Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 258 of 356
Found at i:84742381 original size:27 final size:26
Alignment explanation
Indices: 84742350--84742527 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
84742340 TAAATTGTAC
84742350 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
84742377 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
84742403 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
84742431 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* * *
84742459 GGCACTAAGTGTGTGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
84742486 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
84742513 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84742528 GACTCGATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:84742466 original size:82 final size:81
Alignment explanation
Indices: 84742351--84742506 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
84742341 AAATTGTACA
*
84742351 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
84742415 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
84742432 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGTGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
84742497 TGCGAGTTGA
65 TGCGAATTGA
84742507 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84742491 original size:55 final size:55
Alignment explanation
Indices: 84742351--84742527 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
84742341 AAATTGTACA
* * **
84742351 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGA-AATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATGAT
* * ** *
84742405 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATGAT
* * *
84742459 GGCACTAAGTGTGTGATTTGATTATGTAGCACTAAGTGTGCGAG-TTGATTAT-AT
1 -GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATGAT
*
84742513 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
84742528 GACTCGATAT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
54 58 0.57
55 44 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (55 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATGAT
Found at i:84742518 original size:82 final size:81
Alignment explanation
Indices: 84742347--84742527 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
84742337 GATTAAATTG
*
84742347 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
84742412 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * ** *
84742428 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGTGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
84742492 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
84742510 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
84742528 GACTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:84750533 original size:27 final size:26
Alignment explanation
Indices: 84750500--84750674 Score: 181
Period size: 27 Copynumber: 6.5 Consensus size: 26
84750490 TAAATTGTAC
84750500 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
84750527 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
84750554 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
84750581 GCACTAAGTGTGCGAGTTGACTATG-T
1 GCACTAAGTGTGCGA-TTGACTATGTT
* *
84750607 GCACTAAGTGTGCGATTTGATTATGTA
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
84750634 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
84750661 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
84750675 GACTCGATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.19
27 103 0.80
28 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:84750665 original size:80 final size:81
Alignment explanation
Indices: 84750500--84750674 Score: 221
Period size: 80 Copynumber: 2.2 Consensus size: 81
84750490 TAAATTGTAC
84750500 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
* *
84750565 GCGAATTGACCATGCG
66 GCGAATTGACCATACA
** *
84750581 GCACTAAGTGTGCGAGTT-GACTATG-TGCACTAAGTGTGCGATTTGATTATG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
* ** *
84750643 GTGCGAGTTGATTATATA
64 GTGCGAATTGACCATACA
*
84750661 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
84750675 GACTCGATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.01
80 57 0.70
81 22 0.27
82 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATACA
Found at i:84756614 original size:27 final size:27
Alignment explanation
Indices: 84756584--84756761 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
84756574 ATATTGAGTC
* * * *
84756584 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
84756611 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
84756638 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
84756666 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
84756693 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
84756720 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
84756747 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
84756762 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:84756723 original size:82 final size:81
Alignment explanation
Indices: 84756605--84756760 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84756595 TGCTATATAA
* *
84756605 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
84756670 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
84756687 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
84756751 CACTTAGTGC
65 CACTTAGTGC
84756761 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:84760254 original size:46 final size:46
Alignment explanation
Indices: 84760204--84760376 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
84760194 TGGTTGAGCA
84760204 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84760250 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
84760295 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84760343 CCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84760377 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84760362 original size:93 final size:93
Alignment explanation
Indices: 84760201--84760371 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
84760191 GGATGGTTGA
* *
84760201 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84760266 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
84760294 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84760359 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
84760372 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:84767171 original size:6 final size:6
Alignment explanation
Indices: 84767160--84767185 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
84767150 TAAACACTTT
84767160 TAATTA TAATTA TAATTA TAATTA TA
1 TAATTA TAATTA TAATTA TAATTA TA
84767186 TGTTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:84770518 original size:19 final size:18
Alignment explanation
Indices: 84770494--84770541 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
84770484 TTTGATATTG
*
84770494 TTAAATTTCTATAATTAGT
1 TTAAATTT-GATAATTAGT
**
84770513 TTAAATTTGATCTTTAGT
1 TTAAATTTGATAATTAGT
84770531 TTAAATTTGAT
1 TTAAATTTGAT
84770542 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (18 bp):
TTAAATTTGATAATTAGT
Found at i:84770531 original size:18 final size:18
Alignment explanation
Indices: 84770508--84770546 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
84770498 ATTTCTATAA
84770508 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATTTGATCT
*
84770526 TTAGTTTAAATTTGATTT
1 TTAGTTTAAATTTGATCT
84770544 TTA
1 TTA
84770547 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (18 bp):
TTAGTTTAAATTTGATCT
Found at i:84772208 original size:43 final size:43
Alignment explanation
Indices: 84772161--84772400 Score: 226
Period size: 43 Copynumber: 5.7 Consensus size: 43
84772151 TAACCTTTCT
* * *
84772161 ACAAACGCCGCTAAA-AAGCATGACCTGTAGGGGTGATTTTCCC
1 ACAAACGCCGCTAAAGAA-CATGACCTTTAGGGGCGATTTTACC
*
84772204 ACAAACG-C-CTAAA-AAGCATGACCTTTAGGGGTGA-TTTACC
1 ACAAACGCCGCTAAAGAA-CATGACCTTTAGGGGCGATTTTACC
* * *
84772244 -CATAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
1 ACA-AACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
* * * *
84772287 ACAAATGCCGCTAAAGAACA-GACCTTTAGTGGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
* *** * *
84772329 ACAAACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
*
84772372 ACAAACACCGCTAAAGAGA-ATGACCTTTA
1 ACAAACGCCGCTAAAGA-ACATGACCTTTA
84772401 ACGATGCTTT
Statistics
Matches: 174, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.01
40 9 0.05
41 26 0.15
42 60 0.34
43 74 0.43
44 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
Found at i:84772220 original size:41 final size:43
Alignment explanation
Indices: 84772161--84772269 Score: 154
Period size: 41 Copynumber: 2.6 Consensus size: 43
84772151 TAACCTTTCT
*
84772161 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTTCCC
1 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
*
84772204 ACAAACG-C-CTAAAAAGCATGACCTTTAGGGGTGATTTACCC
1 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
*
84772245 A-TAACGCCGCTAAAGAA-CATGACCT
1 ACAAACGCCGCTAAA-AAGCATGACCT
84772270 TTAGCGGCGC
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
40 4 0.07
41 33 0.55
42 14 0.23
43 9 0.15
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
Found at i:84772401 original size:43 final size:43
Alignment explanation
Indices: 84772247--84772403 Score: 228
Period size: 43 Copynumber: 3.7 Consensus size: 43
84772237 ATTTACCCAT
*
84772247 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACA
1 AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
* **
84772290 AATGCCGCTAAAGAACA-GACCTTTAGTGGCGCTTTTATCACA
1 AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
* *
84772332 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACA
1 AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
*
84772375 AACACCGCTAAAGAGA-ATGACCTTTAACG
1 AACGCCGCTAAAGA-ACATGACCTTTAACG
84772404 ATGCTTTATC
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 39 0.38
43 62 0.61
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
Found at i:84772412 original size:85 final size:86
Alignment explanation
Indices: 84772247--84772437 Score: 226
Period size: 85 Copynumber: 2.2 Consensus size: 86
84772237 ATTTACCCAT
* * * **
84772247 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAACAGACCT
1 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAACAGACCT
** *
84772312 TTAGTGGCGCTTTTATC-ACA
66 TTAACGACGCTTTTATCAACA
84772332 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAGA-ATGAC
1 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGA-ACA-GAC
*
84772396 CTTTAACGATGC-TTTATCAACA
64 CTTTAACGACGCTTTTATCAACA
* * * *
84772418 AATGCTTCTATAGAGCATGA
1 AACGCCTCTAAAGAACATGA
84772438 ATTTTAGAGG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 59 0.66
86 31 0.34
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (86 bp):
AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAACAGACCT
TTAACGACGCTTTTATCAACA
Found at i:84778437 original size:22 final size:22
Alignment explanation
Indices: 84778412--84778463 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
84778402 AACCATGAAC
* *
84778412 AATACTAAGA-CCCTAACTATAA
1 AATACTAA-ACCCCAAACTACAA
*
84778434 AATAATAAACCCCAAACTACAA
1 AATACTAAACCCCAAACTACAA
84778456 AAT-CTAAA
1 AATACTAAA
84778464 TCATAAACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (22 bp):
AATACTAAACCCCAAACTACAA
Found at i:84778472 original size:28 final size:28
Alignment explanation
Indices: 84778433--84778490 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
84778423 CCTAACTATA
84778433 AAATAATAAACCCCAAACTACAAAA-TCT
1 AAATAATAAACCCCAAACT-CAAAACTCT
* *
84778461 AAATCATAAACCCTAAACTCAAAACTCT
1 AAATAATAAACCCCAAACTCAAAACTCT
84778489 AA
1 AA
84778491 TCCCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (28 bp):
AAATAATAAACCCCAAACTCAAAACTCT
Found at i:84779730 original size:17 final size:19
Alignment explanation
Indices: 84779688--84779731 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
84779678 ACGAAATTTT
*
84779688 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
84779707 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
84779725 AA-TATTA
1 AATTATTA
84779732 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:84779841 original size:15 final size:14
Alignment explanation
Indices: 84779817--84779848 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
84779807 TTAGATATAT
84779817 TTATAAAATTATTA
1 TTATAAAATTATTA
84779831 TTATAATAATTATTA
1 TTATAA-AATTATTA
84779846 TTA
1 TTA
84779849 GATATGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAAAATTATTA
Found at i:84785634 original size:113 final size:115
Alignment explanation
Indices: 84785428--84785679 Score: 339
Period size: 113 Copynumber: 2.2 Consensus size: 115
84785418 ATTACGGTGT
** * *
84785428 TTTTTAAAAAGCTTCGCTAATGCCACTAAAGCTCAGCAACAAAACGAGGTTGTTTTGCTCAACTT
1 TTTTTAAAAAGCACCGCTAATGCCACTAAAGCTCAACAACAAAACGACGTTGTTTTGCTCAACTT
** *
84785493 TTTTGCGGCGTTTTCTGAAAAGCACCGCTAATGCTCAATCTATTGCGGCA
66 TTTTAAGGCGTTTTCTGAAAAGCACCGCTAATGCTCAATCTATTGCGACA
* * *
84785543 TTTTTAAGAAGCGCCGCTAATGCCACTAAAGCTCAACAAC-AAACGACG-TGTTTTGCTTAACTT
1 TTTTTAAAAAGCACCGCTAATGCCACTAAAGCTCAACAACAAAACGACGTTGTTTTGCTCAACTT
** * *
84785606 TTTTAAGGCGTTTT-TCGAAAAGTGCCGCTAATGCTCGATCTATTGCGACG
66 TTTTAAGGCGTTTTCT-GAAAAGCACCGCTAATGCTCAATCTATTGCGACA
84785656 TTTTTCAAAAAGCACCGCTAATGC
1 TTTTT-AAAAAGCACCGCTAATGC
84785680 TCGACCTATA
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
112 1 0.01
113 60 0.50
114 23 0.19
115 36 0.30
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (115 bp):
TTTTTAAAAAGCACCGCTAATGCCACTAAAGCTCAACAACAAAACGACGTTGTTTTGCTCAACTT
TTTTAAGGCGTTTTCTGAAAAGCACCGCTAATGCTCAATCTATTGCGACA
Found at i:84785674 original size:40 final size:41
Alignment explanation
Indices: 84785614--84785716 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 41
84785604 TTTTTTAAGG
* ** * *
84785614 CGTTTTTCGAAAAGTGCCGCTAATGCTCGATCTATTGCGA-
1 CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
84785654 CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
1 CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
* *
84785695 CTTTGTTTCATAAA-CACCGCTA
1 CGTT-TTTCAAAAAGCACCGCTA
84785717 TAGCTCTAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 35 0.65
41 11 0.20
42 8 0.15
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (41 bp):
CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
Found at i:84785869 original size:19 final size:18
Alignment explanation
Indices: 84785845--84785892 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
84785835 TCATGACTGC
84785845 AAAATAAATTAAGCAAAAT
1 AAAATAAATTAAG-AAAAT
*
84785864 AAAATAAATT-AGTAAAT
1 AAAATAAATTAAGAAAAT
*
84785881 AAAATATATTAA
1 AAAATAAATTAA
84785893 AGTTTAGCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 13 0.50
18 3 0.12
19 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAATAAATTAAGAAAAT
Found at i:84788619 original size:6 final size:7
Alignment explanation
Indices: 84788601--84788625 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84788591 TTGTGATGCT
84788601 ATTTTTA
1 ATTTTTA
84788608 ATTTTTA
1 ATTTTTA
84788615 ATTTTTA
1 ATTTTTA
84788622 ATTT
1 ATTT
84788626 AATAACTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:84806544 original size:18 final size:20
Alignment explanation
Indices: 84806509--84806550 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
84806499 TGAAAAGAAA
*
84806509 AGAAAATAAGGTAAAAATTT
1 AGAAAATAAGGTAAAAATGT
84806529 AGAAAATAA-G-AAAAATGT
1 AGAAAATAAGGTAAAAATGT
84806547 AGAA
1 AGAA
84806551 GGATTGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 1 0.05
20 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (20 bp):
AGAAAATAAGGTAAAAATGT
Found at i:84806765 original size:3 final size:3
Alignment explanation
Indices: 84806759--84806829 Score: 99
Period size: 3 Copynumber: 23.7 Consensus size: 3
84806749 ATTTAGTAGT
84806759 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
84806806 TCA TTTA TTT TTA TTT TTA TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TT
84806830 GGGCTGAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 57 0.95
4 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:84809689 original size:16 final size:16
Alignment explanation
Indices: 84809668--84809699 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
84809658 ATTTGATTCG
84809668 GTCCATACTTTTGCGA
1 GTCCATACTTTTGCGA
84809684 GTCCATACTTTTGCGA
1 GTCCATACTTTTGCGA
84809700 CTTTTTCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (16 bp):
GTCCATACTTTTGCGA
Found at i:84814509 original size:5 final size:5
Alignment explanation
Indices: 84814494--84814574 Score: 153
Period size: 5 Copynumber: 16.0 Consensus size: 5
84814484 TTTCTTAACA
84814494 TATACT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
84814545 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
84814575 ATAATAAAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 71 0.95
6 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:84814666 original size:17 final size:17
Alignment explanation
Indices: 84814654--84814689 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
84814644 AGAGAAGGAA
84814654 AGAAAGAAAAGAAAAAG
1 AGAAAGAAAAGAAAAAG
84814671 AGAAAGAAAGGAGAAAAAG
1 AGAAAGAAA--AGAAAAAG
84814690 CTAGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAGAAAAAG
Found at i:84814674 original size:25 final size:24
Alignment explanation
Indices: 84814608--84814687 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
84814598 ATAAATAAAT
* *
84814608 AGAAATAGAAAAAGAG-AGCCAAAGC
1 AGAAA-AGAAAAAGAGAAG-GAAAGA
* *
84814633 AGAAATGAAACAGAGAAGGAAAGAA
1 AGAAAAGAAAAAGAGAAGGAAAG-A
* *
84814658 AGAAAAGAAAAAGAGAAAGAAAGG
1 AGAAAAGAAAAAGAGAAGGAAAGA
84814682 AGAAAA
1 AGAAAA
84814688 AGCTAGGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
24 18 0.40
25 27 0.60
ACGTcount: A:0.66, C:0.05, G:0.26, T:0.03
Consensus pattern (24 bp):
AGAAAAGAAAAAGAGAAGGAAAGA
Found at i:84819431 original size:5 final size:5
Alignment explanation
Indices: 84819416--84819496 Score: 153
Period size: 5 Copynumber: 16.0 Consensus size: 5
84819406 TTTCTTAACA
84819416 TATACT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
84819467 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
84819497 ATAATAAAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 71 0.95
6 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:84819588 original size:17 final size:17
Alignment explanation
Indices: 84819576--84819611 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
84819566 AGAGAAGGAA
84819576 AGAAAGAAAAGAAAAAG
1 AGAAAGAAAAGAAAAAG
84819593 AGAAAGAAAGGAGAAAAAG
1 AGAAAGAAA--AGAAAAAG
84819612 CTAGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAGAAAAAG
Found at i:84819596 original size:25 final size:24
Alignment explanation
Indices: 84819530--84819609 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
84819520 ATAAATAAAT
* *
84819530 AGAAATAGAAAAAGAG-AGCCAAAGC
1 AGAAA-AGAAAAAGAGAAG-GAAAGA
* *
84819555 AGAAATGAAACAGAGAAGGAAAGAA
1 AGAAAAGAAAAAGAGAAGGAAAG-A
* *
84819580 AGAAAAGAAAAAGAGAAAGAAAGG
1 AGAAAAGAAAAAGAGAAGGAAAGA
84819604 AGAAAA
1 AGAAAA
84819610 AGCTAGGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
24 18 0.40
25 27 0.60
ACGTcount: A:0.66, C:0.05, G:0.26, T:0.03
Consensus pattern (24 bp):
AGAAAAGAAAAAGAGAAGGAAAGA
Found at i:84829314 original size:61 final size:61
Alignment explanation
Indices: 84829219--84829342 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
84829209 GGTTTTGAAC
* * **
84829219 ACCTCTTAGTGATCCATATGAATATTGGAGTATTGTTAGAGTGTTACAATATGTGGTTCTT
1 ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGGTTCTT
*
84829280 ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGTTTCTT
1 ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGGTTCTT
84829341 AC
1 AC
84829343 TCTACTTGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (61 bp):
ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGGTTCTT
Found at i:84830922 original size:21 final size:23
Alignment explanation
Indices: 84830896--84830947 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
84830886 TTTAAAATTT
84830896 AAAAATTATTAAA-AAA-TAAAA
1 AAAAATTATTAAACAAATTAAAA
* *
84830917 AAAAATTA-TAAACAAATTTATA
1 AAAAATTATTAAACAAATTAAAA
84830939 AAAAATTAT
1 AAAAATTAT
84830948 AATTATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 11 0.42
22 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATTATTAAACAAATTAAAA
Found at i:84830937 original size:12 final size:10
Alignment explanation
Indices: 84830896--84830949 Score: 63
Period size: 10 Copynumber: 5.1 Consensus size: 10
84830886 TTTAAAATTT
84830896 AAAAATTATTA
1 AAAAATTA-TA
* *
84830907 AAAAATAAAA
1 AAAAATTATA
84830917 AAAAATTATA
1 AAAAATTATA
84830927 AACAAATTTATA
1 AA-AAA-TTATA
84830939 AAAAATTATA
1 AAAAATTATA
84830949 A
1 A
84830950 TTATAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 17 0.46
11 13 0.35
12 7 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:84834113 original size:17 final size:18
Alignment explanation
Indices: 84834074--84834115 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
84834064 ATCATTTATT
* *
84834074 TTTTTAAAATTAAATTTAT
1 TTTTTAAAA-TAAATTGAG
84834093 TTTTTAAAA-AAATTGAG
1 TTTTTAAAATAAATTGAG
84834110 TTTTTA
1 TTTTTA
84834116 CAGAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTTTAAAATAAATTGAG
Found at i:84845060 original size:74 final size:74
Alignment explanation
Indices: 84844939--84845084 Score: 283
Period size: 74 Copynumber: 2.0 Consensus size: 74
84844929 AAACGTTAAT
84844939 TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
1 TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
84845004 CACTACCTC
66 CACTACCTC
*
84845013 TTCTTTTCTAAGAGGGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
1 TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
84845078 CACTACC
66 CACTACC
84845085 CCACTCTTGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.29
Consensus pattern (74 bp):
TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
CACTACCTC
Found at i:84848518 original size:142 final size:142
Alignment explanation
Indices: 84848262--84848547 Score: 491
Period size: 142 Copynumber: 2.0 Consensus size: 142
84848252 TTGGTCTCGC
*
84848262 AAAGGGATTCAAACACAAGACCTTCAACAAACCAACACTCAACTTAACCACCAAACCAGTAGGCC
1 AAAGGGATTCAAACACAAGACCTTCAACAAACCAACACTCAACTTAACCACCAAACCAGTAGACC
* * * * *
84848327 CATTCTGATATGATTTTGCAAATAATTTAATATAAACTCACTGAGCAAGTATAATGCTTAAGTTA
66 CATTCTAATATGATTTTGCAAATAATTTAATATAAACCCACCGAGCAAGTATAACGCTTAAGTCA
84848392 GAAAAATACCAA
131 GAAAAATACCAA
* *
84848404 AAAGGGATTCAAACACAAGACCTTCAACAAACCAACACTCAATTTAACCACCAAACCAGTTGACC
1 AAAGGGATTCAAACACAAGACCTTCAACAAACCAACACTCAACTTAACCACCAAACCAGTAGACC
*
84848469 CATTCTAATATTATTTTGCAAATAATTTAATATAAACCCACCGAGCAAGTATAACGCTTAAGTCA
66 CATTCTAATATGATTTTGCAAATAATTTAATATAAACCCACCGAGCAAGTATAACGCTTAAGTCA
84848534 GAAAAATACCAA
131 GAAAAATACCAA
84848546 AA
1 AA
84848548 CTTACCAGAG
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 135 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (142 bp):
AAAGGGATTCAAACACAAGACCTTCAACAAACCAACACTCAACTTAACCACCAAACCAGTAGACC
CATTCTAATATGATTTTGCAAATAATTTAATATAAACCCACCGAGCAAGTATAACGCTTAAGTCA
GAAAAATACCAA
Found at i:84851949 original size:29 final size:29
Alignment explanation
Indices: 84851915--84851970 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
84851905 TTATTTTTAT
84851915 TATTTTTATTTTTAAAAATAAATTTATAA
1 TATTTTTATTTTTAAAAATAAATTTATAA
84851944 TATTTTTATTTTTAAAAATAAATTTAT
1 TATTTTTATTTTTAAAAATAAATTTAT
84851971 GTATGCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TATTTTTATTTTTAAAAATAAATTTATAA
Found at i:84852140 original size:18 final size:16
Alignment explanation
Indices: 84852117--84852151 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
84852107 TTTTAAAATT
84852117 AATATAAATATATAAAAA
1 AATATAAA-A-ATAAAAA
84852135 AATATAAAAATAAAAA
1 AATATAAAAATAAAAA
84852151 A
1 A
84852152 TAAGTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATATAAAAATAAAAA
Found at i:84852258 original size:22 final size:24
Alignment explanation
Indices: 84852204--84852259 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
84852194 TTCTTGAAAC
* *
84852204 AATTTAATAATTATTGATAAAATGA
1 AATTAAATAATTATTAATAAAA-GA
84852229 AATGTAAATAATTATTAAT-AAA-A
1 AAT-TAAATAATTATTAATAAAAGA
84852252 AATTAAAT
1 AATTAAAT
84852260 GAGAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 4 0.14
25 6 0.21
26 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (24 bp):
AATTAAATAATTATTAATAAAAGA
Found at i:84855792 original size:20 final size:20
Alignment explanation
Indices: 84855763--84855807 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
84855753 AGCACATGTA
*
84855763 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAGAACTT
*
84855783 TTCATCAAATTTTAGAACTT
1 TTCATAAAATTTTAGAACTT
84855803 TTCAT
1 TTCAT
84855808 TTTAGTCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAGAACTT
Found at i:84859467 original size:3 final size:3
Alignment explanation
Indices: 84859454--84859486 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
84859444 AATGCTAAAA
84859454 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
84859487 ACTAATAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:84859621 original size:3 final size:3
Alignment explanation
Indices: 84859608--84859654 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
84859598 ATATATATAG
* * *
84859608 ATA ATA A-A ATA ATA ATA ATG ATA ATA A-A ATG ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
84859654 A
1 A
84859655 AGACACAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:84859642 original size:14 final size:15
Alignment explanation
Indices: 84859615--84859654 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
84859605 TAGATAATAA
84859615 AATAATAATAATGAT
1 AATAATAATAATGAT
*
84859630 AATAA-AATGATGAT
1 AATAATAATAATGAT
84859644 AATAATAATAA
1 AATAATAATAA
84859655 AGACACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AATAATAATAATGAT
Found at i:84859645 original size:23 final size:20
Alignment explanation
Indices: 84859607--84859655 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
84859597 TATATATATA
84859607 GATAATAAAATAATAATAAT
1 GATAATAAAATAATAATAAT
* *
84859627 GATAATAAAATGATGATAAT
1 GATAATAAAATAATAATAAT
*
84859647 AATAATAAA
1 GATAATAAA
84859656 GACACAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
GATAATAAAATAATAATAAT
Found at i:84862783 original size:47 final size:47
Alignment explanation
Indices: 84862674--84862784 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
84862664 TCGGGATAAG
*
84862674 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
84862721 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
84862768 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
84862785 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:84873124 original size:192 final size:192
Alignment explanation
Indices: 84872779--84873184 Score: 627
Period size: 192 Copynumber: 2.1 Consensus size: 192
84872769 CAATTATTAA
*
84872779 AATTCCATGTACATGTAACATTTATACTGTATATCCTTATATCATATATATATATATGAACCATT
1 AATTCC-TGTACATGTAACATTTATACCGTATATCCTTATATC--A-ATATATATATGAACCATT
* * *
84872844 TCCATGTAAGTACCTATACTAGTTCGTATTGAACTTATATAATCTCATAATAACACTATGCCCAT
62 TCCATGTAAATACCTACACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCAT
**
84872909 TGAACCACTTAGAATCACGTTAGATACATG-GGTAGTACACATGAGGTGTACTGAACTGTAATCT
127 TGAACCACTTAGAATCACGTTAGAT--ATGCGGTAGTACACACAAGGTGTACTGAACTGTAATCT
84872973 GTC
190 GTC
*
84872976 AATTCCTGTACATGTAACATTTATACCGTATATCCTTATATC-ATATATATATGAACTATTTCCA
1 AATTCCTGTACATGTAACATTTATACCGTATATCCTTATATCAATATATATATGAACCATTTCCA
* * *
84873040 TGTAAATACTTGCACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCGTTGAA
66 TGTAAATACCTACACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCATTGAA
* *
84873105 CCACTTAGAATCTCGTTAGATATGCTGGTAGTACACACAAGGTGTATTGAACTGTAATCTGTC
131 CCACTTAGAATCACGTTAGATATGC-GGTAGTACACACAAGGTGTACTGAACTGTAATCTGTC
84873168 AATTCCTGTACATGTAA
1 AATTCCTGTACATGTAA
84873185 GCTCATACAA
Statistics
Matches: 195, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
190 3 0.02
192 151 0.77
196 35 0.18
197 6 0.03
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (192 bp):
AATTCCTGTACATGTAACATTTATACCGTATATCCTTATATCAATATATATATGAACCATTTCCA
TGTAAATACCTACACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCATTGAA
CCACTTAGAATCACGTTAGATATGCGGTAGTACACACAAGGTGTACTGAACTGTAATCTGTC
Found at i:84886837 original size:14 final size:14
Alignment explanation
Indices: 84886814--84886844 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
84886804 TTAAGGTGAA
*
84886814 TTTTCTATTTTTAT
1 TTTTCAATTTTTAT
84886828 TTTTCAATTTTTAT
1 TTTTCAATTTTTAT
84886842 TTT
1 TTT
84886845 CGAATCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCAATTTTTAT
Found at i:84887543 original size:3 final size:3
Alignment explanation
Indices: 84887526--84887579 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
84887516 AATACTCTTT
*
84887526 TTA TTG TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
84887573 TTA TTA T
1 TTA TTA T
84887580 GCATTAGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:84895545 original size:14 final size:14
Alignment explanation
Indices: 84895526--84895552 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
84895516 AGAAAACAAT
84895526 GAAAGAAGGATCAA
1 GAAAGAAGGATCAA
84895540 GAAAGAAGGATCA
1 GAAAGAAGGATCA
84895553 CAAGAACCTT
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:0.56, C:0.07, G:0.30, T:0.07
Consensus pattern (14 bp):
GAAAGAAGGATCAA
Found at i:84900818 original size:54 final size:54
Alignment explanation
Indices: 84900674--84900965 Score: 482
Period size: 54 Copynumber: 5.4 Consensus size: 54
84900664 CAATGAAGTA
*
84900674 TTTTAATTTCTGTTTCTTTCAAAAATCAACTCATATTGCGAA-AGATGAGTTGAGCC
1 TTTTAATTTCTG-TT-TTTCAAAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCC
84900730 TTTTAATTT-TGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
84900783 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
*
84900837 TTTTAATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
* **
84900890 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
*
84900944 CTTTAATTTCTGTTTTTCAAAA
1 TTTTAATTTCTGTTTTTCAAAA
84900966 TCTACTTTTC
Statistics
Matches: 227, Mismatches: 6, Indels: 8
0.94 0.02 0.03
Matches are distributed among these distances:
52 2 0.01
53 96 0.42
54 118 0.52
55 2 0.01
56 9 0.04
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (54 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
Found at i:84900862 original size:107 final size:107
Alignment explanation
Indices: 84900674--84900967 Score: 484
Period size: 107 Copynumber: 2.7 Consensus size: 107
84900664 CAATGAAGTA
*
84900674 TTTTAATTTCTGTTTCTTTCAAAAATCAACTCATATTGCGAA-AGATGAGTTGAGCCTTTTAATT
1 TTTTAATTTCTG-TT-TTTCAAAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTTTTAATT
84900738 T-TGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
63 TCTGTTTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
84900783 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTTCT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTTCT
*
84900848 GTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 GTTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
* ** *
84900890 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCCTTTAATTTCT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTTCT
84900955 GTTTTTCAAAATC
66 GTTTTTCAAAATC
84900968 TACTTTTCAA
Statistics
Matches: 177, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
106 2 0.01
107 153 0.86
108 10 0.06
109 12 0.07
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (107 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTTCT
GTTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
Found at i:84902212 original size:14 final size:14
Alignment explanation
Indices: 84902193--84902223 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
84902183 TTAAGGTGAA
84902193 TTTTCTATTTTTAT
1 TTTTCTATTTTTAT
84902207 TTTTCTATTTTTAT
1 TTTTCTATTTTTAT
84902221 TTT
1 TTT
84902224 CGAATCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTATTTTTAT
Found at i:84902921 original size:3 final size:3
Alignment explanation
Indices: 84902904--84902942 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
84902894 AATACTCTTG
*
84902904 TTA TTG TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84902943 GCATTAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:84903209 original size:27 final size:29
Alignment explanation
Indices: 84903177--84903243 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
84903167 TTATTATTAT
*
84903177 TATTTTCTAATAC-TATATTATGT--GTA
1 TATTTTCTAATACGTATATTATGTACATA
* * *
84903203 TATTTTTTCACACGTATATTATGTACATA
1 TATTTTCTAATACGTATATTATGTACATA
84903232 TATTTTCTAATA
1 TATTTTCTAATA
84903244 TTTTACATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 10 0.32
27 10 0.32
29 11 0.35
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (29 bp):
TATTTTCTAATACGTATATTATGTACATA
Found at i:84908096 original size:32 final size:34
Alignment explanation
Indices: 84908060--84908124 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
84908050 TAACAGTGGT
*
84908060 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
84908092 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
84908125 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:84908283 original size:137 final size:137
Alignment explanation
Indices: 84908037--84908323 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
84908027 TATTGGGCCT
**
84908037 AAGCCCATTCAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
84908102 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
84908167 CATATGC
131 CATATGC
* *
84908174 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
84908239 AGCCTCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
84908304 CATATGC
131 CATATGC
84908311 AAGCCCATTTGGG
1 AAGCCCATTTGGG
84908324 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:84910146 original size:26 final size:26
Alignment explanation
Indices: 84910110--84910193 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
84910100 CATGAAATTC
84910110 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84910136 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84910162 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84910188 TTATCA
1 TTATCA
84910194 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84913761 original size:8 final size:8
Alignment explanation
Indices: 84913747--84913777 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
84913737 TATACAATAT
84913747 ATGAATTG
1 ATGAATTG
*
84913755 TTGAATTG
1 ATGAATTG
84913763 ATGAATTG
1 ATGAATTG
84913771 ATGAATT
1 ATGAATT
84913778 TGAAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (8 bp):
ATGAATTG
Found at i:84914063 original size:20 final size:20
Alignment explanation
Indices: 84914038--84914080 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
84914028 TAATTACTTG
*
84914038 TAAAAATATCATGGAATTGA
1 TAAAAATAGCATGGAATTGA
84914058 TAAAAATAGCATGGAATTGA
1 TAAAAATAGCATGGAATTGA
84914078 TAA
1 TAA
84914081 TGCTTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (20 bp):
TAAAAATAGCATGGAATTGA
Found at i:84919433 original size:26 final size:27
Alignment explanation
Indices: 84919371--84919438 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
84919361 AAGACCTCGT
*
84919371 TTTGTAAAATTA-CCAAAGTACCCCCAG
1 TTTGTAAAATTATCGAAAGTA-CCCCAG
84919398 TTTGTAAAATTATCGAAA-TA-CCCAGG
1 TTTGTAAAATTATCGAAAGTACCCCA-G
84919424 TTTGTAAAATTATCG
1 TTTGTAAAATTATCG
84919439 GATTTCCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
25 4 0.11
26 16 0.42
27 14 0.37
28 4 0.11
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTATCGAAAGTACCCCAG
Found at i:84919478 original size:27 final size:28
Alignment explanation
Indices: 84919400--84919487 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 28
84919390 ACCCCCAGTT
* *
84919400 TGTAAAATTATCGAAATA-CCCAGGT-T
1 TGTAAAATTATCGAAATATCCCATGTAG
* * *
84919426 TGTAAAATTATCG-GATTTCCCTTGTAG
1 TGTAAAATTATCGAAATATCCCATGTAG
*
84919453 TGTAAAATTACCGAAATATCCC-TGTAG
1 TGTAAAATTATCGAAATATCCCATGTAG
*
84919480 GGTAAAAT
1 TGTAAAAT
84919488 GACTGTTTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.04
26 18 0.36
27 24 0.48
28 6 0.12
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (28 bp):
TGTAAAATTATCGAAATATCCCATGTAG
Found at i:84919544 original size:9 final size:9
Alignment explanation
Indices: 84919530--84919556 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
84919520 TGGACTATGA
84919530 ATTTGACTG
1 ATTTGACTG
84919539 ATTTGACTG
1 ATTTGACTG
84919548 ATTTGACTG
1 ATTTGACTG
84919557 TGATTGTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
ATTTGACTG
Found at i:84919686 original size:26 final size:26
Alignment explanation
Indices: 84919625--84919727 Score: 107
Period size: 27 Copynumber: 3.9 Consensus size: 26
84919615 AAGACCCTAT
* *
84919625 TTTGTAAAATTACCAAAATACCCCCAG
1 TTTGTAAAATTACCGAAATA-CCCAAG
*
84919652 TTTGTAAAATTATCGAAATACCCAAG
1 TTTGTAAAATTACCGAAATACCCAAG
* * * **
84919678 TTTGTAAAATTATCGGATTACCCTCG
1 TTTGTAAAATTACCGAAATACCCAAG
*
84919704 TAGTGTAAAATTACCGAAATACCC
1 T-TTGTAAAATTACCGAAATACCC
84919728 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 28 0.44
27 36 0.56
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (26 bp):
TTTGTAAAATTACCGAAATACCCAAG
Found at i:84921811 original size:29 final size:27
Alignment explanation
Indices: 84921750--84921821 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
84921740 AATGCCTTAT
84921750 TGGTGTGTTAGGGAGGATATACTATAC
1 TGGTGTGTTAGGGAGGATATACTATAC
* * *
84921777 TGGTGTGTTTGGGAGGCTATATTATAC
1 TGGTGTGTTAGGGAGGATATACTATAC
*
84921804 TGGTGTGTTATGGAGGAT
1 TGGTGTGTTAGGGAGGAT
84921822 TTATATTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.06, G:0.36, T:0.38
Consensus pattern (27 bp):
TGGTGTGTTAGGGAGGATATACTATAC
Found at i:84921826 original size:29 final size:27
Alignment explanation
Indices: 84921750--84921830 Score: 101
Period size: 27 Copynumber: 2.9 Consensus size: 27
84921740 AATGCCTTAT
* *
84921750 TGGTGTGTTAGGGAGGATATACTATAC
1 TGGTGTGTTATGGAGGATATATTATAC
*
84921777 TGGTGTGTT-TGGGAGGCTATATTATAC
1 TGGTGTGTTAT-GGAGGATATATTATAC
84921804 TGGTGTGTTATGGAGGATTTATATTAT
1 TGGTGTGTTATGGAGGA--TATATTAT
84921831 TCCGGGTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 37 0.80
28 1 0.02
29 8 0.17
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.41
Consensus pattern (27 bp):
TGGTGTGTTATGGAGGATATATTATAC
Found at i:84923936 original size:17 final size:19
Alignment explanation
Indices: 84923914--84923957 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
84923904 TTTTACTCAA
*
84923914 GTTTTCAAAT-AAGA-AGG
1 GTTTTCAAATGAAAACAGG
84923931 GTTTTC-AATGAAAACAGG
1 GTTTTCAAATGAAAACAGG
84923949 GTTTTCAAA
1 GTTTTCAAA
84923958 AAACACTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 9 0.39
18 9 0.39
19 2 0.09
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (19 bp):
GTTTTCAAATGAAAACAGG
Found at i:84928883 original size:13 final size:14
Alignment explanation
Indices: 84928854--84928886 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
84928844 TATGATTAGT
84928854 GTTAATTAGACTTA
1 GTTAATTAGACTTA
*
84928868 GTTAATTA-AGTTA
1 GTTAATTAGACTTA
84928881 GTTAAT
1 GTTAAT
84928887 ATTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (14 bp):
GTTAATTAGACTTA
Found at i:84929198 original size:46 final size:46
Alignment explanation
Indices: 84929105--84929206 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
84929095 TTGATTTTCA
* * *
84929105 TAACATATGATTCAATACTAAAATTATTCCAAACTAATATGGTAAG
1 TAACATATGACTCAATACTAAAATCATTCCAAACTAATATGATAAG
* * *
84929151 TAATATATGACTCAATACTAAAATCATTCCCAACTAGTAT-ATCAAG
1 TAACATATGACTCAATACTAAAATCATTCCAAACTAATATGAT-AAG
84929197 TAACATATGA
1 TAACATATGA
84929207 TAAAAAATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 47 0.98
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (46 bp):
TAACATATGACTCAATACTAAAATCATTCCAAACTAATATGATAAG
Found at i:84930258 original size:20 final size:17
Alignment explanation
Indices: 84930222--84930260 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
84930212 TTTGAGAAGT
84930222 AACAAGAAAATAAAATA
1 AACAAGAAAATAAAATA
84930239 AACAAGTAAAATTGAAAATA
1 AACAAG-AAAA-T-AAAATA
84930259 AA
1 AA
84930261 GATGTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 1 0.05
20 8 0.42
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (17 bp):
AACAAGAAAATAAAATA
Found at i:84935056 original size:6 final size:6
Alignment explanation
Indices: 84935045--84935069 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
84935035 AGCAAGAGAG
84935045 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
84935070 GAGAGAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:84935162 original size:2 final size:2
Alignment explanation
Indices: 84935155--84935182 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84935145 GAAATCAAAA
84935155 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
84935183 CTAGTTAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:84937006 original size:18 final size:18
Alignment explanation
Indices: 84936983--84937017 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
84936973 TTTATTTATT
84936983 TATTTTTAATTTTTAATA
1 TATTTTTAATTTTTAATA
84937001 TATTTTTAATTTTTAAT
1 TATTTTTAATTTTTAAT
84937018 TCTTTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTTAATTTTTAATA
Found at i:84944088 original size:20 final size:19
Alignment explanation
Indices: 84944056--84944115 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
84944046 AACATTATAT
84944056 TAAATTAAATATTAAGATAA
1 TAAATT-AATATTAAGATAA
*
84944076 TAATTTTAATATTAA-ATTAA
1 TAA-ATTAATATTAAGA-TAA
*
84944096 TAAATTACTATTAAGATAA
1 TAAATTAATATTAAGATAA
84944115 T
1 T
84944116 TAAGTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 14 0.41
20 18 0.53
21 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAATTAATATTAAGATAA
Found at i:84944213 original size:117 final size:125
Alignment explanation
Indices: 84944080--84944317 Score: 334
Period size: 128 Copynumber: 1.9 Consensus size: 125
84944070 AGATAATAAT
84944080 TTTAATATTAAATTAATAAATTACTATTAAGAT-A-ATTAA-GTT-A-AAT-TT-AA-TATTAAA
1 TTTAATATTAAATTAATAAATTACTATTAAGATAAGATTAACGTTAATAATATTAAATTATTAAA
*
84944137 ATATTATTTTTTTTG-GAATAATTAATCTGAAATCAAATTCTC-GAGTAGAATCCAGTTCAC
66 ATATTATTATTTTTGAG-ATAATTAATCTGAAATCAAATTCTCTG-GTAGAATCCAGTTCAC
* *
84944197 TTTAATATTAAATTAATGAATTACTATTAAGATAAGTATTAACTTTAATTTAATATTAAATTATT
1 TTTAATATTAAATTAATAAATTACTATTAAGATAAG-ATTAACGTTAA--TAATATTAAATTATT
84944262 AAAATATTATTATTTTTGAGATAATTAATCTGAAATCAAATTCTCTGGTAGAATCC
63 AAAATATTATTATTTTTGAGATAATTAATCTGAAATCAAATTCTCTGGTAGAATCC
84944318 CAATAAGAGT
Statistics
Matches: 105, Mismatches: 3, Indels: 15
0.85 0.02 0.12
Matches are distributed among these distances:
117 32 0.30
118 1 0.01
120 5 0.05
121 2 0.02
122 1 0.01
125 3 0.03
126 2 0.02
127 2 0.02
128 55 0.52
129 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (125 bp):
TTTAATATTAAATTAATAAATTACTATTAAGATAAGATTAACGTTAATAATATTAAATTATTAAA
ATATTATTATTTTTGAGATAATTAATCTGAAATCAAATTCTCTGGTAGAATCCAGTTCAC
Found at i:84948595 original size:45 final size:45
Alignment explanation
Indices: 84948546--84948635 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
84948536 TCTTTGCGAA
84948546 TACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCGC
1 TACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCGC
84948591 TACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCGC
1 TACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCGC
84948636 CAACTCCCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.36
Consensus pattern (45 bp):
TACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCGC
Found at i:84948981 original size:21 final size:21
Alignment explanation
Indices: 84948941--84948981 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
84948931 ATCTGCTCAA
* *
84948941 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
*
84948962 ACTCCACCTGCTGTGTAGTA
1 ACTCCACCTGCTGTGGAGTA
84948982 TTGCTCGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:84955915 original size:34 final size:34
Alignment explanation
Indices: 84955877--84955943 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
84955867 ACATCTCTCA
*
84955877 ATAAACCCAGGAAAAAAACCCTTTTCCTCTCGTT
1 ATAAACCCAGAAAAAAAACCCTTTTCCTCTCGTT
*
84955911 ATAAACCCAGAAAAAAAACTCTTTTCCTCTCGT
1 ATAAACCCAGAAAAAAAACCCTTTTCCTCTCGT
84955944 AATGTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.28, G:0.07, T:0.27
Consensus pattern (34 bp):
ATAAACCCAGAAAAAAAACCCTTTTCCTCTCGTT
Found at i:84960746 original size:22 final size:23
Alignment explanation
Indices: 84960699--84960746 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
84960689 TTTTTTTATT
* *
84960699 TTTA-TATATATTTTAAGATATA
1 TTTATTATATATTTTAAAAAATA
84960721 -TTATTATAT-TTTTAAAAAATA
1 TTTATTATATATTTTAAAAAATA
84960742 TTTAT
1 TTTAT
84960747 GTATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATTATATATTTTAAAAAATA
Found at i:84961142 original size:18 final size:20
Alignment explanation
Indices: 84961105--84961170 Score: 82
Period size: 19 Copynumber: 3.2 Consensus size: 20
84961095 TCTTTCAACA
84961105 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
84961125 -AAAATTCAAAAT-ATTTTT
1 AAAAATTCAAAATAATTTTT
*
84961143 AAAAATTCTAAAATTTATCTTTT
1 AAAAATTC-AAAA-TAAT-TTTT
84961166 AAAAA
1 AAAAA
84961171 ATATATAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.15
19 19 0.46
20 4 0.10
21 1 0.02
22 2 0.05
23 9 0.22
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:84962442 original size:16 final size:15
Alignment explanation
Indices: 84962421--84962450 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
84962411 AGAAAGGACA
84962421 AACAAAGAAAACAAAT
1 AACAAAG-AAACAAAT
84962437 AACAAAGAAACAAA
1 AACAAAGAAACAAA
84962451 AAATAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.13, G:0.07, T:0.03
Consensus pattern (15 bp):
AACAAAGAAACAAAT
Found at i:84963639 original size:27 final size:26
Alignment explanation
Indices: 84963510--84964078 Score: 170
Period size: 26 Copynumber: 22.3 Consensus size: 26
84963500 TTAAACTATT
84963510 TTATTTATTTTAAA---TTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
** * * *
84963533 TTAAACTGTTTTAAATTTTTTTAGATA
1 TT-ATTTATTTTAAATTGTTTTATATA
* *
84963560 -TA-TTATTTTAAATTATTTCATATA
1 TTATTTATTTTAAATTGTTTTATATA
* * * * *
84963584 CTATATACTTTAAATTGCTTTATACA
1 TTATTTATTTTAAATTGTTTTATATA
*
84963610 TTATTTATTTTAAATTTGTTTTATGTA
1 TTATTTATTTTAAA-TTGTTTTATATA
*
84963637 TTATTCATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAATTGTTTTATATA
*
84963662 TTACTTTA----AAATT-TTTCATATA
1 TTA-TTTATTTTAAATTGTTTTATATA
** *
84963684 TTATCAATTTCAAA-T-TTTTATAT-
1 TTATTTATTTTAAATTGTTTTATATA
* *
84963707 GTA-TTA-TCT--ATT-TTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
** *
84963728 CCATTTATTTTTTAAGA-TGTTTTTTATA
1 TTATTTA--TTTTAA-ATTGTTTTATATA
* * *
84963756 TTACTTATTTTAAATTTCTTTTTACATA
1 TTATTTATTTTAAA-TT-GTTTTATATA
* * ** *
84963784 ATATTTATTTTAAACTCATTTATACA
1 TTATTTATTTTAAATTGTTTTATATA
* * *
84963810 TTATTTATCTTAAATTATTTTACATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
84963836 TTATTTATTTTAAATTTTTTTCCCCTCGTATA
1 TTATTTATTTTAAA-TTGTTT----T-ATATA
* ****
84963868 TTATTTATTTCAAACTT-TCGCCTATA
1 TTATTTATTTTAAA-TTGTTTTATATA
** * *
84963894 TTACCTATTTTAAATTTTTTTTACATA
1 TTATTTATTTTAAA-TTGTTTTATATA
* * * *
84963921 TAATCTATTTTTAATTGTTTTGTATA
1 TTATTTATTTTAAATTGTTTTATATA
** * * * * *
84963947 TTGCTGATATTAAATTTCTTTTTTCACA
1 TTATTTATTTTAAA-TTGTTTTAT-ATA
**
84963975 TTATTTATTTTAAATTCATTTAT-TA
1 TTATTTATTTTAAATTGTTTTATATA
* * * *
84964000 TCA--T-TTTAAAATTTGTTTTACATT
1 TTATTTATTTTAAA-TTGTTTTATATA
* *
84964024 TTATTTATTTTAATTTGCTTTATA-A
1 TTATTTATTTTAAATTGTTTTATATA
* *
84964049 -T-TTT-TTTAAAATTGTTATATATA
1 TTATTTATTTTAAATTGTTTTATATA
84964072 TTATTTA
1 TTATTTA
84964079 ATTCATTTGT
Statistics
Matches: 388, Mismatches: 114, Indels: 85
0.66 0.19 0.14
Matches are distributed among these distances:
19 1 0.00
20 9 0.02
21 9 0.02
22 33 0.09
23 15 0.04
24 39 0.10
25 20 0.05
26 126 0.32
27 72 0.19
28 44 0.11
31 2 0.01
32 18 0.05
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTTTATATA
Found at i:84963711 original size:26 final size:24
Alignment explanation
Indices: 84963609--84963720 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 24
84963599 TGCTTTATAC
*
84963609 ATTATT-T-ATTTTAAATTTGTTTT
1 ATTATTATCATTTTAAATTT-TTAT
84963632 ATGTATTATTCATTTTAAATTGTTT-T
1 AT-TATTA-TCATTTTAAATT-TTTAT
*
84963658 ATTATTA-C-TTTAAAATTTTTCAT
1 ATTATTATCATTTTAAATTTTT-AT
*
84963681 A-TATTATCAATTTCAAATTTTTAT
1 ATTATTATC-ATTTTAAATTTTTAT
84963705 ATGTATTATCTATTTT
1 AT-TATTATC-ATTTT
84963721 TTATATACCA
Statistics
Matches: 73, Mismatches: 4, Indels: 21
0.74 0.04 0.21
Matches are distributed among these distances:
21 3 0.04
22 13 0.18
23 6 0.08
24 7 0.10
25 16 0.22
26 15 0.21
27 12 0.16
28 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTATTATCATTTTAAATTTTTAT
Found at i:84964046 original size:49 final size:48
Alignment explanation
Indices: 84963974--84964078 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 48
84963964 CTTTTTTCAC
* *
84963974 ATTATTTATTTTAAATTCATTTATTATCATTTTAAAATTTGTTTTACAT
1 ATTATTTATTTTAAATTCATTTATAATCATTTTAAAA-TTGTTATACAT
* * ** *
84964023 TTTATTTATTTTAATTTGC-TTTATAATTTTTTTAAAATTGTTATATAT
1 ATTATTTATTTTAAATT-CATTTATAATCATTTTAAAATTGTTATACAT
84964071 ATTATTTA
1 ATTATTTA
84964079 ATTCATTTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 16 0.34
49 30 0.64
50 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (48 bp):
ATTATTTATTTTAAATTCATTTATAATCATTTTAAAATTGTTATACAT
Found at i:84985667 original size:18 final size:18
Alignment explanation
Indices: 84985646--84985682 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
84985636 GGTTCTCAAG
84985646 AATTAAAAAAATTCAAAA
1 AATTAAAAAAATTCAAAA
**
84985664 AATTAAAAATTTTCAAAA
1 AATTAAAAAAATTCAAAA
84985682 A
1 A
84985683 TTTATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTAAAAAAATTCAAAA
Found at i:84985683 original size:17 final size:17
Alignment explanation
Indices: 84985641--84985684 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
84985631 TAAAAGGTTC
*
84985641 TCAAGAATTAAAAAAAT
1 TCAAAAATTAAAAAAAT
**
84985658 TCAAAAAATTAAAAATTT
1 TC-AAAAATTAAAAAAAT
84985676 TCAAAAATT
1 TCAAAAATT
84985685 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (17 bp):
TCAAAAATTAAAAAAAT
Found at i:84989094 original size:306 final size:304
Alignment explanation
Indices: 84988541--84989134 Score: 752
Period size: 306 Copynumber: 1.9 Consensus size: 304
84988531 GATCACCTCC
* * * *
84988541 GATAAATAAGATTGGCCTTGACATCCAAGTCAATGTTAGGTTTAGTAATATCTTATTGTTTGGGA
1 GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
* * *
84988606 ATTAAATTTCACATGTATGTGCACGAATTGTACTTTGACCTTGAGATCAAATCTAATTTATGGAT
66 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
** * * *
84988671 ATGCTTTTCAAAGAATCTTGGGCATAGGTTTTGTGGAGAATTAAATCCCACGAAAAACTTGACAC
131 ATGCTTTTCAAAGAATCTTGAACATAGATTTTGTAGAGAATTAAATCCCACAAAAAACTTGACAC
* * * *
84988736 CTATGAGTGTCGAGATTTACCTATAAAAAAGAGCATATATTGACAGATAATGAAAAAAAAAGTTT
196 CTATGAGTATCGAAATTTACCTATAAAAAACAGCATAGATTGACAGATAATG--AAAAAAAGTTT
* * *
84988801 TGAAAAAGAACTACAATGTTCTCCTCAAAACCATTAAGAGATTTTT
259 TAAAAAAGAACTACAATGTTCACCACAAAACCATTAAGAGATTTTT
** * **
84988847 GATAAATAAGATTGGCCTTGACATCCTGGTCGATATTAGATTTAGTCGTATCTTATTATTTAGGA
1 GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
* * * *
84988912 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACTTTGAGATCAAGTCTAATTTTTGTAT
66 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
** *
84988977 ATG-TTTTTTAAGAAATCTTGAATATAGATTTTGTAGAGAATTAAATCCCACAAAAAAC-TGAAC
131 ATGCTTTTCAAAG-AATCTTGAACATAGATTTTGTAGAGAATTAAATCCCACAAAAAACTTG-AC
* * *
84989040 ACCTATGAGTATCGAAATTTTTCCCTA-AAATGAAACTGCATCAGA-T-A-A-ATAATGAAAAAG
194 ACCTATGAGTATCGAAA--TTTACCTATAAA--AAACAGCAT-AGATTGACAGATAATGAAAAAA
84989100 AGTTTTAAAAAAGAACTACAATGTTCACCACAAAA
254 AGTTTTAAAAAAGAACTACAATGTTCACCACAAAA
84989135 TGTTGAATGT
Statistics
Matches: 247, Mismatches: 34, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
304 37 0.15
305 9 0.04
306 179 0.72
307 4 0.02
308 8 0.03
309 8 0.03
310 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (304 bp):
GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
ATGCTTTTCAAAGAATCTTGAACATAGATTTTGTAGAGAATTAAATCCCACAAAAAACTTGACAC
CTATGAGTATCGAAATTTACCTATAAAAAACAGCATAGATTGACAGATAATGAAAAAAAGTTTTA
AAAAAGAACTACAATGTTCACCACAAAACCATTAAGAGATTTTT
Found at i:84989395 original size:6 final size:6
Alignment explanation
Indices: 84989384--84989415 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
84989374 TCCAAAAATA
84989384 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
84989416 AGCTTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:84989855 original size:16 final size:16
Alignment explanation
Indices: 84989810--84989855 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
84989800 GGGTTTGGGT
* * *
84989810 TAATTTTGATTTCAAG
1 TAATTTTAATTTAAAA
84989826 TAATTTTAAATTTAAAA
1 TAATTTT-AATTTAAAA
84989843 TAATTTTAATTTA
1 TAATTTTAATTTA
84989856 GGTTATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (16 bp):
TAATTTTAATTTAAAA
Found at i:84991452 original size:76 final size:76
Alignment explanation
Indices: 84991326--84991474 Score: 298
Period size: 76 Copynumber: 2.0 Consensus size: 76
84991316 CGAACAAATA
84991326 CAATAACATAGAGTGGTTGGTTGATTTCCATGTGCTTGCTTAACTTCTAAATTAGGGATCTAATT
1 CAATAACATAGAGTGGTTGGTTGATTTCCATGTGCTTGCTTAACTTCTAAATTAGGGATCTAATT
84991391 CGTTATTAATG
66 CGTTATTAATG
84991402 CAATAACATAGAGTGGTTGGTTGATTTCCATGTGCTTGCTTAACTTCTAAATTAGGGATCTAATT
1 CAATAACATAGAGTGGTTGGTTGATTTCCATGTGCTTGCTTAACTTCTAAATTAGGGATCTAATT
84991467 CGTTATTA
66 CGTTATTA
84991475 CTTCTAAATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (76 bp):
CAATAACATAGAGTGGTTGGTTGATTTCCATGTGCTTGCTTAACTTCTAAATTAGGGATCTAATT
CGTTATTAATG
Found at i:84993685 original size:40 final size:40
Alignment explanation
Indices: 84993625--84993808 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 40
84993615 TATTCGAATG
*
84993625 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
84993665 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* *
84993705 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
84993745 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
84993785 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
84993809 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:84993758 original size:80 final size:80
Alignment explanation
Indices: 84993625--84993808 Score: 273
Period size: 80 Copynumber: 2.3 Consensus size: 80
84993615 TATTCGAATG
* * *
84993625 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
84993689 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
*
84993705 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
84993770 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
84993785 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
84993809 CTTGTGCGAG
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
79 3 0.03
80 92 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:85000962 original size:40 final size:40
Alignment explanation
Indices: 85000902--85001085 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
85000892 TATTCGAATG
* *
85000902 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
85000942 ATATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
85000982 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
85001022 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
85001062 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
85001086 CTTGTCCGAG
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:85003953 original size:63 final size:62
Alignment explanation
Indices: 85003852--85003982 Score: 174
Period size: 63 Copynumber: 2.1 Consensus size: 62
85003842 ATCTTTGCTT
* *
85003852 ATTTGCAAATGAATTCATTTCTCATTTTCATTTTCATTTCCATTTT-GAGAAAACCACATTC
1 ATTTCCAAATGAATTCATTTCTCATTTTCATTTTCATTTCCATTTTGGAGAAAACCACAATC
* * ** *
85003913 ATTTCCAAATGATTTTATTTTCTCCATTTTCATTTTCATTTTGATTTTGGAGAAAACCATAATC
1 ATTTCCAAATGAATTCA-TTTCT-CATTTTCATTTTCATTTCCATTTTGGAGAAAACCACAATC
85003977 ATTTCC
1 ATTTCC
85003983 TGAATGTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
61 14 0.23
62 5 0.08
63 22 0.37
64 19 0.32
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (62 bp):
ATTTCCAAATGAATTCATTTCTCATTTTCATTTTCATTTCCATTTTGGAGAAAACCACAATC
Found at i:85005538 original size:22 final size:22
Alignment explanation
Indices: 85005510--85005554 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
85005500 CAGCAACTTA
85005510 TCTCTCTCTCAAGTAAGTGATT
1 TCTCTCTCTCAAGTAAGTGATT
85005532 TCTCTCTCTCAAGTAAGTGATT
1 TCTCTCTCTCAAGTAAGTGATT
85005554 T
1 T
85005555 TGATAGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (22 bp):
TCTCTCTCTCAAGTAAGTGATT
Found at i:85006367 original size:47 final size:45
Alignment explanation
Indices: 85006247--85006369 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 45
85006237 AAGTTATCGT
*
85006247 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGTCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAG--ACATTATGA
*
85006293 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGACATT-ATGA
*
85006338 CGAAAGCTAGTGTAAGACTTGTCTGGGACATG
1 -G--AGCTAGTGTAAGACATGTCTGGGACATG
85006370 CATTGGCCTC
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
45 6 0.09
46 16 0.24
47 26 0.39
48 19 0.28
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGACATTATGA
Found at i:85006373 original size:40 final size:36
Alignment explanation
Indices: 85006329--85006411 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
85006319 CATGGCATCA
85006329 GCATTGAGACGAAAGCTAGTGTAAGACTTGTCTGGGACAT
1 GCATTG-GACGAAAG--A-TGTAAGACTTGTCTGGGACAT
* ***
85006369 GCATTGGCCTCGAGATGTAAGACTTGTCTGGGACAT
1 GCATTGGACGAAAGATGTAAGACTTGTCTGGGACAT
85006405 GCATTGG
1 GCATTGG
85006412 CCTCGAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 28 0.72
37 1 0.03
39 4 0.10
40 6 0.15
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (36 bp):
GCATTGGACGAAAGATGTAAGACTTGTCTGGGACAT
Found at i:85006389 original size:36 final size:36
Alignment explanation
Indices: 85006348--85006425 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
85006338 CGAAAGCTAG
85006348 TGTAAGACTTGTCTGGGACATGCATTGGCCTCGAGA
1 TGTAAGACTTGTCTGGGACATGCATTGGCCTCGAGA
85006384 TGTAAGACTTGTCTGGGACATGCATTGGCCTCGAGA
1 TGTAAGACTTGTCTGGGACATGCATTGGCCTCGAGA
85006420 TGTAAG
1 TGTAAG
85006426 CTAGTGTAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (36 bp):
TGTAAGACTTGTCTGGGACATGCATTGGCCTCGAGA
Found at i:85008947 original size:19 final size:19
Alignment explanation
Indices: 85008904--85008947 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
85008894 TACAAGCAAC
*
85008904 ACAACATTAATCCAAATAA
1 ACAACATTAATCCAAAAAA
*
85008923 ACAACATTAGTCCAAAAAA
1 ACAACATTAATCCAAAAAA
*
85008942 ATAACA
1 ACAACA
85008948 AAAAAATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.20, G:0.02, T:0.18
Consensus pattern (19 bp):
ACAACATTAATCCAAAAAA
Found at i:85009009 original size:19 final size:19
Alignment explanation
Indices: 85008985--85009021 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
85008975 CATAAGTAAA
*
85008985 AGTCGAAGTAAGCAACATG
1 AGTCGAAGTAAACAACATG
85009004 AGTCGAAGTAAACAACAT
1 AGTCGAAGTAAACAACAT
85009022 TATAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (19 bp):
AGTCGAAGTAAACAACATG
Found at i:85012356 original size:37 final size:37
Alignment explanation
Indices: 85012294--85012377 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 37
85012284 ATCATATGAG
*
85012294 AATTTACTAATTACAACTTGAACCAGTAATACAAAATT
1 AATTAACT-ATTACAACTTGAACCAGTAATACAAAATT
*
85012332 AATTAACTATTACAACTTGGACCAGTAATACAAAATT
1 AATTAACTATTACAACTTGAACCAGTAATACAAAATT
85012369 AATTAACTA
1 AATTAACTA
85012378 AGTTTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 37 0.84
38 7 0.16
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (37 bp):
AATTAACTATTACAACTTGAACCAGTAATACAAAATT
Found at i:85018946 original size:46 final size:46
Alignment explanation
Indices: 85018772--85018992 Score: 204
Period size: 46 Copynumber: 4.8 Consensus size: 46
85018762 AAGTTATCGT
* * * *
85018772 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-GATGA
* * * *
85018818 GAGCTAGTGTAAGACTATGTCTGGGACATGGCA-CCAGCATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGA-CCTCGAGATGA
*
85018866 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATG-A
* *
85018913 -AGCTAGTGTAAGACATGTTTGGGACATGTATCGA-CTACGAGAT--
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGA
* *
85018956 -AGTTAGTGTAAGACTATGTCTGGAACATGGCATCGAC
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGAC
85018993 ATTCTACCCC
Statistics
Matches: 145, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
43 13 0.09
44 11 0.08
45 8 0.06
46 62 0.43
47 28 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGA
Found at i:85037967 original size:40 final size:40
Alignment explanation
Indices: 85037923--85038013 Score: 155
Period size: 40 Copynumber: 2.3 Consensus size: 40
85037913 TGACTAAATC
85037923 GTAATAAATTGGACTAAATCAAATAGAACTAAGAACTTAA
1 GTAATAAATTGGACTAAATCAAATAGAACTAAGAACTTAA
* * *
85037963 GTAATAAATTGGACTAAATCGAATATAACTAAGAACTTAG
1 GTAATAAATTGGACTAAATCAAATAGAACTAAGAACTTAA
85038003 GTAATAAATTG
1 GTAATAAATTG
85038014 AACCAAGGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.27
Consensus pattern (40 bp):
GTAATAAATTGGACTAAATCAAATAGAACTAAGAACTTAA
Found at i:85040739 original size:26 final size:26
Alignment explanation
Indices: 85040705--85040758 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
85040695 TTCTTTCTAC
* *
85040705 TTGTGGTAGCCTGGAGACCTTATTCT
1 TTGTAGTAGCCTAGAGACCTTATTCT
*
85040731 TTGTAGTAGCTTAGAGACCTTATTCT
1 TTGTAGTAGCCTAGAGACCTTATTCT
85040757 TT
1 TT
85040759 CCTCTCTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (26 bp):
TTGTAGTAGCCTAGAGACCTTATTCT
Found at i:85044961 original size:5 final size:5
Alignment explanation
Indices: 85044946--85044975 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
85044936 AACAAGTGTG
85044946 TAAAA TAAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA T-AAAA TAAAA TAAAA TAAAA TAAA
85044976 GAACACACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:85050530 original size:15 final size:16
Alignment explanation
Indices: 85050512--85050544 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
85050502 GAAAAAGACC
85050512 ATTAAT-AAATTAAAA
1 ATTAATGAAATTAAAA
*
85050527 ATTAATGTAATTAAAA
1 ATTAATGAAATTAAAA
85050543 AT
1 AT
85050545 ATTTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTAATGAAATTAAAA
Found at i:85050552 original size:23 final size:25
Alignment explanation
Indices: 85050526--85050576 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
85050516 ATAAATTAAA
*
85050526 AATTAATGTAA-T-TAAAAATATTT
1 AATTAATGTAATTATAAAAATAATT
*
85050549 AATTAATTTAATTATAAAAATAATT
1 AATTAATGTAATTATAAAAATAATT
85050574 AAT
1 AAT
85050577 ATTAAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 13 0.54
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATTAATGTAATTATAAAAATAATT
Found at i:85057214 original size:18 final size:19
Alignment explanation
Indices: 85057168--85057224 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
85057158 TATAGTTTTC
85057168 CATTAAAAATATATAAAAAAAT
1 CATTAAAAATAT-T--AAAAAT
85057190 CATT-AAAATGATTAAAAAT
1 CATTAAAAAT-ATTAAAAAT
85057209 CA-TAAAAATATTAAAA
1 CATTAAAAATATTAAAA
85057225 TTTATATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 8 0.24
19 13 0.39
21 6 0.18
22 6 0.18
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (19 bp):
CATTAAAAATATTAAAAAT
Found at i:85057235 original size:17 final size:19
Alignment explanation
Indices: 85057215--85057249 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
85057205 AAATCATAAA
85057215 AATATTA-AAAT-TTATAT
1 AATATTATAAATATTATAT
85057232 AATATTATAAATATTATA
1 AATATTATAAATATTATA
85057250 AAAGTTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATTATAAATATTATAT
Found at i:85057246 original size:9 final size:9
Alignment explanation
Indices: 85057214--85057251 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
85057204 AAAATCATAA
85057214 AAATATTA-
1 AAATATTAT
85057222 AAAT-TTAT
1 AAATATTAT
85057230 ATAATATTAT
1 A-AATATTAT
85057240 AAATATTAT
1 AAATATTAT
85057249 AAA
1 AAA
85057252 AGTTCTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.11
8 5 0.19
9 14 0.52
10 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATATTAT
Found at i:85057251 original size:28 final size:28
Alignment explanation
Indices: 85057220--85057331 Score: 81
Period size: 29 Copynumber: 3.9 Consensus size: 28
85057210 ATAAAAATAT
85057220 TAAAATTTATATAATATTATAAATATTA
1 TAAAATTTATATAATATTATAAATATTA
*
85057248 TAAAAGTTCTA-ATAA-ATTATAAATTTTTA
1 TAAAA-TT-TATATAATATTATAAA-TATTA
* * *
85057277 TAAAATTAATAAAACATATT-TAAAATAGT-
1 TAAAATTTAT-ATA-ATATTAT-AAATATTA
85057306 TAAAATTT-TATAATAAATTATAAATA
1 TAAAATTTATATAAT--ATTATAAATA
85057332 AATAATAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
26 2 0.03
27 3 0.05
28 24 0.36
29 25 0.38
30 6 0.09
31 6 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAATTTATATAATATTATAAATATTA
Found at i:85057333 original size:11 final size:11
Alignment explanation
Indices: 85057313--85057353 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
85057303 AGTTAAAATT
85057313 TTAT-AATAAA
1 TTATAAATAAA
85057323 TTATAAATAAA
1 TTATAAATAAA
*
85057334 TAATAAAT-AA
1 TTATAAATAAA
*
85057344 TTACAAATAA
1 TTATAAATAA
85057354 TAGAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 12 0.46
11 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TTATAAATAAA
Found at i:85058204 original size:9 final size:9
Alignment explanation
Indices: 85058140--85058381 Score: 132
Period size: 9 Copynumber: 25.3 Consensus size: 9
85058130 TATAACTTTA
85058140 TTTATAATT
1 TTTATAATT
*
85058149 TATTAGAACTT
1 T-TTATAA-TT
* *
85058160 ATTATGATTT
1 TTTAT-AATT
*
85058170 TTTATAAGT
1 TTTATAATT
85058179 TTTATAATT
1 TTTATAATT
* *
85058188 AATGATAATT
1 -TTTATAATT
85058198 TTTATAATT
1 TTTATAATT
*
85058207 TGTATGATGATT
1 T-T-T-ATAATT
85058219 TATTATAACTT
1 T-TTATAA-TT
*
85058230 TTTAGAATT
1 TTTATAATT
*
85058239 TTTATAAGCT
1 TTTATAA-TT
*
85058249 TTTATAATA
1 TTTATAATT
85058258 TTTATAAGTT
1 TTTATAA-TT
*
85058268 TTGATGAATT
1 TTTAT-AATT
*
85058278 CTTTATAAGT
1 -TTTATAATT
85058288 TTTA-AATAT
1 TTTATAAT-T
85058297 TTTA-AATAT
1 TTTATAAT-T
85058306 TTT-TCAATT
1 TTTAT-AATT
*
85058315 TTTATTATT
1 TTTATAATT
*
85058324 TTTATTATT
1 TTTATAATT
85058333 TTTATAATT
1 TTTATAATT
*
85058342 TATTAGAATT
1 T-TTATAATT
85058352 TTTATAAGTT
1 TTTATAA-TT
** *
85058362 TACATGATT
1 TTTATAATT
85058371 TTTA-AATT
1 TTTATAATT
85058379 TTT
1 TTT
85058382 TATGTATTTT
Statistics
Matches: 180, Mismatches: 35, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
8 8 0.04
9 85 0.47
10 66 0.37
11 14 0.08
12 7 0.04
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (9 bp):
TTTATAATT
Found at i:85058245 original size:19 final size:18
Alignment explanation
Indices: 85058140--85058358 Score: 118
Period size: 19 Copynumber: 11.4 Consensus size: 18
85058130 TATAACTTTA
85058140 TTTATAATTTATTAGAACTT
1 TTTATAATTT-TTAGAA-TT
* * * *
85058160 ATTATGATTTTTTATAAGT
1 TTTAT-AATTTTTAGAATT
* * *
85058179 TTTATAATTAATGATAATT
1 TTTATAATT-TTTAGAATT
*
85058198 TTTATAATTTGTATGATGATT
1 TTTATAATTTTTA-GA--ATT
85058219 TATTATAACTTTTTAGAATT
1 T-TTATAA-TTTTTAGAATT
* * *
85058239 TTTATAAGCTTTTATAATA
1 TTTATAA-TTTTTAGAATT
*
85058258 TTTATAAGTTTTGATGAATT
1 TTTATAA-TTTTTA-GAATT
*
85058278 CTTTATAAGTTTTA-AATAT
1 -TTTATAATTTTTAGAAT-T
**
85058297 TTTA-AATATTTTTCAATT
1 TTTATAAT-TTTTAGAATT
* **
85058315 TTTATTATTTTTATTATT
1 TTTATAATTTTTAGAATT
85058333 TTTATAATTTATTAGAATT
1 TTTATAATTT-TTAGAATT
85058352 TTTATAA
1 TTTATAA
85058359 GTTTACATGA
Statistics
Matches: 152, Mismatches: 33, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
17 2 0.01
18 36 0.24
19 66 0.43
20 20 0.13
21 15 0.10
22 8 0.05
23 5 0.03
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTATAATTTTTAGAATT
Found at i:85058284 original size:21 final size:19
Alignment explanation
Indices: 85058194--85058400 Score: 105
Period size: 19 Copynumber: 10.8 Consensus size: 19
85058184 AATTAATGAT
85058194 AATTTTTATAA-TTTGTATG
1 AATTTTTATAAGTTT-TATG
*
85058213 ATGATTTATTATAACTTTT-TAG
1 A--ATTT-TTATAAGTTTTAT-G
85058235 AATTTTTATAAGCTTTTAT-
1 AATTTTTATAAG-TTTTATG
*
85058254 AATATTTATAAGTTTTGATG
1 AATTTTTATAAGTTTT-ATG
85058274 AATTCTTTATAAGTTTTA--
1 AATT-TTTATAAGTTTTATG
* *
85058292 AATATTTTA-AA-TATTTTTC
1 AAT-TTTTATAAGT-TTTATG
* *
85058311 AATTTTTATTATTTTTAT-
1 AATTTTTATAAGTTTTATG
* *
85058329 TATTTTTATAATTTATTA-G
1 AATTTTTATAAGTT-TTATG
*
85058348 AATTTTTATAAGTTTACATG
1 AATTTTTATAAGTTT-TATG
*
85058368 -ATTTTTA-AATTTTTTATG
1 AATTTTTATAA-GTTTTATG
* *
85058386 TA-TTTTATAAATTTT
1 AATTTTTATAAGTTTT
85058401 TTTAAAAAGT
Statistics
Matches: 151, Mismatches: 14, Indels: 47
0.71 0.07 0.22
Matches are distributed among these distances:
16 1 0.01
17 5 0.03
18 43 0.28
19 58 0.38
20 14 0.09
21 18 0.12
22 9 0.06
23 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.59
Consensus pattern (19 bp):
AATTTTTATAAGTTTTATG
Found at i:85058296 original size:38 final size:38
Alignment explanation
Indices: 85058221--85058359 Score: 108
Period size: 37 Copynumber: 3.7 Consensus size: 38
85058211 TGATGATTTA
*
85058221 TTATAACTTTTTAGAATTTTTATAAGCTTTTATAATAT
1 TTATAACTTTTGAGAATTTTTATAAGCTTTTATAATAT
*
85058259 TTATAAGTTTTGATGAATTCTTTATAAG-TTTTA-AATAT
1 TTATAACTTTTGA-GAATT-TTTATAAGCTTTTATAATAT
* *** * * * *
85058297 TT-TAAATATTTTTCAATTTTTATTA-TTTTTATTATTT
1 TTATAACT-TTTGAGAATTTTTATAAGCTTTTATAATAT
*
85058334 TTATAA-TTTATTAGAATTTTTATAAG
1 TTATAACTTT-TGAGAATTTTTATAAG
85058360 TTTACATGAT
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
36 13 0.16
37 26 0.32
38 24 0.30
39 10 0.12
40 8 0.10
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (38 bp):
TTATAACTTTTGAGAATTTTTATAAGCTTTTATAATAT
Found at i:85062884 original size:12 final size:12
Alignment explanation
Indices: 85062867--85062892 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85062857 TTTCCTGATT
85062867 TTGCCTTACCAA
1 TTGCCTTACCAA
85062879 TTGCCTTACCAA
1 TTGCCTTACCAA
85062891 TT
1 TT
85062893 CAACAGGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (12 bp):
TTGCCTTACCAA
Done.