final size:14
Alignment explanation
Indices: 46651846--46651879 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
46651836 GGTTAGGGGT
46651846 TTAGGGGTT-AGACG
1 TTAGGGGTTAAGA-G
46651860 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
46651874 TTAGGG
1 TTAGGG
46651880 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.44, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:46651892 original size:15 final size:16
Alignment explanation
Indices: 46651819--46651904 Score: 62
Period size: 15 Copynumber: 5.8 Consensus size: 16
46651809 TTTAAGGGTT
46651819 GGGATTTA-AGGTTTA
1 GGGATTTAGAGGTTTA
*
46651834 CGGG--TTAGGGGTTTA
1 -GGGATTTAGAGGTTTA
* *
46651849 GGG-GTTAGACG-TTA
1 GGGATTTAGAGGTTTA
* *
46651863 GGGGTTAAGA-G-TTA
1 GGGATTTAGAGGTTTA
46651877 GGGATTTA-AGGTTTA
1 GGGATTTAGAGGTTTA
46651892 GGGATTTAGAGGT
1 GGGATTTAGAGGT
46651905 CGGGTTAGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.02
14 23 0.40
15 26 0.46
16 7 0.12
ACGTcount: A:0.23, C:0.02, G:0.41, T:0.34
Consensus pattern (16 bp):
GGGATTTAGAGGTTTA
Found at i:46652316 original size:19 final size:18
Alignment explanation
Indices: 46652287--46652340 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
46652277 GGACCAAATT
*
46652287 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
46652305 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
46652324 ATAAAAAACTAAAATTA
1 ATAAAAAA-TAAAATTA
46652341 TAGAACTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:46653125 original size:124 final size:124
Alignment explanation
Indices: 46652650--46653108 Score: 632
Period size: 124 Copynumber: 3.7 Consensus size: 124
46652640 TTTAATGGAT
* * * * * *** *
46652650 TTAGCGGCGCTAAGATAAAAACGCCTCTAAAGGTGAGCATTAGAGGCGCTACTTGGGAAATGCCA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
* * * * *
46652715 CAAAACTTCATTTTAATTTAAACAAAACTGTGTCATTTTGT-TTGTCGAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAG-CGAAATTAGCGGCA
*
46652774 TTAGCGGCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
* * * *
46652839 CAAAGCTTCATTGTAGTTTATAGAAAACGGTGTCATTTTGTCTGGCGAAATTAGTGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
* * * * * *
46652898 TTAGCGGCACTATGCTAAAAACGCCGCAAAAGGCGAGAATTAGAGGCGCTATTTTAGAAACTCCG
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
*
46652963 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCGTTTTGTCTAGCGAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
* * * *
46653022 TTAGCGGCGCTAGGCTAAAAACGCCGCGAAATGTGAGAATTAGAGGCGCTATTTTAAAAACGCTA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
46653087 CAAAGCTTCATTGTAGTTTAAA
66 CAAAGCTTCATTGTAGTTTAAA
46653109 TAAGATGCTT
Statistics
Matches: 296, Mismatches: 38, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
124 294 0.99
125 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (124 bp):
TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
Found at i:46653310 original size:16 final size:16
Alignment explanation
Indices: 46653289--46653335 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
46653279 GTCCCTTCTG
*
46653289 CCGTCGCACTCCTTTA
1 CCGTCGCACTCCTCTA
*
46653305 CCGTCGCACTCCTCTG
1 CCGTCGCACTCCTCTA
46653321 CCGTCGCACTCCTCT
1 CCGTCGCACTCCTCT
46653336 TCATCAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.09, C:0.49, G:0.15, T:0.28
Consensus pattern (16 bp):
CCGTCGCACTCCTCTA
Found at i:46653490 original size:22 final size:21
Alignment explanation
Indices: 46653428--46653495 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
46653418 TTTATATTCT
46653428 CCTGTACATAAATTGTTTTACA
1 CCTG-ACATAAATTGTTTTACA
* **
46653450 CCT-ACTTACGTGTGTTTTACA
1 CCTGACATAAAT-TGTTTTACA
46653471 CCTGCACATAAATTGTTTTACA
1 CCTG-ACATAAATTGTTTTACA
46653493 CCT
1 CCT
46653496 TCATTGATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.14
21 12 0.32
22 15 0.41
23 5 0.14
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (21 bp):
CCTGACATAAATTGTTTTACA
Found at i:46654245 original size:14 final size:14
Alignment explanation
Indices: 46654226--46654252 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46654216 AAAGGTTTTT
46654226 TAGTTAATCATCTG
1 TAGTTAATCATCTG
46654240 TAGTTAATCATCT
1 TAGTTAATCATCT
46654253 TTCTCTTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (14 bp):
TAGTTAATCATCTG
Found at i:46654739 original size:37 final size:37
Alignment explanation
Indices: 46654691--46654771 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 37
46654681 ATATTTTTTA
46654691 TTTTTATTTTTTAATTTTAAAATACTTTTAAAATATTT
1 TTTTTATTTTTTAATTTTAAAATA-TTTTAAAATATTT
* **
46654729 TTTTTATTTTTTATTTTTAAAATATTTTTTAATATTT
1 TTTTTATTTTTTAATTTTAAAATATTTTAAAATATTT
*
46654766 ATTTTA
1 TTTTTA
46654772 AAAATGGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 16 0.41
38 23 0.59
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (37 bp):
TTTTTATTTTTTAATTTTAAAATATTTTAAAATATTT
Found at i:46654756 original size:25 final size:26
Alignment explanation
Indices: 46654716--46654776 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
46654706 TTTAAAATAC
* *
46654716 TTTTAAAATATTTTTTTTATTTTTTAT
1 TTTTAAAATA-TTTTTTTAATATTTAT
46654743 TTTTAAAATA-TTTTTTAATATTTAT
1 TTTTAAAATATTTTTTTAATATTTAT
*
46654768 TTTAAAAAT
1 TTTTAAAAT
46654777 GGGCCGGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 21 0.68
27 10 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTAAAATATTTTTTTAATATTTAT
Found at i:46656398 original size:3 final size:3
Alignment explanation
Indices: 46656390--46656430 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
46656380 TTATACAATG
*
46656390 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
46656431 TGGTTAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46657078 original size:16 final size:18
Alignment explanation
Indices: 46657045--46657083 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
46657035 ACAGAAAAAG
46657045 AAAGAAAAGCAATCGGAA
1 AAAGAAAAGCAATCGGAA
*
46657063 AAAGAACAG-AAT-GGAA
1 AAAGAAAAGCAATCGGAA
46657079 AAAGA
1 AAAGA
46657084 GGAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.64, C:0.08, G:0.23, T:0.05
Consensus pattern (18 bp):
AAAGAAAAGCAATCGGAA
Found at i:46658086 original size:19 final size:19
Alignment explanation
Indices: 46658062--46658111 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 19
46658052 ACATAACTTA
46658062 TTAATATTTATATACATTT
1 TTAATATTTATATACATTT
*
46658081 TTAATA--TATATATATTT
1 TTAATATTTATATACATTT
*
46658098 TTAAAATTTATATA
1 TTAATATTTATATA
46658112 TTTTTTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.56
19 12 0.44
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATTTATATACATTT
Found at i:46658092 original size:17 final size:17
Alignment explanation
Indices: 46658070--46658116 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
46658060 TATTAATATT
* *
46658070 TATATACATTTTTAATA
1 TATATATATTTTTAAAA
46658087 TATATATATTTTTAAAA
1 TATATATATTTTTAAAA
*
46658104 TTTATATATTTTT
1 TATATATATTTTT
46658117 TCAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATATATTTTTAAAA
Found at i:46658112 original size:19 final size:19
Alignment explanation
Indices: 46658062--46658127 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
46658052 ACATAACTTA
* *
46658062 TTAATATTTATATACATTT
1 TTAAAATTTATATATATTT
*
46658081 TT--AATATATATATATTT
1 TTAAAATTTATATATATTT
46658098 TTAAAATTTATATAT-TTT
1 TTAAAATTTATATATATTT
46658116 TTCAAAATTTAT
1 TT-AAAATTTAT
46658128 CAATCATATC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 14 0.35
18 5 0.12
19 21 0.52
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAAATTTATATATATTT
Found at i:46658200 original size:9 final size:9
Alignment explanation
Indices: 46658186--46658518 Score: 222
Period size: 9 Copynumber: 38.4 Consensus size: 9
46658176 CTTATATATA
46658186 AACTTACAT
1 AACTTACAT
*
46658195 AACTTAAAT
1 AACTTACAT
46658204 AACTTACAT
1 AACTTACAT
46658213 AA--TACAT
1 AACTTACAT
*
46658220 AACTTTCAT
1 AACTTACAT
46658229 AACTTACAT
1 AACTTACAT
* *
46658238 TA--TACAC
1 AACTTACAT
46658245 AACTTACAT
1 AACTTACAT
46658254 AACTTA-AT
1 AACTTACAT
* *
46658262 CAATATTATACAC
1 --A-ACT-TACAT
46658275 AACTTACAT
1 AACTTACAT
46658284 AA--TACAT
1 AACTTACAT
*
46658291 TACTTACAT
1 AACTTACAT
46658300 AACTTACAT
1 AACTTACAT
* *
46658309 TA--TACAC
1 AACTTACAT
46658316 AACTTACAT
1 AACTTACAT
46658325 AACTTA-ATT
1 AACTTACA-T
*
46658334 ACATTATACAT
1 A-ACT-TACAT
* *
46658345 GATTTACAT
1 AACTTACAT
46658354 AACTTACAT
1 AACTTACAT
46658363 AACTTACAT
1 AACTTACAT
*
46658372 AGCTTACAT
1 AACTTACAT
* *
46658381 -TC-TACAC
1 AACTTACAT
46658388 AACTTACAT
1 AACTTACAT
*
46658397 AACATACAT
1 AACTTACAT
*
46658406 AA--TACAC
1 AACTTACAT
46658413 AACTTACAT
1 AACTTACAT
*
46658422 AGCTTACAT
1 AACTTACAT
46658431 AA--TACAT
1 AACTTACAT
46658438 AACTTACAT
1 AACTTACAT
*
46658447 AACTTATAT
1 AACTTACAT
46658456 AA--TACAT
1 AACTTACAT
46658463 AACTTACAT
1 AACTTACAT
* *
46658472 AATTTACTT
1 AACTTACAT
46658481 AA--TACAT
1 AACTTACAT
* *
46658488 AA-ATATAT
1 AACTTACAT
* *
46658496 ATCATATCAT
1 AACTTA-CAT
46658506 AACTTACAT
1 AACTTACAT
46658515 AACT
1 AACT
46658519 CATTTATACT
Statistics
Matches: 254, Mismatches: 42, Indels: 56
0.72 0.12 0.16
Matches are distributed among these distances:
7 52 0.20
8 10 0.04
9 168 0.66
10 14 0.06
11 6 0.02
12 3 0.01
13 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:46658218 original size:25 final size:25
Alignment explanation
Indices: 46658190--46658516 Score: 125
Period size: 25 Copynumber: 13.0 Consensus size: 25
46658180 TATATAAACT
*
46658190 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
46658215 TACATAACTTTCATAACTTACATTA
1 TACATAACTTACATAACTTACATAA
*
46658240 TACACAACTTACATAACTTAATCAATATTA
1 TACATAACTTACATAACTT-A-C-ATA--A
* *
46658270 TACACAACTTACATAA--TACATTACT
1 TACATAACTTACATAACTTACA-TA-A
* *
46658295 TACATAACTTACATTA--TACACAA
1 TACATAACTTACATAACTTACATAA
*
46658318 CTTACATAAC-T---TAA-TTACATTA
1 --TACATAACTTACATAACTTACATAA
* *
46658340 TACATGATTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
46658365 CTTACATAGCTTACAT-TC-TACACAA
1 --TACATAACTTACATAACTTACATAA
* *
46658390 CTTACATAACATACATAA--TACACAA
1 --TACATAACTTACATAACTTACATAA
*
46658415 CTTACATAGCTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
46658440 CTTACATAACTTATATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* *
46658465 CTTACATAATTTACTTAA--TACATAAA
1 --TACATAACTTACATAACTTACAT-AA
* * *
46658491 TATATATCATATCATAACTTACATAA
1 TACATAACTTA-CATAACTTACATAA
46658517 CTCATTTATA
Statistics
Matches: 242, Mismatches: 39, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
20 6 0.02
21 3 0.01
22 5 0.02
24 12 0.05
25 169 0.70
26 9 0.04
27 18 0.07
28 3 0.01
30 17 0.07
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:46658223 original size:16 final size:16
Alignment explanation
Indices: 46658186--46658474 Score: 115
Period size: 16 Copynumber: 17.8 Consensus size: 16
46658176 CTTATATATA
*
46658186 AACTTACATAACTTAAAT
1 AACTTACATAA--TACAT
46658204 AACTTACATAATACAT
1 AACTTACATAATACAT
*
46658220 AACTTTCATAACTTACAT
1 AACTTACATAA--TACAT
* *
46658238 TA--TACACAACTTACAT
1 AACTTACATAA--TACAT
*
46658254 AACTTAATCAATATTATACAC
1 AACTT-A-C-ATA--ATACAT
46658275 AACTTACATAATAC--
1 AACTTACATAATACAT
46658289 -A-TTAC-T--TACAT
1 AACTTACATAATACAT
* *
46658300 AACTTACATTATACAC
1 AACTTACATAATACAT
*
46658316 AACTTACAT-A-ACTT
1 AACTTACATAATACAT
*
46658330 AA-TTACATTATACAT
1 AACTTACATAATACAT
* *
46658345 GATTTACATAACTTACAT
1 AACTTACATAA--TACAT
*
46658363 AACTTACATAGCTTACAT
1 AACTTACATA--ATACAT
* *
46658381 -TC-TACACAACTTACAT
1 AACTTACATAA--TACAT
* *
46658397 AACATACATAATACAC
1 AACTTACATAATACAT
*
46658413 AACTTACATAGCTTACAT
1 AACTTACATA--ATACAT
46658431 AA--TACATAACTTACAT
1 AACTTACATAA--TACAT
*
46658447 AACTTATATAATACAT
1 AACTTACATAATACAT
46658463 AACTTACATAAT
1 AACTTACATAAT
46658475 TTACTTAATA
Statistics
Matches: 209, Mismatches: 29, Indels: 68
0.68 0.09 0.22
Matches are distributed among these distances:
9 3 0.01
11 1 0.00
12 5 0.02
13 11 0.05
14 6 0.03
15 5 0.02
16 103 0.49
17 2 0.01
18 57 0.27
19 2 0.01
20 2 0.01
21 11 0.05
23 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:46658253 original size:34 final size:34
Alignment explanation
Indices: 46658215--46658399 Score: 139
Period size: 34 Copynumber: 5.2 Consensus size: 34
46658205 ACTTACATAA
46658215 TACATAACTTTCATAACTTACATTATACACAACT
1 TACATAACTTTCATAACTTACATTATACACAACT
*
46658249 TACATAAC-TTAATCAA--T--ATTATACACAACT
1 TACATAACTTTCAT-AACTTACATTATACACAACT
46658279 TACATAATACATTACTTACATAACTTACATTATACACAACT
1 TACAT-A-AC--T--TT-CATAACTTACATTATACACAACT
* * * *
46658320 TACATAAC-TTAATTACATTATACATGATTTACATAACT
1 TACATAACTTTCA-TA-ACT-TACAT--TATACACAACT
* * *
46658358 TACATAACTTACATAGCTTACATTCTACACAACT
1 TACATAACTTTCATAACTTACATTATACACAACT
46658392 TACATAAC
1 TACATAAC
46658400 ATACATAATA
Statistics
Matches: 120, Mismatches: 12, Indels: 38
0.71 0.07 0.22
Matches are distributed among these distances:
30 18 0.15
31 1 0.01
32 3 0.03
33 5 0.04
34 31 0.26
35 2 0.02
36 10 0.08
37 5 0.04
38 21 0.17
39 5 0.04
40 1 0.01
41 18 0.15
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.35
Consensus pattern (34 bp):
TACATAACTTTCATAACTTACATTATACACAACT
Found at i:46658336 original size:29 final size:29
Alignment explanation
Indices: 46658303--46658359 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
46658293 CTTACATAAC
46658303 TTACATTATACACAACTTACATAACTTAA
1 TTACATTATACACAACTTACATAACTTAA
** *
46658332 TTACATTATACATGATTTACATAACTTA
1 TTACATTATACACAACTTACATAACTTA
46658360 CATAACTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.39
Consensus pattern (29 bp):
TTACATTATACACAACTTACATAACTTAA
Found at i:46662304 original size:12 final size:12
Alignment explanation
Indices: 46662284--46662347 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
46662274 TATTTTAGTG
* *
46662284 TTATGATCATTT
1 TTATTATCATTA
46662296 TTATTATCATTA
1 TTATTATCATTA
*
46662308 TTATTATTATTA
1 TTATTATCATTA
*
46662320 TTATTATTATTA
1 TTATTATCATTA
*
46662332 CTATTA--ATTA
1 TTATTATCATTA
46662342 TTATTA
1 TTATTA
46662348 GTTTCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.19
12 38 0.81
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (12 bp):
TTATTATCATTA
Found at i:46662310 original size:3 final size:3
Alignment explanation
Indices: 46662296--46662347 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
46662286 ATGATCATTT
* *
46662296 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
46662342 TTA TTA
1 TTA TTA
46662348 GTTTCATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:46663265 original size:108 final size:106
Alignment explanation
Indices: 46663131--46663331 Score: 296
Period size: 108 Copynumber: 1.9 Consensus size: 106
46663121 AATAATAAAG
* *
46663131 GCAATATTTTGCGTTTGGAGATTCGAGAAAATATGTCCTAATGTGCTGAATTTCGATTTTTCTCG
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAATATGCCCTAATGTGCTGAATTTCGA--TTTCTCG
* *
46663196 TTCT-ATCAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAT
64 TT-TGACCAAATAGCCAAATATCCTCTTAAAATTTCAAAGTAAT
* * **
46663239 GCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCGATTTCTCGTT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAATATGCCCTAATGTGCTGAATTTCGATTTCTCGTT
46663304 TGACCAAATAGCCAAATATCCTCTTAAA
66 TGACCAAATAGCCAAATATCCTCTTAAA
46663332 TCTTAATCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
105 1 0.01
106 33 0.39
108 50 0.60
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (106 bp):
GCAATATTTTGCGTTTGGAAATTCGAGAAAATATGCCCTAATGTGCTGAATTTCGATTTCTCGTT
TGACCAAATAGCCAAATATCCTCTTAAAATTTCAAAGTAAT
Found at i:46667564 original size:9 final size:9
Alignment explanation
Indices: 46667533--46667565 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
46667523 GAAGGCAACC
46667533 AAAAAT-AA
1 AAAAATAAA
*
46667541 AAAAACAAA
1 AAAAATAAA
46667550 AAAAATAAA
1 AAAAATAAA
46667559 AAAAATA
1 AAAAATA
46667566 TTGTAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAATAAA
Found at i:46668320 original size:9 final size:9
Alignment explanation
Indices: 46668306--46668338 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
46668296 AAAATGTTTC
46668306 AAAAAAACA
1 AAAAAAACA
46668315 AAAAAAACA
1 AAAAAAACA
46668324 AAAAAAACA
1 AAAAAAACA
46668333 AAAAAA
1 AAAAAA
46668339 TAAGAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:46668327 original size:17 final size:17
Alignment explanation
Indices: 46668306--46668355 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
46668296 AAAATGTTTC
46668306 AAAAAAACAAAAAAAACA
1 AAAAAAAC-AAAAAAACA
*
46668324 AAAAAAACAAAAAAATA
1 AAAAAAACAAAAAAACA
* *
46668341 AGAAAAATAAAAAAA
1 AAAAAAACAAAAAAA
46668356 GGAAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.88, C:0.06, G:0.02, T:0.04
Consensus pattern (17 bp):
AAAAAAACAAAAAAACA
Found at i:46668363 original size:26 final size:26
Alignment explanation
Indices: 46668305--46668355 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
46668295 AAAAATGTTT
46668305 CAAAAAAACAAAAAAAACAAAAAAAA
1 CAAAAAAACAAAAAAAACAAAAAAAA
* * *
46668331 CAAAAAAATAAGAAAAATAAAAAAA
1 CAAAAAAACAAAAAAAACAAAAAAA
46668356 GGAAAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.04
Consensus pattern (26 bp):
CAAAAAAACAAAAAAAACAAAAAAAA
Found at i:46668377 original size:3 final size:3
Alignment explanation
Indices: 46668369--46668403 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
46668359 AAAAAGAGAG
46668369 AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
46668404 AAGGAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:46668584 original size:44 final size:45
Alignment explanation
Indices: 46668491--46668602 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 45
46668481 AAAGGGCGGC
* *
46668491 TCAAATTTTGGAACAAAATGGGGCA-CGAAGTGATCAGAGCTACT
1 TCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCTACT
* ** * *
46668535 T-AAATTTTGGATCAAATTGGGGCATGGTGGTGATTAGAGC-AGT
1 TCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCTACT
* *
46668578 TCAAATTTT-GATCAGATCGGGGCAT
1 TCAAATTTTGGATCAAATTGGGGCAT
46668603 ATGATGATCT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 38 0.67
44 19 0.33
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (45 bp):
TCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCTACT
Found at i:46670018 original size:100 final size:99
Alignment explanation
Indices: 46669845--46671345 Score: 1552
Period size: 100 Copynumber: 15.1 Consensus size: 99
46669835 AAACCATAGT
* * *
46669845 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACCTT-TCAGG-TAGTGCAGCAGAACA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCTCAGGCGA-TGCAGCGGAACA
* * *
46669908 GATTGAAGCTACAATGGTGAATCCTGCTTCCCCGACA
63 GATTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
* * ** * *
46669945 TTGCAATATAAAATATTGAAGTCACAACGATGAATCTTACTTCTCAGGTGATGCAGCAGAACAGA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
* * * *
46670010 TTGAAGCTACGACGGCGTAT-TTCACTTCCCTGACA
65 TTGAAGCTACAACGGCGAATCCT-ACTTCCCCGACA
* * *
46670045 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACCTT-TCAGGC-AGTACAGCAGAACA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCTCAGGCGA-TGCAGCGGAACA
* * *
46670108 AATTGAAGCTACAACGACGAATCCTGCTTCCCCGACA
63 GATTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
* * * * *
46670145 TTGTAATATAAAAGATTGAAGCCACAATGGTGAATCTTACTTCCCAGGCGATGCAGCGGAATAGA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
* *
46670210 TTGAAGCTACGACGGCGAAT-CTAACTTCCCTGACA
65 TTGAAGCTACAACGGCGAATCCT-ACTTCCCCGACA
* * *
46670245 TTGCAATTTAAAAGGTTGAGGCCATAACGGCGAATCTTACCTTC-CTAGGCGATGCAGCGGAACA
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCTC-AGGCGATGCAGCGGAACA
* ** **
46670309 GATTGAAGCTACGACGATGAATTTTACTTCCCCGACA
63 GATTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
* * ** * *
46670346 CTGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTTTGGCGATGCAGTGGAACAAA
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
* * ** *
46670411 TTGAAGCTACAATGGTGAATCCTGTTTCCTCGACA
65 TTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
* *
46670446 TTGCAATTAAAAGATTGAAGCCACAACGACGAATCTTAC-T-TCAGACGATGCAGCGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* * *
46670509 TGAAGCTACGACGGCAAAT-CTCACTTCCCTGACA
66 TGAAGCTACAACGGCGAATCCT-ACTTCCCCGACA
* * * * *
46670543 TTACAATTAAAAAGATTGAAGCTACAACGGTGAATCTTACCTT-TTAGGC-AGTGCAACGGAACA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCTCAGGCGA-TGCAGCGGAACA
* *
46670606 GATTGAAGCTACAACGGCGAATCCTGCTTCCTCGACA
63 GATTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
* * * * *
46670643 TTGCAATATAAAAGATTGAAGTCACAACGGCGAATCTTACTTCCCAGGAGATGCAACAGAACAGA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
*
46670708 TTGAAGCTACGACGGCGAAT-CTAACTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCCT-ACTTCCCCGACA
* * *
46670743 TTGTAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTC-CTAGGCGATGCAGCAGAACA
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCTC-AGGCGATGCAGCGGAACA
* ** *
46670807 GATTGAAGCTACGACGATGAATCTTACTTCCCCGACA
63 GATTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
* * * * *
46670844 TTGCAATTTAAAAGATTGAGGCCACAACGGTGAATCTTACTTCTCTGGCGATGTAGTGGAACAGA
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
* * *
46670909 TTGAAGCTACAATGGCGAATCCTGCTTCCTCGACA
65 TTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
** **
46670944 TTGCAATTAAAAGATTGAAGCCACAACGATGAATCTTAC-T-TCAAACGATGCAGCGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* * * *
46671007 TGAAGCCACAATGACGAATCTTACTTCCCCGACA
66 TGAAGCTACAACGGCGAATCCTACTTCCCCGACA
* * * *
46671041 TTGCAATTCAAAAGATTGAAGCTACAATGGCGAATCTTACTTC-CAAGCGATGCAGCTGAACAGA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
* * * *
46671105 TTGAAG-TCACAACGGCGAATCTTGCTTCCTCGTCA
65 TTGAAGCT-ACAACGGCGAATCCTACTTCCCCGACA
* * * *
46671140 TTGCAATTGAAAATATTGAAGCCACAACGGCGAATTTTACTTC-CAAGCGATGTAGCGGAACAGA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
**
46671204 TTGAAG-TCACAACGGCGAAT-CTCACTTCCCCGTTA
65 TTGAAGCT-ACAACGGCGAATCCT-ACTTCCCCGACA
* * * * * * * *
46671239 TTACAATTTAAAGGATTGAAGCCACTACGGCGAATCTTACTTCCCAAGCGGA-GCTGTGGAACAT
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGC-GATGCAGCGGAACAG
* *
46671303 ATTGAAGCTACAACGGCGAATCCTGCTTCCCCGAAA
64 ATTGAAGCTACAACGGCGAATCCTACTTCCCCGACA
46671339 TTGCAAT
1 TTGCAAT
46671346 CTCATTTCCC
Statistics
Matches: 1185, Mismatches: 174, Indels: 85
0.82 0.12 0.06
Matches are distributed among these distances:
96 2 0.00
97 103 0.09
98 57 0.05
99 250 0.21
100 574 0.48
101 197 0.17
102 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
TGAAGCTACAACGGCGAATCCTACTTCCCCGACA
Found at i:46670786 original size:498 final size:498
Alignment explanation
Indices: 46669846--46671345 Score: 2068
Period size: 498 Copynumber: 3.0 Consensus size: 498
46669836 AACCATAGTT
* * * * **
46669846 TGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTAC--CTTTCAGG-TAGTGCAGCAGAACA
1 TGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTTT--GGCGA-TGCAGTGGAACA
* * *
46669908 GATTGAAGCTACAATGGTGAATCCTGCTTCCCCGACATTGCAATATAAAATATTGAAGTCACAAC
63 GATTGAAGCTACAATGGTGAATCCTGCTTCCTCGACATTGCAAT-TAAAAGATTGAAGCCACAAC
** * * *
46669973 GATGAATCTTACTTCTCAGGTGATGCAGCAGAACAGATTGAAGCTACGACGGCGTATTTCACTTC
127 GATGAATCTTAC-T-TCAGACGATGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTC
*
46670038 CCTGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACCTTTCAGGCAGTACAGCA
190 CCTGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACCTTTCAGGCAGTGCAGCA
* * * *
46670103 GAACAAATTGAAGCTACAACGACGAATCCTGCTTCCCCGACATTGTAATATAAAAGATTGAAGCC
255 GAACAGATTGAAGCTACAACGGCGAATCCTGCTTCCTCGACATTGCAATATAAAAGATTGAAGCC
* * *
46670168 ACAATGGTGAATCTTACTTCCCAGGCGATGCAGCGGAATAGATTGAAGCTACGACGGCGAATCTA
320 ACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTA
* * *
46670233 ACTTCCCTGACATTGCAATTTAAAAGGTTGAGGCCATAACGGCGAATCTTACCTTCCTAGGCGAT
385 ACTTCCCCGACATTGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCTAGGCGAT
*
46670298 GCAGCGGAACAGATTGAAGCTACGACGATGAATTTTACTTCCCCGACAC
450 GCAGCGGAACAGATTGAAGCTACGACGATGAATCTTACTTCCCCGACAC
*
46670347 TGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTTTGGCGATGCAGTGGAACAAAT
1 TGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTTTGGCGATGCAGTGGAACAGAT
* *
46670412 TGAAGCTACAATGGTGAATCCTGTTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGACG
66 TGAAGCTACAATGGTGAATCCTGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGATG
*
46670477 AATCTTACTTCAGACGATGCAGCGGAACAGATTGAAGCTACGACGGCAAATCTCACTTCCCTGAC
131 AATCTTACTTCAGACGATGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTCCCTGAC
* * * * *
46670542 ATTACAATTAAAAAGATTGAAGCTACAACGGTGAATCTTACCTTTTAGGCAGTGCAACGGAACAG
196 ATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACCTTTCAGGCAGTGCAGCAGAACAG
*
46670607 ATTGAAGCTACAACGGCGAATCCTGCTTCCTCGACATTGCAATATAAAAGATTGAAGTCACAACG
261 ATTGAAGCTACAACGGCGAATCCTGCTTCCTCGACATTGCAATATAAAAGATTGAAGCCACAACG
* * *
46670672 GCGAATCTTACTTCCCAGGAGATGCAACAGAACAGATTGAAGCTACGACGGCGAATCTAACTTCC
326 GCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTAACTTCC
* *
46670737 CCGACATTGTAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGCA
391 CCGACATTGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGCG
*
46670802 GAACAGATTGAAGCTACGACGATGAATCTTACTTCCCCGACAT
456 GAACAGATTGAAGCTACGACGATGAATCTTACTTCCCCGACAC
* * *
46670845 TGCAATTTAAAAGATTGAGGCCACAACGGTGAATCTTACTTCTCTGGCGATGTAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTTTGGCGATGCAGTGGAACAGAT
*
46670910 TGAAGCTACAATGGCGAATCCTGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGATG
66 TGAAGCTACAATGGTGAATCCTGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGATG
* * * * * * *
46670975 AATCTTACTTCAAACGATGCAGCGGAACAGATTGAAGCCACAATGACGAATCTTACTTCCCCGAC
131 AATCTTACTTCAGACGATGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTCCCTGAC
* * * * *
46671040 ATTGCAATTCAAAAGATTGAAGCTACAATGGCGAATCTTA-CTTCCAAGC-GATGCAGCTGAACA
196 ATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACCTTTCAGGCAG-TGCAGCAGAACA
* * *
46671103 GATTGAAG-TCACAACGGCGAATCTTGCTTCCTCGTCATTGCAAT-TGAAAATATTGAAGCCACA
260 GATTGAAGCT-ACAACGGCGAATCCTGCTTCCTCGACATTGCAATAT-AAAAGATTGAAGCCACA
* * * * *
46671166 ACGGCGAATTTTACTT-CCAAGCGATGTAGCGGAACAGATTGAAG-TCACAACGGCGAATCTCAC
323 ACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT-ACGACGGCGAATCTAAC
** * * * * * *
46671229 TTCCCCGTTATTACAATTTAAAGGATTGAAGCCACTACGGCGAATCTTA-CTTCCCAAGCGGA-G
387 TTCCCCGACATTGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCTAGGC-GATG
* * * * ** * * * *
46671292 CTGTGGAACATATTGAAGCTACAACGGCGAATCCTGCTTCCCCGAAAT
451 CAGCGGAACAGATTGAAGCTACGACGATGAATCTTACTTCCCCGACAC
46671340 TGCAAT
1 TGCAAT
46671346 CTCATTTCCC
Statistics
Matches: 894, Mismatches: 97, Indels: 22
0.88 0.10 0.02
Matches are distributed among these distances:
495 54 0.06
496 85 0.10
497 86 0.10
498 545 0.61
499 1 0.00
500 29 0.03
501 89 0.10
502 1 0.00
503 4 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (498 bp):
TGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTTTGGCGATGCAGTGGAACAGAT
TGAAGCTACAATGGTGAATCCTGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGATG
AATCTTACTTCAGACGATGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTCCCTGAC
ATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACCTTTCAGGCAGTGCAGCAGAACAG
ATTGAAGCTACAACGGCGAATCCTGCTTCCTCGACATTGCAATATAAAAGATTGAAGCCACAACG
GCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTAACTTCC
CCGACATTGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGCG
GAACAGATTGAAGCTACGACGATGAATCTTACTTCCCCGACAC
Found at i:46671106 original size:147 final size:147
Alignment explanation
Indices: 46670655--46671183 Score: 413
Period size: 147 Copynumber: 3.5 Consensus size: 147
46670645 GCAATATAAA
* * * * *
46670655 AGATTGAAGTCACAACGGCGAATCTTACTTCCCAGGA-GATGCAACAGAACAGATTGAAGCTACG
1 AGATTGAAGCCACAACGACGAATCTTACTT--CA-AACGATGCAACAGAACAGATTGAAGCCACA
* * * * *
46670719 ACGGCGAATCTAACTTCCCCGACATTGTAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACC
63 ACGGCGAATCTTACTTCCCCGACATTGTAATTCAAAAGATTGAAGCTACAATGGCGAATCTTA-C
* *
46670784 TTCCTAGGCGATGCAGCAGAAC
127 TTCC-AAGCGATGCAGCTGAAC
* * * ** *** * *
46670806 AGATTGAAGCTACGACGATGAATCTTACTTC-CCCGACATTGCAATTTAAAAGATTGAGGCCACA
1 AGATTGAAGCCACAACGACGAATCTTACTTCAAACG--A-TGCAACAGAACAGATTGAAGCCACA
* * * * * ** * * *
46670870 ACGGTGAATCTTACTTCTCTGGCGA-TGTAGTGGAACAGATTGAAGCTACAATGGCGAATCCTGC
63 ACGGCGAATCTTACTTCCCCGAC-ATTGTAATTCAAAAGATTGAAGCTACAATGGCGAATCTTAC
** * * *
46670934 TTCCTCGAC-ATTGCA-ATTAAA
127 TTCCAAG-CGA-TGCAGCTGAAC
* * * *
46670955 AGATTGAAGCCACAACGATGAATCTTACTTCAAACGATGCAGCGGAACAGATTGAAGCCACAATG
1 AGATTGAAGCCACAACGACGAATCTTACTTCAAACGATGCAACAGAACAGATTGAAGCCACAACG
* *
46671020 ACGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCTACAATGGCGAATCTTACTTCC
66 GCGAATCTTACTTCCCCGACATTGTAATTCAAAAGATTGAAGCTACAATGGCGAATCTTACTTCC
46671085 AAGCGATGCAGCTGAAC
131 AAGCGATGCAGCTGAAC
* * * ** ** * *
46671102 AGATTGAAGTCACAACGGCGAATCTTGCTTC-CTCGTCATTGCAATTGAAAATATTGAAGCCACA
1 AGATTGAAGCCACAACGACGAATCTTACTTCAAACG--A-TGCAACAGAACAGATTGAAGCCACA
*
46671166 ACGGCGAATTTTACTTCC
63 ACGGCGAATCTTACTTCC
46671184 AAGCGATGTA
Statistics
Matches: 288, Mismatches: 76, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
146 8 0.03
147 104 0.36
148 3 0.01
149 69 0.24
150 13 0.05
151 90 0.31
152 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (147 bp):
AGATTGAAGCCACAACGACGAATCTTACTTCAAACGATGCAACAGAACAGATTGAAGCCACAACG
GCGAATCTTACTTCCCCGACATTGTAATTCAAAAGATTGAAGCTACAATGGCGAATCTTACTTCC
AAGCGATGCAGCTGAAC
Found at i:46671231 original size:49 final size:49
Alignment explanation
Indices: 46669959--46671324 Score: 437
Period size: 50 Copynumber: 27.4 Consensus size: 49
46669949 AATATAAAAT
* ** * * *
46669959 ATTGAAGTCACAACGATGAATCTTACTTCTCAGGTGATGCAGCAGAACAG
1 ATTGAAGCCACAACGGCGAATCTTACTTC-CAAGCGATGCAGCTGAACAG
* * * ** ** * *
46670009 ATTGAAGCTACGACGGCGTAT-TTCACTTCCCTGAC-ATTGCAATTAAAAAG
1 ATTGAAGCCACAACGGCGAATCTT-ACTTCCAAG-CGA-TGCAGCTGAACAG
* * * * * *
46670059 ATTGAAGCTACAACGGCGAATCTTACCTTTCAGGC-AGTACAGCAGAACAA
1 ATTGAAGCCACAACGGCGAATCTTA-CTTCCAAGCGA-TGCAGCTGAACAG
* * * * ** * * * *
46670109 ATTGAAGCTACAACGACGAATCCTGCTTCCCCGAC-ATTGTA-ATATAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCT-GAACAG
* * * * *
46670159 ATTGAAGCCACAATGGTGAATCTTACTTCCCAGGCGATGCAGCGGAATAG
1 ATTGAAGCCACAACGGCGAATCTTACTT-CCAAGCGATGCAGCTGAACAG
* * * ** ** * *
46670209 ATTGAAGCTACGACGGCGAATCTAACTTCCCTGAC-ATTGCAATTTAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* * * * *
46670259 GTTGAGGCCATAACGGCGAATCTTACCTTCCTAGGCGATGCAGCGGAACAG
1 ATTGAAGCCACAACGGCGAATCTTA-CTTCC-AAGCGATGCAGCTGAACAG
* * ** * ** ** * *
46670310 ATTGAAGCTACGACGATGAATTTTACTTCCCCGAC-ACTGCAATTTAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* *** *
46670360 ATTGAGGCCACAACGGCGAATCTTACTTCTTTGGCGATGCAG-TGGAACAA
1 ATTGAAGCCACAACGGCGAATCTTACTTC-CAAGCGATGCAGCT-GAACAG
* * * * ** ** * * *
46670410 ATTGAAGCTACAATGGTGAATCCTGTTTCCTCGAC-ATTGCA-ATTAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* *
46670459 ATTGAAGCCACAACGACGAATCTTACTT-C-AGACGATGCAGCGGAACAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGATGCAGCTGAACAG
* * * * ** * ** * *
46670507 ATTGAAGCTACGACGGCAAATCTCACTTCCCTGAC-ATTACAATTAAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* * ** * * *
46670557 ATTGAAGCTACAACGGTGAATCTTACCTTTTAGGC-AGTGCAACGGAACAG
1 ATTGAAGCCACAACGGCGAATCTTA-CTTCCAAGCGA-TGCAGCTGAACAG
* * * ** * * *
46670607 ATTGAAGCTACAACGGCGAATCCTGCTTCCTCGAC-ATTGCA-ATATAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCT-GAACAG
* * * * *
46670657 ATTGAAGTCACAACGGCGAATCTTACTTCCCAGGAGATGCAACAGAACAG
1 ATTGAAGCCACAACGGCGAATCTTACTT-CCAAGCGATGCAGCTGAACAG
* * * ** * ** * *
46670707 ATTGAAGCTACGACGGCGAATCTAACTTCCCCGAC-ATTGTAATTTAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* * *
46670757 ATTGAGGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGCAGAACAG
1 ATTGAAGCCACAACGGCGAATCTTA-CTTCC-AAGCGATGCAGCTGAACAG
* * ** ** ** * *
46670808 ATTGAAGCTACGACGATGAATCTTACTTCCCCGAC-ATTGCAATTTAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* * ** *
46670858 ATTGAGGCCACAACGGTGAATCTTACTTCTCTGGCGATGTAG-TGGAACAG
1 ATTGAAGCCACAACGGCGAATCTTACTTC-CAAGCGATGCAGCT-GAACAG
* * * * ** * * *
46670908 ATTGAAGCTACAATGGCGAATCCTGCTTCCTCGAC-ATTGCA-ATTAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
** * *
46670957 ATTGAAGCCACAACGATGAATCTTACTT-CAAACGATGCAGCGGAACAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCTGAACAG
* * ** ** * *
46671005 ATTGAAGCCACAATGACGAATCTTACTTCCCCGAC-ATTGCAATTCAAAAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* *
46671055 ATTGAAGCTACAATGGCGAATCTTACTTCCAAGCGATGCAGCTGAACAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCTGAACAG
* * ** ** * *
46671104 ATTGAAGTCACAACGGCGAATCTTGCTTCCTCGTC-ATTGCAATTGAAAAT
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAG-CGA-TGCAGCTGAACAG
* * *
46671154 ATTGAAGCCACAACGGCGAATTTTACTTCCAAGCGATGTAGCGGAACAG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCTGAACAG
* * ** ** * ** *
46671203 ATTGAAGTCACAACGGCGAATCTCACTTCCCCGTTATTACAATTTAA-AGG
1 ATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGA-TGCAGCTGAACA-G
* * *
46671253 ATTGAAGCCACTACGGCGAATCTTACTTCCCAAGCGGA-GCTG-TGGAACAT
1 ATTGAAGCCACAACGGCGAATCTTACTT-CCAAGC-GATGCAGCT-GAACAG
*
46671303 ATTGAAGCTACAACGGCGAATC
1 ATTGAAGCCACAACGGCGAATC
46671325 CTGCTTCCCC
Statistics
Matches: 939, Mismatches: 315, Indels: 124
0.68 0.23 0.09
Matches are distributed among these distances:
47 12 0.01
48 61 0.06
49 166 0.18
50 603 0.64
51 92 0.10
52 5 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (49 bp):
ATTGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCTGAACAG
Found at i:46673264 original size:12 final size:12
Alignment explanation
Indices: 46673244--46673286 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
46673234 TATTTTAGTG
* *
46673244 TTATGATCATTT
1 TTATTATCATTA
46673256 TTATTATCATTA
1 TTATTATCATTA
*
46673268 TTATTATTATTA
1 TTATTATCATTA
46673280 TTATTAT
1 TTATTAT
46673287 TACTATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (12 bp):
TTATTATCATTA
Found at i:46673270 original size:3 final size:3
Alignment explanation
Indices: 46673256--46673304 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
46673246 ATGATCATTT
* *
46673256 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
46673302 TTA
1 TTA
46673305 GTTTCATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:46674221 original size:108 final size:106
Alignment explanation
Indices: 46674088--46674288 Score: 314
Period size: 108 Copynumber: 1.9 Consensus size: 106
46674078 AATAATAAAG
*
46674088 GCAATGTTTTGCGTTTGGAGATTCGAGAAAATATGTCCTAATGTGCTGAATTTCGATTTTTCTCG
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAATATGTCCTAATGTGCTGAATTTCGA--TTTCTCG
*
46674153 TTCT-AACAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAT
64 TT-TGAACAAATAGCCAAATATCCTCTTAAAATTTCAAAGTAAT
* **
46674196 GCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGTCCTAATGTGCTGCGTTTCGATTTCTCGTT
1 GCAATGTTTTGCGTTTGGAAATTCGAGAAAATATGTCCTAATGTGCTGAATTTCGATTTCTCGTT
*
46674261 TGACCAAATAGCCAAATATCCTCTTAAA
66 TGAACAAATAGCCAAATATCCTCTTAAA
46674289 TCTTAATCCA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
105 1 0.01
106 33 0.38
108 52 0.60
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (106 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGAAAATATGTCCTAATGTGCTGAATTTCGATTTCTCGTT
TGAACAAATAGCCAAATATCCTCTTAAAATTTCAAAGTAAT
Found at i:46677341 original size:21 final size:21
Alignment explanation
Indices: 46677317--46677377 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46677307 TATGTTGATT
46677317 ATATTTCCCATTTCGATTACG
1 ATATTTCCCATTTCGATTACG
**
46677338 ATA-TTAACA--TC-ATT--G
1 ATATTTCCCATTTCGATTACG
46677353 -TATTTCCCATTTCGATTACG
1 ATATTTCCCATTTCGATTACG
46677373 ATATT
1 ATATT
46677378 AACATCATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
14 2 0.07
15 5 0.17
17 5 0.17
18 5 0.17
20 5 0.17
21 7 0.24
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (21 bp):
ATATTTCCCATTTCGATTACG
Found at i:46677364 original size:35 final size:35
Alignment explanation
Indices: 46677318--46677386 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
46677308 ATGTTGATTA
46677318 TATTTCCCATTTCGATTACGATATTAACATCATTG
1 TATTTCCCATTTCGATTACGATATTAACATCATTG
46677353 TATTTCCCATTTCGATTACGATATTAACATCATT
1 TATTTCCCATTTCGATTACGATATTAACATCATT
46677387 CATTCACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.43
Consensus pattern (35 bp):
TATTTCCCATTTCGATTACGATATTAACATCATTG
Found at i:46677979 original size:28 final size:23
Alignment explanation
Indices: 46677948--46678002 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 23
46677938 TCTTGAGTTC
*
46677948 TTTTTCTTTTTCATTTACTTACTTTTA
1 TTTTTATTTTT-ATTT--TTAC-TTTA
46677975 TTTTTATTTTTATTTTTACTTTA
1 TTTTTATTTTTATTTTTACTTTA
46677998 TTTTT
1 TTTTT
46678003 TGAGTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 9 0.33
24 4 0.15
26 4 0.15
27 10 0.37
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTATTTTTATTTTTACTTTA
Done.