Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 32 of 126
Found at i:9777998 original size:27 final size:27
Alignment explanation
Indices: 9777947--9778012 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
9777937 TTTCAAAAAA
**
9777947 AGTCAACAGTCAAAGTCAATGGTCAAC
1 AGTCAACAGTCAAAGTCAACAGTCAAC
* *
9777974 AGTCAATAGTCAAAGTTAACAGTCAAC
1 AGTCAACAGTCAAAGTCAACAGTCAAC
* *
9778001 GGTCAACGGTCA
1 AGTCAACAGTCA
9778013 GTCAACGGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (27 bp):
AGTCAACAGTCAAAGTCAACAGTCAAC
Found at i:9780459 original size:5 final size:5
Alignment explanation
Indices: 9780449--9780474 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9780439 AAGTAAGTTT
9780449 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
9780475 CAACTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:9782698 original size:14 final size:14
Alignment explanation
Indices: 9782666--9782698 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9782656 AGCTCAAACG
9782666 AAAAAGGGAAGGAA
1 AAAAAGGGAAGGAA
*
9782680 GAAAAGGGAAGGAA
1 AAAAAGGGAAGGAA
9782694 AAAAA
1 AAAAA
9782699 AAAAGGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAAAAGGGAAGGAA
Found at i:9783431 original size:18 final size:18
Alignment explanation
Indices: 9783408--9783444 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9783398 TTTGTGATCA
9783408 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
9783426 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
9783444 A
1 A
9783445 TATGAATTGT
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:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:9789449 original size:14 final size:14
Alignment explanation
Indices: 9789430--9789456 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9789420 GCTCAAACGA
9789430 AAAAGGGAAGGAAG
1 AAAAGGGAAGGAAG
9789444 AAAAGGGAAGGAA
1 AAAAGGGAAGGAA
9789457 AAAGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AAAAGGGAAGGAAG
Found at i:9789862 original size:17 final size:18
Alignment explanation
Indices: 9789840--9789875 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9789830 TAAATGGGTT
9789840 AATTAG-GAATAAATTGG
1 AATTAGAGAATAAATTGG
*
9789857 AATTAGAGTATAAATTGG
1 AATTAGAGAATAAATTGG
9789875 A
1 A
9789876 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (18 bp):
AATTAGAGAATAAATTGG
Found at i:9793578 original size:40 final size:40
Alignment explanation
Indices: 9793523--9793732 Score: 217
Period size: 40 Copynumber: 5.3 Consensus size: 40
9793513 GCACCTTCCA
9793523 ATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCG
1 ATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCG
* * *** * *
9793563 ATCTCTTACCCTGATCATGGGACAGA-TCGCAGCCATCCA
1 ATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCG
*
9793602 ATCTCTTACCCTGATCATGGGGCAAATTAAAAATCATCCG
1 ATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCG
* ** *** *
9793642 ATCTCTTACCCCGATCATGGGGC-AGGTCGTAACCATCCA
1 ATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCG
* * * *
9793681 ATCTCTTACCCCGATCATGAGACAGATTAAAAACCATCCG
1 ATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCG
* *
9793721 ACCTTTTACCCT
1 ATCTCTTACCCT
9793733 TAAATCAAGA
Statistics
Matches: 133, Mismatches: 35, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
39 62 0.47
40 71 0.53
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (40 bp):
ATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCG
Found at i:9793650 original size:79 final size:79
Alignment explanation
Indices: 9793519--9793732 Score: 320
Period size: 79 Copynumber: 2.7 Consensus size: 79
9793509 TACAGCACCT
9793519 TCCAATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCGATCTCTTACCCTGATCATGGG
1 TCCAATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCGATCTCTTACCCTGATCATGGG
*
9793584 ACAGATCGCAGCCA
66 ACAGATCGCAACCA
* *
9793598 TCCAATCTCTTACCCTGATCATGGGGCAAATTAAAAATCATCCGATCTCTTACCCCGATCATGGG
1 TCCAATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCGATCTCTTACCCTGATCATGGG
* * *
9793663 GCAGGTCGTAACCA
66 ACAGATCGCAACCA
* * * * * *
9793677 TCCAATCTCTTACCCCGATCATGAGACAGATTAAAAACCATCCGACCTTTTACCCT
1 TCCAATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCGATCTCTTACCCT
9793733 TAAATCAAGA
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 121 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (79 bp):
TCCAATCTCTTACCCTGATCATGGGGCAAATTAAAAACCATCCGATCTCTTACCCTGATCATGGG
ACAGATCGCAACCA
Found at i:9795820 original size:22 final size:22
Alignment explanation
Indices: 9795778--9795820 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9795768 TTAAATCTTT
**
9795778 TTTAATTTCTTTTTTTATACTC
1 TTTAATTTCTTAATTTATACTC
9795800 TTTAATCTTCTTAATTT-TACT
1 TTTAAT-TTCTTAATTTATACT
9795821 AATTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTAATTTCTTAATTTATACTC
Found at i:9800037 original size:23 final size:23
Alignment explanation
Indices: 9800008--9800065 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
9799998 TCATGCGTTA
*
9800008 TATGCTTAAATGCTAATGTGATT
1 TATGCTTAAATACTAATGTGATT
*
9800031 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATACTAATGTGATT
*
9800054 TATGTTTAAATA
1 TATGCTTAAATA
9800066 GGCCCATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TATGCTTAAATACTAATGTGATT
Found at i:9803189 original size:21 final size:21
Alignment explanation
Indices: 9803148--9803189 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9803138 ATAAATATTG
* *
9803148 AAAATATTTAATAAAATATAT
1 AAAAAATTTAATAAAAAATAT
9803169 AAAAAATTTAA-AAAACAATAT
1 AAAAAATTTAATAAAA-AATAT
9803190 TTTATACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTTAATAAAAAATAT
Found at i:9803360 original size:29 final size:30
Alignment explanation
Indices: 9803311--9803380 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
9803301 TTTCAAATAA
9803311 TTAAAATTTAATTTTTATA-TTTT-TATTT
1 TTAAAATTTAATTTTTATATTTTTCTATTT
* *
9803339 TTATGAATTTAATTTTTTTATTTTTCTATTT
1 TTA-AAATTTAATTTTTATATTTTTCTATTT
9803370 TTAAAATTTAA
1 TTAAAATTTAA
9803381 ATCTAATTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.08
29 14 0.39
30 11 0.31
31 8 0.22
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (30 bp):
TTAAAATTTAATTTTTATATTTTTCTATTT
Found at i:9804147 original size:11 final size:10
Alignment explanation
Indices: 9804133--9804200 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 10
9804123 TTTTGATGCA
9804133 TTTTATAATTT
1 TTTTATAA-TT
*
9804144 TTTTATAA-C
1 TTTTATAATT
**
9804153 TTTTATAAAA
1 TTTTATAATT
* *
9804163 GTTTACAATT
1 TTTTATAATT
9804173 TTTTATAATTT
1 TTTTATAA-TT
9804184 TTTTATAA-T
1 TTTTATAATT
9804193 TTTTATAA
1 TTTTATAA
9804201 AAAAAATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
9 17 0.36
10 12 0.26
11 18 0.38
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:9804156 original size:20 final size:20
Alignment explanation
Indices: 9804133--9804200 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
9804123 TTTTGATGCA
*
9804133 TTTTATAATTTTTTTATAAC
1 TTTTATAATTTTTTTATAAT
*** *
9804153 TTTTATAA-AAGTTTACAATT
1 TTTTATAATTTTTTTATAA-T
9804173 TTTTATAATTTTTTTATAAT
1 TTTTATAATTTTTTTATAAT
9804193 TTTTATAA
1 TTTTATAA
9804201 AAAAAATTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
19 6 0.16
20 25 0.68
21 6 0.16
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTTTATAAT
Found at i:9804235 original size:18 final size:19
Alignment explanation
Indices: 9804184--9804254 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
9804174 TTTATAATTT
*
9804184 TTTTATAATTTTTATAAAAAA
1 TTTTAT-ATTTTTA-ATAAAA
**
9804205 AATTATAATTTTTAAT-AAA
1 TTTTAT-ATTTTTAATAAAA
*
9804224 TTTTATATTTTTATTAAAA
1 TTTTATATTTTTAATAAAA
*
9804243 TTTAATATTTTT
1 TTTTATATTTTT
9804255 TATTTTTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 8 0.19
19 21 0.50
20 1 0.02
21 12 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATATTTTTAATAAAA
Found at i:9806578 original size:457 final size:457
Alignment explanation
Indices: 9805191--9807007 Score: 3488
Period size: 457 Copynumber: 4.0 Consensus size: 457
9805181 GAACTGAAAT
*
9805191 TAAATTATATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
1 TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
* * *
9805256 ACTTTTAAAAGATTAAATCAAAATTTTATCTATTTTAAAAGTCAAAATACAATTTTATTATTAAA
66 ACTTTTAAAGGATTAAATCAAAATTTTATCTTTTTTAAAAGTCAAAATACAATTTTACTATTAAA
* *
9805321 AATTTAAATATCTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAATCTGTCATTGCTTTCA
131 AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
9805386 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
196 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
*
9805451 CTTCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
261 CTCCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
9805516 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
326 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
9805581 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTAT
391 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTAT
9805646 TA
456 TA
9805648 TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
1 TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
9805713 ACTTTTAAAGGATTAAATCAAAATTTTATC-TTTTTAAAAGTCAAAATACAATTTTACTATTAAA
66 ACTTTTAAAGGATTAAATCAAAATTTTATCTTTTTTAAAAGTCAAAATACAATTTTACTATTAAA
9805777 AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
131 AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
9805842 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
196 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
*
9805907 CTTCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
261 CTCCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
9805972 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
326 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
9806037 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTAT
391 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTAT
9806102 TA
456 TA
9806104 TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
1 TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
9806169 ACTTTTAAAGGATTAAATCAAAATTTTATCTTTTTTAAAAGTCAAAATACAATTTTACTATTAAA
66 ACTTTTAAAGGATTAAATCAAAATTTTATCTTTTTTAAAAGTCAAAATACAATTTTACTATTAAA
9806234 AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
131 AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
9806299 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
196 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
9806364 CTCCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
261 CTCCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
9806429 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
326 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
9806494 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTAT
391 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTAT
9806559 TA
456 TA
9806561 TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
1 TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
9806626 ACTTTTAAAGGATTAAATCAAAATTTTATCTTTTTTAAAAGTCAAAATACAATTTTACTATTAAA
66 ACTTTTAAAGGATTAAATCAAAATTTTATCTTTTTTAAAAGTCAAAATACAATTTTACTATTAAA
9806691 AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
131 AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
*
9806756 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACATACTTAATGTGCAAATATAACACTG
196 ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
9806821 CTCCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTT----A-A-A-AAATA
261 CTCCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
*
9806879 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGAGGTT
326 TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
9806944 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTA
391 GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTA
9807008 AGAAATAAAG
Statistics
Matches: 1350, Mismatches: 9, Indels: 9
0.99 0.01 0.01
Matches are distributed among these distances:
450 133 0.10
451 1 0.00
452 1 0.00
453 1 0.00
456 452 0.33
457 762 0.56
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (457 bp):
TAAATTAAATATTTTTACGATAGTAAAAATGTAATTTCACCATTTTAATAGCTTATATCTTTATA
ACTTTTAAAGGATTAAATCAAAATTTTATCTTTTTTAAAAGTCAAAATACAATTTTACTATTAAA
AATTTAAATATTTAAAAGACTTAAATAAAAATTTTCTATCGCCCTTAAGTCTGTCATTGCTTTCA
ATTAAAATAACTCTCCAAGAATAGAACACTCTCAAAAACAGACTTAATGTGCAAATATAACACTG
CTCCAAAAACTTCACTCAAGTCCAAAATAACATAAACAACTTTTAAATTTAAAAACACACAAATA
TCCCTAAATATTATCCCATCAATTTTGAAATACTTCAAACTCTTTAAATAAAATTGGATGGGGTT
GAAGATTTCAAAATAGAATTAATGTATTTTTGAACTCTTTCATTATTATAAAAAAATGTCATTAT
TA
Found at i:9814442 original size:26 final size:26
Alignment explanation
Indices: 9814413--9814480 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
9814403 CAGCGCTTGT
9814413 GAGCTCTCCTTGCGAGCCCTATCGAC
1 GAGCTCTCCTTGCGAGCCCTATCGAC
* * * *
9814439 GAGCACTCCTTGCGAACCCTATTGGC
1 GAGCTCTCCTTGCGAGCCCTATCGAC
9814465 GAGCTCTCCTTGCGAG
1 GAGCTCTCCTTGCGAG
9814481 TAGTTCTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.16, C:0.35, G:0.25, T:0.24
Consensus pattern (26 bp):
GAGCTCTCCTTGCGAGCCCTATCGAC
Found at i:9814549 original size:28 final size:26
Alignment explanation
Indices: 9814382--9814549 Score: 67
Period size: 26 Copynumber: 6.4 Consensus size: 26
9814372 ACGAGTTATG
* **
9814382 TCTGTGAGCTCTCCTTATGAG-CAGC
1 TCTGTGAGCTCTCCTTGTGAGCCATA
* * *
9814407 GCTTGTGAGCTCTCCTTGCGAGCCCTA
1 TC-TGTGAGCTCTCCTTGTGAGCCATA
* * * * *
9814434 TC-GACGAGCACTCCTTGCGAACCCTA
1 TCTG-TGAGCTCTCCTTGTGAGCCATA
* * *
9814460 T-TGGCGAGCTCTCCTTGCGAG-TAGT-
1 TCT-GTGAGCTCTCCTTGTGAGCCA-TA
*
9814485 TCTTGTGAGCTCTCCTTGTGAGCCCTA
1 TC-TGTGAGCTCTCCTTGTGAGCCATA
* ** *
9814512 TTTGCAAGCTCTCCTTTTGTGAGCTATA
1 TCTGTGAGCTCTCC--TTGTGAGCCATA
9814540 TCTGTGAGCT
1 TCTGTGAGCT
9814550 GTCCATCTTC
Statistics
Matches: 105, Mismatches: 26, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
25 3 0.03
26 80 0.76
27 5 0.05
28 17 0.16
ACGTcount: A:0.15, C:0.29, G:0.24, T:0.33
Consensus pattern (26 bp):
TCTGTGAGCTCTCCTTGTGAGCCATA
Found at i:9820077 original size:14 final size:14
Alignment explanation
Indices: 9820060--9820089 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9820050 TTTAAACTCT
*
9820060 AAAAGATAAATCTA
1 AAAAGATAAATATA
9820074 AAAAGATAAATATA
1 AAAAGATAAATATA
9820088 AA
1 AA
9820090 TTAAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:9821826 original size:14 final size:15
Alignment explanation
Indices: 9821807--9821835 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9821797 TGAGATAGAC
9821807 CCATAGG-TAAATGT
1 CCATAGGCTAAATGT
9821821 CCATAGGCTAAATGT
1 CCATAGGCTAAATGT
9821836 ACTCTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (15 bp):
CCATAGGCTAAATGT
Found at i:9825436 original size:16 final size:17
Alignment explanation
Indices: 9825399--9825438 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9825389 ATATCAAAAT
9825399 AAATGCAGTGACAATAA
1 AAATGCAGTGACAATAA
9825416 AAATGCAG-GCACAAT-A
1 AAATGCAGTG-ACAATAA
9825432 AAATGCA
1 AAATGCA
9825439 AGAATGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.53, C:0.15, G:0.17, T:0.15
Consensus pattern (17 bp):
AAATGCAGTGACAATAA
Found at i:9829078 original size:141 final size:140
Alignment explanation
Indices: 9828890--9829170 Score: 472
Period size: 141 Copynumber: 2.0 Consensus size: 140
9828880 TCATTTCTTC
*
9828890 TTCAGGAACACAGCGTCGAATTATATTGTTAGTTCATACCTTGAATAGGGATTGCTCGTTCCAAT
1 TTCAGGAACACAACGTCGAATTATATTGTTAGTTCATACCTTGAATAGGGATTGCTCGTTCCAAT
* * * *
9828955 GATATTTAGCAGCATCGCGTATGAACCTGATTTTTTTATGACTAGTTGCACTCATGGGTACTTTT
66 GATATTTAACAGCATCGCGTATGAA-CTGATTTTTTTATGACCAGTGGCACTCATGGGTACCTTT
*
9829020 TCACACACAAG
130 CCACACACAAG
*
9829031 TTCAGGAACACAACGTCGAATTATATTGTTAGTTCATACCTTGAATAGGTATTGCTCGTTCCAAT
1 TTCAGGAACACAACGTCGAATTATATTGTTAGTTCATACCTTGAATAGGGATTGCTCGTTCCAAT
* *
9829096 GATATTTAACAGCATCGCGTATGAACTTATTTTTTTATGACCAGTGGTACTCATGGGTACCTTTC
66 GATATTTAACAGCATCGCGTATGAACTGATTTTTTTATGACCAGTGGCACTCATGGGTACCTTTC
9829161 CACACACAAG
131 CACACACAAG
9829171 ATAATTAACT
Statistics
Matches: 131, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
140 44 0.34
141 87 0.66
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (140 bp):
TTCAGGAACACAACGTCGAATTATATTGTTAGTTCATACCTTGAATAGGGATTGCTCGTTCCAAT
GATATTTAACAGCATCGCGTATGAACTGATTTTTTTATGACCAGTGGCACTCATGGGTACCTTTC
CACACACAAG
Found at i:9837352 original size:25 final size:25
Alignment explanation
Indices: 9837304--9837355 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
9837294 ATACTGGTTA
**
9837304 AACTCTATCTGGGCTCGTAAGAGCT
1 AACTCTATCTGGGCTCACAAGAGCT
* *
9837329 AACTCTATTTGGGCTCACATGAGCT
1 AACTCTATCTGGGCTCACAAGAGCT
9837354 AA
1 AA
9837356 ATTTCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AACTCTATCTGGGCTCACAAGAGCT
Found at i:9839974 original size:69 final size:69
Alignment explanation
Indices: 9839901--9840039 Score: 181
Period size: 69 Copynumber: 2.0 Consensus size: 69
9839891 CGCTTACAGT
* * * *
9839901 TGATGTCATAAAGGTTTTTCGGA-TTAAGAATGCAACCTCCAAAACAACTAGCGGACTTACAATC
1 TGATGTCATAAAGG-TTTGCCGATTTAAGAATACAACCTCCAAAACAACTAGCGGACCTACAATC
*
9839965 CCAAC
65 ACAAC
* * * *
9839970 TGATGTCATAAAGGTTTGCCGATTTAAGATTACAACCTCCAAAATAGCTAGCGGACCTACATTCA
1 TGATGTCATAAAGGTTTGCCGATTTAAGAATACAACCTCCAAAACAACTAGCGGACCTACAATCA
9840035 CAAC
66 CAAC
9840039 T
1 T
9840040 AACACTATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
68 6 0.10
69 54 0.90
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (69 bp):
TGATGTCATAAAGGTTTGCCGATTTAAGAATACAACCTCCAAAACAACTAGCGGACCTACAATCA
CAAC
Found at i:9843855 original size:34 final size:35
Alignment explanation
Indices: 9843801--9843971 Score: 143
Period size: 34 Copynumber: 4.9 Consensus size: 35
9843791 AATGACTATG
* * *
9843801 ATTCATCGG-TTATCCGACTAGCGCTGGGCACAAC
1 ATTCATTGGTTTATCCAACTAGAGCTGGGCACAAC
* * **
9843835 A-TCATTGGTTTATCCAACTAGAGCTGAGCTCATT
1 ATTCATTGGTTTATCCAACTAGAGCTGGGCACAAC
* * * * *
9843869 ATTTATATCGTCAGTTTAACTAACTAGTGTTGGGCAC-AC
1 ATTCAT-T-G---GTTTATCCAACTAGAGCTGGGCACAAC
* *
9843908 ATTCATTGGTTTATCTAACTAGCGCTGGGCACAAC
1 ATTCATTGGTTTATCCAACTAGAGCTGGGCACAAC
9843943 A-TCATTGGTTTATCCAACTAGAGCTGGGC
1 ATTCATTGGTTTATCCAACTAGAGCTGGGC
9843972 TCACAATCGA
Statistics
Matches: 107, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
33 6 0.06
34 68 0.64
35 6 0.06
36 1 0.01
37 2 0.02
38 1 0.01
39 5 0.05
40 18 0.17
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (35 bp):
ATTCATTGGTTTATCCAACTAGAGCTGGGCACAAC
Found at i:9844020 original size:108 final size:108
Alignment explanation
Indices: 9843817--9844022 Score: 263
Period size: 108 Copynumber: 1.9 Consensus size: 108
9843807 CGGTTATCCG
** ** *
9843817 ACTAGCGCTGGGCACAACATCATTGGTTTATCCAACTAGAGCTGAGCTCATTATTTATATCGTCA
1 ACTAGCGCTGGGCACAACATCATTGGTTTATCCAACTAGAGCTGAGCTCACAATCGATATCATCA
* * * *
9843882 GTTTAACTAACTAGTGTTGGGCACACATTCATTGGTTTATCTA
66 GATTAACTAACTAGTGCTCGGCACAAATTCATTGGTTTATCTA
* *
9843925 ACTAGCGCTGGGCACAACATCATTGGTTTATCCAACTAGAGCTGGGCTCACAATCGATATTATCA
1 ACTAGCGCTGGGCACAACATCATTGGTTTATCCAACTAGAGCTGAGCTCACAATCGATATCATCA
* *
9843990 -ATTAA-TCAGATTAGTGCTCGGCGCAAATTCATT
66 GATTAACT-A-ACTAGTGCTCGGCACAAATTCATT
9844023 TACGGTATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 5 0.06
108 77 0.93
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (108 bp):
ACTAGCGCTGGGCACAACATCATTGGTTTATCCAACTAGAGCTGAGCTCACAATCGATATCATCA
GATTAACTAACTAGTGCTCGGCACAAATTCATTGGTTTATCTA
Found at i:9848951 original size:15 final size:15
Alignment explanation
Indices: 9848931--9848962 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9848921 ATCGGCGCAA
9848931 TACTTGCTGAAAAAG
1 TACTTGCTGAAAAAG
*
9848946 TACTTGGTGAAAAAG
1 TACTTGCTGAAAAAG
9848961 TA
1 TA
9848963 ATGCTGACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (15 bp):
TACTTGCTGAAAAAG
Found at i:9851543 original size:117 final size:117
Alignment explanation
Indices: 9851395--9851629 Score: 470
Period size: 117 Copynumber: 2.0 Consensus size: 117
9851385 AAAGATTAGA
9851395 AATCAATAAAAGAAAAAGTAAGTGGATCTAACCCATTGAATCGTGACTATATCCACTATTCTGAT
1 AATCAATAAAAGAAAAAGTAAGTGGATCTAACCCATTGAATCGTGACTATATCCACTATTCTGAT
9851460 ATTAAAATTCAATAGAGATGAAATTGGAACAGTCGATTTCTTTTTATTTCAT
66 ATTAAAATTCAATAGAGATGAAATTGGAACAGTCGATTTCTTTTTATTTCAT
9851512 AATCAATAAAAGAAAAAGTAAGTGGATCTAACCCATTGAATCGTGACTATATCCACTATTCTGAT
1 AATCAATAAAAGAAAAAGTAAGTGGATCTAACCCATTGAATCGTGACTATATCCACTATTCTGAT
9851577 ATTAAAATTCAATAGAGATGAAATTGGAACAGTCGATTTCTTTTTATTTCAT
66 ATTAAAATTCAATAGAGATGAAATTGGAACAGTCGATTTCTTTTTATTTCAT
9851629 A
1 A
9851630 TTTATTTGGA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (117 bp):
AATCAATAAAAGAAAAAGTAAGTGGATCTAACCCATTGAATCGTGACTATATCCACTATTCTGAT
ATTAAAATTCAATAGAGATGAAATTGGAACAGTCGATTTCTTTTTATTTCAT
Found at i:9855957 original size:19 final size:18
Alignment explanation
Indices: 9855930--9855969 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
9855920 ATGAAAAAGA
9855930 AAACAATTAG-AGAAATAT
1 AAACAATTAGTAGAAAT-T
9855948 AAACAGATTAGTAGAAATT
1 AAACA-ATTAGTAGAAATT
9855967 AAA
1 AAA
9855970 AGTTAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (18 bp):
AAACAATTAGTAGAAATT
Found at i:9861967 original size:11 final size:11
Alignment explanation
Indices: 9861946--9861988 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 11
9861936 ACTTAAACTC
9861946 AAAAGAAA-AA
1 AAAAGAAAGAA
*
9861956 AAAA-AAGGAA
1 AAAAGAAAGAA
9861966 AAAAGAAAGAA
1 AAAAGAAAGAA
9861977 AAAAGAAA-AA
1 AAAAGAAAGAA
9861987 AA
1 AA
9861989 GGAGAGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 14 0.48
11 13 0.45
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:9861978 original size:19 final size:20
Alignment explanation
Indices: 9861946--9861989 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
9861936 ACTTAAACTC
*
9861946 AAAAGAAAAAAAAAAAGGAA
1 AAAAGAAAAAAAAAAAGAAA
*
9861966 AAAAG-AAAGAAAAAAGAAA
1 AAAAGAAAAAAAAAAAGAAA
9861985 AAAAG
1 AAAAG
9861990 GAGAGGTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAAGAAA
Found at i:9863884 original size:29 final size:29
Alignment explanation
Indices: 9863850--9863991 Score: 148
Period size: 29 Copynumber: 4.9 Consensus size: 29
9863840 CCAACCATCT
* *
9863850 CAAAATTACATTTTGACCCCTAAACCTTTC
1 CAAAATTACATTTTAACCCCTAAA-TTTTC
* *
9863880 C-AAATCATATTTTAACCCC-AAATTTTC
1 CAAAATTACATTTTAACCCCTAAATTTTC
9863907 CTAAAATTACATTTTAA-CCCTAAATTTTCC
1 C-AAAATTACATTTTAACCCCTAAATTTT-C
* * *
9863937 CATAATTACATTTTTACCCTTAAACTTTTC
1 CAAAATTACATTTTAACCCCTAAA-TTTTC
*
9863967 CAAAATTATATTTTAACCCC-AAATT
1 CAAAATTACATTTTAACCCCTAAATT
9863992 CTTTGAAACT
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
27 5 0.05
28 8 0.09
29 50 0.54
30 26 0.28
31 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.39
Consensus pattern (29 bp):
CAAAATTACATTTTAACCCCTAAATTTTC
Found at i:9863974 original size:30 final size:30
Alignment explanation
Indices: 9863738--9863985 Score: 163
Period size: 30 Copynumber: 8.4 Consensus size: 30
9863728 TTAAAAAAAC
**
9863738 ACATTTTGA-CCTCTAAACTTTTTTAAAATT
1 ACATTTTGACCCT-TAAACTTTTCCAAAATT
* * *
9863768 TCATTTTGACCTTTAAACTATTCCAAAATT
1 ACATTTTGACCCTTAAACTTTTCCAAAATT
* * * *
9863798 ATATTTTTACCCTTAAAATTTTTCAAAATT
1 ACATTTTGACCCTTAAACTTTTCCAAAATT
* * * * *
9863828 ACGTTTCGACGACC--AACCATCT-CAAAATT
1 ACATTTTGAC--CCTTAAACTTTTCCAAAATT
* * *
9863857 ACATTTTGACCCCTAAACCTTTCC-AAATC
1 ACATTTTGACCCTTAAACTTTTCCAAAATT
* * *
9863886 ATATTTTAACCC-CAAA-TTTTCCTAAAATT
1 ACATTTTGACCCTTAAACTTTTCC-AAAATT
* *
9863915 ACATTTTAACCC-TAAA-TTTTCCCATAATT
1 ACATTTTGACCCTTAAACTTTT-CCAAAATT
*
9863944 ACATTTTTACCCTTAAACTTTTCCAAAATT
1 ACATTTTGACCCTTAAACTTTTCCAAAATT
* *
9863974 ATATTTTAACCC
1 ACATTTTGACCC
9863986 CAAATTCTTT
Statistics
Matches: 169, Mismatches: 38, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
27 7 0.04
28 3 0.02
29 72 0.43
30 79 0.47
31 6 0.04
32 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (30 bp):
ACATTTTGACCCTTAAACTTTTCCAAAATT
Found at i:9864007 original size:87 final size:86
Alignment explanation
Indices: 9863853--9864012 Score: 225
Period size: 87 Copynumber: 1.8 Consensus size: 86
9863843 ACCATCTCAA
9863853 AATTACATTTTGACCCCTAAACCTTTCCAAATCATATTTTAACCCCAAATTTTCCTAAAATTACA
1 AATTACATTTTGACCCCTAAACCTTTCCAAATCATATTTTAACCCCAAATTTT-CTAAAATTACA
9863918 TTTTAACCCTAAATTTTCCCAT
65 TTTTAACCCTAAATTTTCCCAT
* * * * *
9863940 AATTACATTTTTACCCTTAAACTTTTCCAAAATTATATTTTAACCCCAAATTCTT-TGAAACTT-
1 AATTACATTTTGACCCCTAAACCTTTCC-AAATCATATTTTAACCCCAAATT-TTCT-AAAATTA
9864003 CATTTTAACC
63 CATTTTAACC
9864013 TCATTTTTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
87 36 0.55
88 27 0.42
89 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.01, T:0.40
Consensus pattern (86 bp):
AATTACATTTTGACCCCTAAACCTTTCCAAATCATATTTTAACCCCAAATTTTCTAAAATTACAT
TTTAACCCTAAATTTTCCCAT
Found at i:9876276 original size:85 final size:85
Alignment explanation
Indices: 9876131--9876291 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
9876121 TGAAACCCCA
*
9876131 TCTTTCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAGAGGTAATCTTCCTAATGAGATAT
1 TCTTTCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAGAGGTAATCTTCCTAATGAGATAC
*
9876196 AGAGAAGTAGAACAAATCCG
66 AGAAAAGTAGAACAAATCCG
* * * * * * * *
9876216 TCTTTCTGATGAGATATAGAGAAGT-GGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATA
1 TCTTTCTGATGAGATACAGAGAAGTAAG-TCAAAGCAATAAAGAGGTAATCTTCCTAATGAGATA
9876280 CAGAAAAGTAGA
65 CAGAAAAGTAGA
9876292 CCAATTCAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 1 0.02
85 64 0.98
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.25
Consensus pattern (85 bp):
TCTTTCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAGAGGTAATCTTCCTAATGAGATAC
AGAAAAGTAGAACAAATCCG
Found at i:9876423 original size:209 final size:209
Alignment explanation
Indices: 9876050--9876923 Score: 1076
Period size: 209 Copynumber: 4.2 Consensus size: 209
9876040 AACTTCAAAA
* * * * * ** * * * **
9876050 GGTCATTTTCCTGATGAGATACAGAGAAGCAAACTAAAACAATGATGAGAAGCTCAATAAGAGTG
1 GGTCATCTTCCTGATGAGATACAGAAAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGAGTG
** * * * * *
9876115 AAACTTTGAAACCCCATCTT-TCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAGAGGTA-
66 AAACTTCCAAACCCCATCTTCT-TGATGAGATACAAAAAAGTAGGTCAAATCAATAAAGTGG-AC
* * * * * *
9876178 ATCTTCCTAATGAGATATAGAGAAGTAGAA-CAAATCCGTCTTTCTGATGAGATATAGAGAAGTG
129 ATCTTCCTGACGAGATACAGAGAAGTA-AACCAAATCCGTCTTCCTGATGAGATACAGAAAAGTG
9876242 GATTAAATCAATGAAGC
193 GATTAAATCAATGAAGC
9876259 GGTCATCTTCCTGATGAGATACAGAAAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGAGTG
1 GGTCATCTTCCTGATGAGATACAGAAAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGAGTG
* * *
9876324 AAACTTTCAAACCCCATCTTCTTAATGAGATACAAAAAAGTGGGTCAAATCAATAAAGTGGACAT
66 AAACTTCCAAACCCCATCTTCTTGATGAGATACAAAAAAGTAGGTCAAATCAATAAAGTGGACAT
* ** * * *
9876389 CTTCCTGACAAGATGTAGAGAAGTAAACCAAATCCGTCTTCTTGATGAGATACAGAGAAGGGGAT
131 CTTCCTGACGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTGATGAGATACAGAAAAGTGGAT
*
9876454 TAAATCAATGAAGA
196 TAAATCAATGAAGC
** * * *
9876468 GGTCATCTTTTTGATGAGAGATACA-AAGAAATAGACCAATTAAACGAAGTTAAGCTCAATGTGA
1 GGTCATCTTCCTGAT--GAGATACAGAA-AAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGA
* *
9876532 GTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAAAAAAGTAGGTCAAATCAATAAAGTGGT
63 GTGAAACTTCCAAACCCCATCTTCTTGATGAGATACAAAAAAGTAGGTCAAATCAATAAAGTGGA
*
9876597 CATCTTCCTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAAAAGTG
128 CATCTTCCTGACGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTGATGAGATACAGAAAAGTG
*
9876662 AATTAAATCAATGAAGC
193 GATTAAATCAATGAAGC
* * * *
9876679 GGCCATCTTCCTAATGAGATACAGAGAAGTAGACCAATTCAACAAAGTGAAGCTCAATGTGAGTG
1 GGTCATCTTCCTGATGAGATACAGAAAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGAGTG
** * * * * * *
9876744 AAACTTCCAAACTTCATCCTCTTGATGAGATGCAGAGAAGTGGGTCAAATCAATAAAGTGGTCAT
66 AAACTTCCAAACCCCATCTTCTTGATGAGATACAAAAAAGTAGGTCAAATCAATAAAGTGGACAT
* * * * * * *
9876809 CTTCTTGACGAGATGCAGAGAAATGAACCAAATCCATCTTCCTGATAAGATACAGAAAAGTGGAC
131 CTTCCTGACGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTGATGAGATACAGAAAAGTGGAT
9876874 TAAGA--AATGAAGC
196 TAA-ATCAATGAAGC
9876887 GGTCATCTTCCTGATGAGATACAGAAAAGTAGACCAA
1 GGTCATCTTCCTGATGAGATACAGAAAAGTAGACCAA
9876924 GAAAGGAAGC
Statistics
Matches: 582, Mismatches: 75, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
208 45 0.08
209 347 0.60
210 5 0.01
211 185 0.32
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (209 bp):
GGTCATCTTCCTGATGAGATACAGAAAAGTAGACCAATTCAACGAAGTGAAGCTCAATGTGAGTG
AAACTTCCAAACCCCATCTTCTTGATGAGATACAAAAAAGTAGGTCAAATCAATAAAGTGGACAT
CTTCCTGACGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTGATGAGATACAGAAAAGTGGAT
TAAATCAATGAAGC
Found at i:9876715 original size:85 final size:85
Alignment explanation
Indices: 9876551--9876708 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
9876541 CCAAACCCCA
* * * *
9876551 TCTTCCTGATGAGATACAAAAAAGTAGGTCAAATCAATAAAGTGGTCATCTTCCTGACGAGATAC
1 TCTTCCTGATGAGATACAAAAAAGTAGATCAAATCAATAAAGCGGCCATCTTCCTAACGAGATAC
9876616 AGAGAAGTGAACCAAATCCG
66 AGAGAAGTGAACCAAATCCG
* * * *
9876636 TCTTCCTGATGAGATACAGAAAAGT-GAATTAAATCAATGAAGCGGCCATCTTCCTAATGAGATA
1 TCTTCCTGATGAGATACAAAAAAGTAG-ATCAAATCAATAAAGCGGCCATCTTCCTAACGAGATA
9876700 CAGAGAAGT
65 CAGAGAAGT
9876709 AGACCAATTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 1 0.02
85 63 0.98
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAAAAAAGTAGATCAAATCAATAAAGCGGCCATCTTCCTAACGAGATAC
AGAGAAGTGAACCAAATCCG
Found at i:9876862 original size:420 final size:419
Alignment explanation
Indices: 9876099--9876905 Score: 1168
Period size: 420 Copynumber: 1.9 Consensus size: 419
9876089 CAATGATGAG
** * * *
9876099 AAGCTCAATAAGAGTGAAACTTTGAAACCCCATCTTTCTGATGAGATACAGAGAAGTAAGTCAAA
1 AAGCTCAATAAGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAAAAAAGTAAGTCAAA
* * *
9876164 GCAATAAAGAGGTAATCTTCCTAATGAGATATAGAGAAGTAGAACAAATCCGTCTTTCTGATGAG
66 GCAATAAAGAGGTAATCTTCCTAACGAGATACAGAGAAGTAGAACAAATCCGTCTTCCTGATGAG
* * * * *
9876229 ATATAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAAAAGTAGACC
131 ATACAGAAAAGTGAATTAAATCAATGAAGCGGCCATCTTCCTAATGAGATACAGAAAAGTAGACC
* * *
9876294 AATTCAACGAAGTGAAGCTCAATGTGAGTGAAACTTTCAAACCCCATCTTCTTAATGAGATACAA
196 AATTCAACAAAGTGAAGCTCAATGTGAGTGAAACTTCCAAACCCCATCCTCTTAATGAGATACAA
* *
9876359 AAAAGTGGGTCAAATCAATAAAGTGGACATCTTCCTGACAAGATGTAGAGAAGTAAACCAAATCC
261 AAAAGTGGGTCAAATCAATAAAGTGGACATCTTCCTGACAAGATGCAGAGAAATAAACCAAATCC
* * * * * **
9876424 GTCTTCTTGATGAGATACAGAGAAGGGGATTAA-ATCAATGAAGAGGTCATCTTTTTGATGAGAG
326 ATCTTCCTGATAAGATACAGAAAAGGGGACTAAGA--AATGAAGAGGTCATCTTCCTGATGAGAG
9876488 ATACAAAGAAATAGACCAATTAAACGAAGTT
389 ATACAAAGAAATAGACCAATTAAACGAAGTT
** *
9876519 AAGCTCAATGTGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAAAAAAGTAGGTCAAA
1 AAGCTCAATAAGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAAAAAAGTAAGTCAAA
* * * *
9876584 TCAATAAAGTGGTCATCTTCCTGACGAGATACAGAGAAGT-GAACCAAATCCGTCTTCCTGATGA
66 GCAATAAAGAGGTAATCTTCCTAACGAGATACAGAGAAGTAGAA-CAAATCCGTCTTCCTGATGA
*
9876648 GATACAGAAAAGTGAATTAAATCAATGAAGCGGCCATCTTCCTAATGAGATACAGAGAAGTAGAC
130 GATACAGAAAAGTGAATTAAATCAATGAAGCGGCCATCTTCCTAATGAGATACAGAAAAGTAGAC
** * *
9876713 CAATTCAACAAAGTGAAGCTCAATGTGAGTGAAACTTCCAAACTTCATCCTCTTGATGAGATGCA
195 CAATTCAACAAAGTGAAGCTCAATGTGAGTGAAACTTCCAAACCCCATCCTCTTAATGAGATACA
* * * * * *
9876778 GAGAAGTGGGTCAAATCAATAAAGTGGTCATCTTCTTGACGAGATGCAGAGAAATGAACCAAATC
260 AAAAAGTGGGTCAAATCAATAAAGTGGACATCTTCCTGACAAGATGCAGAGAAATAAACCAAATC
* *
9876843 CATCTTCCTGATAAGATACAGAAAAGTGGACTAAGAAATGAAGCGGTCATCTTCCTGATGAGA
325 CATCTTCCTGATAAGATACAGAAAAGGGGACTAAGAAATGAAGAGGTCATCTTCCTGATGAGA
9876906 TACAGAAAAG
Statistics
Matches: 340, Mismatches: 45, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
419 27 0.08
420 312 0.92
421 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (419 bp):
AAGCTCAATAAGAGTGAAACTTCCAAACCCCATCTTCCTGATGAGATACAAAAAAGTAAGTCAAA
GCAATAAAGAGGTAATCTTCCTAACGAGATACAGAGAAGTAGAACAAATCCGTCTTCCTGATGAG
ATACAGAAAAGTGAATTAAATCAATGAAGCGGCCATCTTCCTAATGAGATACAGAAAAGTAGACC
AATTCAACAAAGTGAAGCTCAATGTGAGTGAAACTTCCAAACCCCATCCTCTTAATGAGATACAA
AAAAGTGGGTCAAATCAATAAAGTGGACATCTTCCTGACAAGATGCAGAGAAATAAACCAAATCC
ATCTTCCTGATAAGATACAGAAAAGGGGACTAAGAAATGAAGAGGTCATCTTCCTGATGAGAGAT
ACAAAGAAATAGACCAATTAAACGAAGTT
Found at i:9876883 original size:49 final size:47
Alignment explanation
Indices: 9876827--9876927 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 47
9876817 CGAGATGCAG
* *
9876827 AGAAATGAACCAAATCCATCTTCCTGATAAGATACAGAAAAGTGGACTA
1 AGAAATGAACC-AAT-CATCTTCCTGATAAGATACAGAAAAGTAGACCA
* ** *
9876876 AGAAATGAAGCGGTCATCTTCCTGATGAGATACAGAAAAGTAGACCA
1 AGAAATGAACCAATCATCTTCCTGATAAGATACAGAAAAGTAGACCA
9876923 AGAAA
1 AGAAA
9876928 GGAAGCCACA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 35 0.76
48 1 0.02
49 10 0.22
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.19
Consensus pattern (47 bp):
AGAAATGAACCAATCATCTTCCTGATAAGATACAGAAAAGTAGACCA
Found at i:9876898 original size:47 final size:47
Alignment explanation
Indices: 9876843--9876933 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
9876833 GAACCAAATC
* * *
9876843 CATCTTCCTGATAAGATACAGAAAAGTGGACTAAGAAATGAAGCGGT
1 CATCTTCCTGATAAGATACAGAAAAGTAGACCAAGAAAGGAAGCGGT
*
9876890 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAGAAAGGAAGC
1 CATCTTCCTGATAAGATACAGAAAAGTAGACCAAGAAAGGAAGC
9876934 CACAACACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (47 bp):
CATCTTCCTGATAAGATACAGAAAAGTAGACCAAGAAAGGAAGCGGT
Found at i:9877364 original size:33 final size:32
Alignment explanation
Indices: 9877297--9877365 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
9877287 AAAAACAAAT
* * *
9877297 TTTAAATTTAAAATATCCAATACATTTCTGAA
1 TTTAAATTTAAAAGATCCAATACATTGCTCAA
*
9877329 TTTAAATTTAAAAGGGTCCAATTACA-TGCTCAA
1 TTTAAATTTAAAA-GATCCAA-TACATTGCTCAA
9877362 TTTA
1 TTTA
9877366 CAAAACCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 13 0.42
33 14 0.45
34 4 0.13
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (32 bp):
TTTAAATTTAAAAGATCCAATACATTGCTCAA
Found at i:9877679 original size:16 final size:15
Alignment explanation
Indices: 9877645--9877678 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9877635 TGTTAAAAGA
9877645 TTTTGCATAAAAATG
1 TTTTGCATAAAAATG
* *
9877660 TTTTGCATTAAAGTG
1 TTTTGCATAAAAATG
9877675 TTTT
1 TTTT
9877679 TTAGTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (15 bp):
TTTTGCATAAAAATG
Found at i:9881114 original size:169 final size:171
Alignment explanation
Indices: 9880815--9881156 Score: 643
Period size: 169 Copynumber: 2.0 Consensus size: 171
9880805 TTCCATGTCT
*
9880815 CAAGTATATAAATCCTTCCGATCCCTCTTACTCCTACTTTTAGATTTTTTTTTATCAGGAAAACA
1 CAAGTATATAAATACTTCCGATCCCTCTTACTCCTACTTTTAGATTTTTTTTTATCAGGAAAACA
9880880 ATATATATAAAAGCATAAGTTTAAAAAAAACATTTGAATAAATTAAATGATAGGTTTGAAGGAAA
66 ATATATATAAAAGCATAAGTTTAAAAAAAACATTTGAATAAATTAAATGATAGGTTTGAAGGAAA
9880945 AAATTATGTCGTTCTGAAACACTTTCGTCTACTTTTTGGCA
131 AAATTATGTCGTTCTGAAACACTTTCGTCTACTTTTTGGCA
*
9880986 CAAGTATATAAATACTTCCGATCTCTCTTACTCCTACTTTTAGA-TTTTTTTTATCAGGAAAACA
1 CAAGTATATAAATACTTCCGATCCCTCTTACTCCTACTTTTAGATTTTTTTTTATCAGGAAAACA
9881050 ATATATATAAAAGCATAAGTTT-AAAAAAACATTTGAATAAATTAAATGATAGGTTTGAAGGAAA
66 ATATATATAAAAGCATAAGTTTAAAAAAAACATTTGAATAAATTAAATGATAGGTTTGAAGGAAA
*
9881114 AAATTATGTCGTTCTGACACACTTTCGTCTACTTTTTGGCA
131 AAATTATGTCGTTCTGAAACACTTTCGTCTACTTTTTGGCA
9881155 CA
1 CA
9881157 CTTTTTTGCA
Statistics
Matches: 168, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
169 84 0.50
170 42 0.25
171 42 0.25
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (171 bp):
CAAGTATATAAATACTTCCGATCCCTCTTACTCCTACTTTTAGATTTTTTTTTATCAGGAAAACA
ATATATATAAAAGCATAAGTTTAAAAAAAACATTTGAATAAATTAAATGATAGGTTTGAAGGAAA
AAATTATGTCGTTCTGAAACACTTTCGTCTACTTTTTGGCA
Found at i:9881563 original size:13 final size:13
Alignment explanation
Indices: 9881529--9881557 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9881519 ACTTCCCAAA
9881529 GAAAATGGATGCC
1 GAAAATGGATGCC
9881542 GAAAATGGATGCC
1 GAAAATGGATGCC
9881555 GAA
1 GAA
9881558 TTTGGAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.31, T:0.14
Consensus pattern (13 bp):
GAAAATGGATGCC
Found at i:9882606 original size:49 final size:50
Alignment explanation
Indices: 9882481--9882628 Score: 156
Period size: 49 Copynumber: 3.0 Consensus size: 50
9882471 ACTGAGGAAA
* *
9882481 AATA-AAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGAAAACCCGGTAC
1 AATAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGAAAACCCGGTAC
** * * * * * ** *
9882530 CTTAGAAGACATGATGGGAATGATTGAGGCCGTAACGGTGAATCCGGTAC
1 AATAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGAAAACCCGGTAC
* *
9882580 AAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCAGTAC
1 AATAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGAAAACCCGGTAC
9882629 CTTAGAAAGA
Statistics
Matches: 75, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
49 39 0.52
50 36 0.48
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (50 bp):
AATAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGAAAACCCGGTAC
Found at i:9882841 original size:41 final size:40
Alignment explanation
Indices: 9882794--9883055 Score: 308
Period size: 41 Copynumber: 6.3 Consensus size: 40
9882784 ATCCAACTTT
*
9882794 TAATCAAGAGGGACAGATTGAAGATTTCAATCTTTTACCCC
1 TAATCAAGAGGG-CAGATTGAAGATTCCAATCTTTTACCCC
* *
9882835 TAATCAAGAGGGGCAGATTTAAGATTCCAATCTTTTACCCT
1 TAATCAAGA-GGGCAGATTGAAGATTCCAATCTTTTACCCC
*
9882876 TAATTAAGAAGGGCAGATTGAAGATTCCAATCTTTTACCCC
1 TAATCAAG-AGGGCAGATTGAAGATTCCAATCTTTTACCCC
* *
9882917 TAATCAAGAAGGGCAAATTGAAGATTCCAATCTTTTACCCT
1 TAATCAAG-AGGGCAGATTGAAGATTCCAATCTTTTACCCC
* * * *
9882958 TAATCAATAAGGGTAGATTGAAGATTCTAGTCTTTTACCCC
1 TAATCAA-GAGGGCAGATTGAAGATTCCAATCTTTTACCCC
***
9882999 TAAATCAAGAGGAGCAGATTGAAGACCATTTTGATCTTTTACCCC
1 T-AATCAAGAGG-GCAGATTGAAG---ATTCCAATCTTTTACCCC
*
9883044 TAATCGAGAGGG
1 TAATCAAGAGGG
9883056 GCAAATCCAA
Statistics
Matches: 192, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
41 146 0.76
42 20 0.10
43 1 0.01
44 9 0.05
45 16 0.08
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (40 bp):
TAATCAAGAGGGCAGATTGAAGATTCCAATCTTTTACCCC
Found at i:9882900 original size:82 final size:82
Alignment explanation
Indices: 9882793--9883023 Score: 340
Period size: 82 Copynumber: 2.8 Consensus size: 82
9882783 CATCCAACTT
*
9882793 TTAATCAAG-AGGGACAGATTGAAGATTTCAATCTTTTACCCCTAATCAAGAGGGGCAGATTTAA
1 TTAATCAAGAAGGG-CAGATTGAAGATTTCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAA
9882857 GATTCCAATCTTTTACCC
65 GATTCCAATCTTTTACCC
* * * *
9882875 TTAATTAAGAAGGGCAGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAG
1 TTAATCAAGAAGGGCAGATTGAAGATTTCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG
9882940 ATTCCAATCTTTTACCC
66 ATTCCAATCTTTTACCC
* * * *
9882957 TTAATCAATAAGGGTAGATTGAAGA-TTCTAGTCTTTTACCCCTAAATCAAGAGGAGCAGATTGA
1 TTAATCAAGAAGGGCAGATTGAAGATTTC-AATCTTTTACCCCT-AATCAAGAGGGGCAGATTGA
9883021 AGA
64 AGA
9883024 CCATTTTGAT
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
81 2 0.02
82 107 0.80
83 24 0.18
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (82 bp):
TTAATCAAGAAGGGCAGATTGAAGATTTCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG
ATTCCAATCTTTTACCC
Found at i:9882939 original size:123 final size:123
Alignment explanation
Indices: 9882653--9883061 Score: 395
Period size: 123 Copynumber: 3.2 Consensus size: 123
9882643 AGACACACCG
* * *
9882653 ATCTTTTACCCCTAAGTCAAGAAAGGCAGATTGAAGTCATTCCAATCTATTACCCCTAAGTCAAG
1 ATCTTTTACCCCTAA-TCAAGAAGGGCAAATTGAAG--ATTCCAATCTTTTACCCCTAA-TCAAG
* *
9882718 AGGGGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGAGAGGCAGATTGCAGCCAT
62 AGGGGCAGATTGAAG--AT--TCCAATCTTTTACCCTTAA-TCAAGAG-GGCAGATTGAAG-CAT
9882783 CATCCA
120 --TCCA
* *
9882789 A-C-TTT-----TAATCAAG-AGGGACAGATTGAAGATTTCAATCTTTTACCCCTAATCAAGAGG
1 ATCTTTTACCCCTAATCAAGAAGGG-CAAATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGG
* *
9882846 GGCAGATTTAAGATTCCAATCTTTTACCCTTAATTAAGAAGGGCAGATTGAAG-ATTCCA
65 GGCAGATTGAAGATTCCAATCTTTTACCCTTAATCAAG-AGGGCAGATTGAAGCATTCCA
* * *
9882905 ATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAGATTCCAATCTTTTACCCTTAATCAATAAGG
1 ATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGG
* * * * ***
9882970 GTAGATTGAAGATTCTAGTCTTTTACCCCTAAATCAAGAGGAGCAGATTGAAGACCATTTTG
66 GCAGATTGAAGATTCCAATCTTTTA-CCCTTAATCAAGAGG-GCAGATTGAAG--CATTCCA
* *
9883032 ATCTTTTACCCCTAATCGAGAGGGGCAAAT
1 ATCTTTTACCCCTAATCAAGAAGGGCAAAT
9883062 CCAAATTCGT
Statistics
Matches: 235, Mismatches: 23, Indels: 39
0.79 0.08 0.13
Matches are distributed among these distances:
116 5 0.02
117 1 0.00
118 5 0.02
120 15 0.06
121 20 0.09
123 69 0.29
124 25 0.11
125 19 0.08
126 19 0.08
127 34 0.14
128 15 0.06
129 3 0.01
134 3 0.01
135 1 0.00
136 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (123 bp):
ATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGG
GCAGATTGAAGATTCCAATCTTTTACCCTTAATCAAGAGGGCAGATTGAAGCATTCCA
Found at i:9907287 original size:14 final size:14
Alignment explanation
Indices: 9907270--9907321 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
9907260 AATTTTATAT
9907270 ATTATTTATATTAA
1 ATTATTTATATTAA
9907284 ATTATTTATATTAAA
1 ATTATTTATATT-AA
*
9907299 TATTATTTATCTTAA
1 -ATTATTTATATTAA
*
9907314 ATTGTTTA
1 ATTATTTA
9907322 AATATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 19 0.56
15 4 0.12
16 11 0.32
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATTTATATTAA
Found at i:9907305 original size:16 final size:16
Alignment explanation
Indices: 9907268--9907315 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
9907258 TAAATTTTAT
9907268 ATATTATTTATATT-A
1 ATATTATTTATATTAA
9907283 A-ATTATTTATATTAA
1 ATATTATTTATATTAA
*
9907298 ATATTATTTATCTTAA
1 ATATTATTTATATTAA
9907314 AT
1 AT
9907316 TGTTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.40
15 3 0.10
16 15 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTATTTATATTAA
Found at i:9907370 original size:24 final size:25
Alignment explanation
Indices: 9907342--9907388 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9907332 ATTATTACAT
* *
9907342 TTAATTTT-TAAATATTTTATATAA
1 TTAATTTTACAAATAATTTATATAA
9907366 TTAATTTTACAAATAATTTATAT
1 TTAATTTTACAAATAATTTATAT
9907389 TAAGTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAATTTTACAAATAATTTATATAA
Found at i:9907692 original size:21 final size:20
Alignment explanation
Indices: 9907668--9907706 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9907658 CTAAATCTCA
*
9907668 AGATTTAGGGTTTTAAGTTTT
1 AGATTTAAGG-TTTAAGTTTT
9907689 AGATTTAAGGTTTAAGTT
1 AGATTTAAGGTTTAAGTT
9907707 CAAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (20 bp):
AGATTTAAGGTTTAAGTTTT
Found at i:9907737 original size:14 final size:14
Alignment explanation
Indices: 9907679--9907739 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
9907669 GATTTAGGGT
9907679 TTTAA-GTTTTAGA
1 TTTAAGGTTTTAGA
*
9907692 TTTAAGGTTTAAG-
1 TTTAAGGTTTTAGA
* ** *
9907705 TTCAAAATTTTTGA
1 TTTAAGGTTTTAGA
9907719 TTTTAAGGTTTTAGA
1 -TTTAAGGTTTTAGA
9907734 TTTAAG
1 TTTAAG
9907740 ATTTAAGGGT
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
13 13 0.37
14 12 0.34
15 10 0.29
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (14 bp):
TTTAAGGTTTTAGA
Found at i:9909061 original size:8 final size:8
Alignment explanation
Indices: 9909048--9909075 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9909038 TAAATATAAT
9909048 TTTTTATA
1 TTTTTATA
9909056 TTTTTATA
1 TTTTTATA
9909064 TTTTTATA
1 TTTTTATA
9909072 TTTT
1 TTTT
9909076 GGGTTGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:9909166 original size:11 final size:11
Alignment explanation
Indices: 9909150--9909178 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9909140 ATTAGTGATT
9909150 TAATATAAATA
1 TAATATAAATA
9909161 TAATATAAATA
1 TAATATAAATA
9909172 T-ATATAA
1 TAATATAA
9909179 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATAAATA
Found at i:9913354 original size:14 final size:14
Alignment explanation
Indices: 9913325--9913359 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9913315 AATGATACTT
9913325 TGAAACATCAAAAGG
1 TGAAA-ATCAAAAGG
*
9913340 TGAAAATCGAAAGG
1 TGAAAATCAAAAGG
9913354 TGAAAA
1 TGAAAA
9913360 GAAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.54, C:0.09, G:0.23, T:0.14
Consensus pattern (14 bp):
TGAAAATCAAAAGG
Found at i:9918657 original size:14 final size:14
Alignment explanation
Indices: 9918628--9918662 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9918618 AATGATACTT
9918628 TGAAACATCAAAAGG
1 TGAAA-ATCAAAAGG
*
9918643 TGAAAATCGAAAGG
1 TGAAAATCAAAAGG
9918657 TGAAAA
1 TGAAAA
9918663 GAAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.54, C:0.09, G:0.23, T:0.14
Consensus pattern (14 bp):
TGAAAATCAAAAGG
Found at i:9920940 original size:98 final size:98
Alignment explanation
Indices: 9920881--9921535 Score: 900
Period size: 98 Copynumber: 6.7 Consensus size: 98
9920871 CTTTTTACGT
* * * * * * *
9920881 TTCTGAGGTACAAGGTTTGCCGTTGCGACTTAAACATTTCCCTTCATTTCTTTGTGGTACTGGAT
1 TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
* *
9920946 TTGCCGTTACGGCTTAAATCTTTCCCTTCATGT
66 TCGCCGTTACGGCTTAAATCTTTCCCTTCATGC
* * * * *
9920979 TTCTAAGGTATAAGGTTCGTCGTTGCGACTTAAACATTTCCCTCCATATCCTCGTGGTACTGGAT
1 TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
9921044 TCGCCGTTACGGCTTAAATCTTTCCCTTCATG-
66 TCGCCGTTACGGCTTAAATCTTTCCCTTCATGC
* ** * *
9921076 TTCCTGAGGTATAAGGTTCGCTGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTTGA
1 TT-CTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGA
9921141 TTCGCCGTTACGGCTTAAATCTTTCCCTTCATGC
65 TTCGCCGTTACGGCTTAAATCTTTCCCTTCATGC
9921175 TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
1 TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
* *
9921240 TCACCGTTGCGGCTTAAATCTTTCCCTTCATGC
66 TCGCCGTTACGGCTTAAATCTTTCCCTTCATGC
* *
9921273 TTCTGAGGTATAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTAGAT
1 TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
* *
9921338 TCGCCGTTTGCGGCTTAAATCTTTCCTTTCATGC
66 TCGCCG-TTACGGCTTAAATCTTTCCCTTCATGC
* *
9921372 TTCTGAGGTACAAGGTTCGCCATTACGACTTAAACCTTTCCCT-CATATCCTTGTGGTACTGGAT
1 TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
* * * * * *
9921436 TTGCCATTGCGGTTTAAATCTATCCCTTCATGT
66 TCGCCGTTACGGCTTAAATCTTTCCCTTCATGC
* * * * * * * * *
9921469 TTTTGAGGTATAAGGTTCACCGTTGCAACTTAAACCTTTCCTTCCAGATCTTCGTGGTACTAGAT
1 TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
9921534 TC
66 TC
9921536 TTGTAAAATA
Statistics
Matches: 505, Mismatches: 48, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
97 61 0.12
98 375 0.74
99 69 0.14
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (98 bp):
TTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGAT
TCGCCGTTACGGCTTAAATCTTTCCCTTCATGC
Found at i:9920950 original size:49 final size:48
Alignment explanation
Indices: 9920899--9921535 Score: 320
Period size: 49 Copynumber: 13.0 Consensus size: 48
9920889 TACAAGGTTT
*
9920899 GCCGTTGCGACTTAAACATTTCCCTTCATTTCTTTGTGGTACTGGATTT
1 GCCGTTGCGACTTAAAC-TTTCCCTTCATTTCTTTGTGGTACTGGATTC
* * * **
9920948 GCCGTTACGGCTTAAATCTTTCCCTTCATGTT-TCTAAGGTA-TAAGG-TTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCAT-TTCTTTGTGGTACT--GGATTC
* * * * *
9920997 GTCGTTGCGACTTAAACATTTCCCTCCATATCCTCGTGGTACTGGATTC
1 GCCGTTGCGACTTAAAC-TTTCCCTTCATTTCTTTGTGGTACTGGATTC
* * * *
9921046 GCCGTTACGGCTTAAATCTTTCCCTTCATGTTC-CTGAGGTA-TAAGG-TTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCAT-TTCTTTGTGGTACT--GGATTC
* * * * *
9921095 GCTGTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTTGATTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCATTTCTTTGTGGTACTGGATTC
* * * * *
9921144 GCCGTTACGGCTTAAATCTTTCCCTTCA-TGCTTCTGAGGTACAAGG-TTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCATTTCTT-TGTGGTAC-TGGATTC
* * * * *
9921193 GCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTGGATTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCATTTCTTTGTGGTACTGGATTC
* * * *
9921242 ACCGTTGCGGCTTAAATCTTTCCCTTCA-TGCTTCTGAGGTA-TAAGG-TTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCATTTCTT-TGTGGTACT--GGATTC
* * * * * *
9921291 GCCATTGCGACTTAAACCTTTCCCTCCATATCCTCGTGGTACTAGATTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCATTTCTTTGTGGTACTGGATTC
* * * * *
9921340 GCCGTTTGCGGCTTAAATCTTTCCTTTCA-TGCTTCTGAGGTACAAGG-TTC
1 GCCG-TTGCGACTTAAA-CTTTCCCTTCATTTCTT-TGTGGTAC-TGGATTC
* * * * *
9921390 GCCATTACGACTTAAACCTTTCCC-TCATATCCTTGTGGTACTGGATTT
1 GCCGTTGCGACTTAAA-CTTTCCCTTCATTTCTTTGTGGTACTGGATTC
* ** * *
9921438 GCCATTGCGGTTTAAATCTATCCCTTCATGTT-TTTGAGGTA-TAAGG-TTC
1 GCCGTTGCGACTTAAA-CTTTCCCTTCAT-TTCTTTGTGGTACT--GGATTC
* * ** * *
9921487 ACCGTTGCAACTTAAACCTTT-CCTTCCAGATCTTCGTGGTACTAGATTC
1 GCCGTTGCGACTTAAA-CTTTCCCTT-CATTTCTTTGTGGTACTGGATTC
9921536 TTGTAAAATA
Statistics
Matches: 429, Mismatches: 121, Indels: 76
0.69 0.19 0.12
Matches are distributed among these distances:
47 2 0.00
48 56 0.13
49 314 0.73
50 56 0.13
51 1 0.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (48 bp):
GCCGTTGCGACTTAAACTTTCCCTTCATTTCTTTGTGGTACTGGATTC
Found at i:9922612 original size:14 final size:14
Alignment explanation
Indices: 9922593--9922620 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9922583 TCGACCTCTC
9922593 CTTTTTCTTTTTTT
1 CTTTTTCTTTTTTT
9922607 CTTTTTCTTTTTTT
1 CTTTTTCTTTTTTT
9922621 TGGGGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
CTTTTTCTTTTTTT
Found at i:9923542 original size:61 final size:62
Alignment explanation
Indices: 9923441--9923562 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 62
9923431 TAGATTTCTC
* *
9923441 AAGATGCCCTTTACGGGTTTTCATCTTGACTTTCTTTTTC-TT-TTTTCTTCTTTTCTTTTAA
1 AAGATGCCCTTTACGAGTTTTCATCTTGACTTTCTCTTTCTTTCTTTTCTTCTTTT-TTTTAA
*
9923502 AAGATGCCCTTTGCGAGTTTTCATCTTGACCTTT-TCTTTCTTTCTTTTCTTCTTTTTTTTA
1 AAGATGCCCTTTACGAGTTTTCATCTTGA-CTTTCTCTTTCTTTCTTTTCTTCTTTTTTTTA
9923563 TCTCCTCTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 32 0.58
62 11 0.20
63 12 0.22
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.57
Consensus pattern (62 bp):
AAGATGCCCTTTACGAGTTTTCATCTTGACTTTCTCTTTCTTTCTTTTCTTCTTTTTTTTAA
Found at i:9927815 original size:14 final size:14
Alignment explanation
Indices: 9927786--9927820 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9927776 AATGATACTT
9927786 TGAAACATCAAAAGG
1 TGAAA-ATCAAAAGG
*
9927801 TGAAAATCGAAAGG
1 TGAAAATCAAAAGG
9927815 TGAAAA
1 TGAAAA
9927821 GAAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.54, C:0.09, G:0.23, T:0.14
Consensus pattern (14 bp):
TGAAAATCAAAAGG
Found at i:9930315 original size:17 final size:17
Alignment explanation
Indices: 9930262--9930316 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
9930252 ACTAAGTTAG
*
9930262 AAAGATGAATGCAATGACA
1 AAAGAAGAATGCAA-GA-A
9930281 AAAGAA-AATGC-AGTAA
1 AAAGAAGAATGCAAG-AA
*
9930297 AAATAAGAATGCAAGAA
1 AAAGAAGAATGCAAGAA
9930314 AAA
1 AAA
9930317 CTATCTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 7 0.23
17 12 0.39
18 7 0.23
19 5 0.16
ACGTcount: A:0.62, C:0.07, G:0.18, T:0.13
Consensus pattern (17 bp):
AAAGAAGAATGCAAGAA
Found at i:9930787 original size:15 final size:16
Alignment explanation
Indices: 9930759--9930800 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
9930749 ATTTTATTCT
*
9930759 CTTCTTCTTTTTCTTC
1 CTTCTTCTTCTTCTTC
9930775 CTTC-TCTTCTTCTTC
1 CTTCTTCTTCTTCTTC
9930790 CTTCTTCTTCT
1 CTTCTTCTTCT
9930801 GCTGGTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTCTTCTTCTTCTTC
Found at i:9930799 original size:21 final size:21
Alignment explanation
Indices: 9930755--9930800 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9930745 CTTCATTTTA
*
9930755 TTCTCTTCTTCTTTTTCTTCC
1 TTCTCTTCTTCTTCTTCTTCC
9930776 TTCTCTTCTTCTTCCTTCTT-C
1 TTCTCTTCTTCTT-CTTCTTCC
9930797 TTCT
1 TTCT
9930801 GCTGGTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCTCTTCTTCTTCTTCTTCC
Found at i:9930815 original size:3 final size:3
Alignment explanation
Indices: 9930758--9930800 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
9930748 CATTTTATTC
*
9930758 TCT TCT TCT TTT TCT TCCT TC- TCT TCT TCT TCCT TCT TCT TCT
1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT T-CT TCT TCT TCT
9930801 GCTGGTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:9936696 original size:86 final size:86
Alignment explanation
Indices: 9936551--9936728 Score: 356
Period size: 86 Copynumber: 2.1 Consensus size: 86
9936541 GTTATGCTTG
9936551 GCTTCCTTCAGCTACATCCTTTACTTGTTGCTATGGTTCAGATGCGTCGACATGATCCTGATTAG
1 GCTTCCTTCAGCTACATCCTTTACTTGTTGCTATGGTTCAGATGCGTCGACATGATCCTGATTAG
9936616 AACTGCTTGGTTCAGTCGTCT
66 AACTGCTTGGTTCAGTCGTCT
9936637 GCTTCCTTCAGCTACATCCTTTACTTGTTGCTATGGTTCAGATGCGTCGACATGATCCTGATTAG
1 GCTTCCTTCAGCTACATCCTTTACTTGTTGCTATGGTTCAGATGCGTCGACATGATCCTGATTAG
9936702 AACTGCTTGGTTCAGTCGTCT
66 AACTGCTTGGTTCAGTCGTCT
9936723 GCTTCC
1 GCTTCC
9936729 CACTCCTCAG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 92 1.00
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (86 bp):
GCTTCCTTCAGCTACATCCTTTACTTGTTGCTATGGTTCAGATGCGTCGACATGATCCTGATTAG
AACTGCTTGGTTCAGTCGTCT
Found at i:9939481 original size:23 final size:24
Alignment explanation
Indices: 9939445--9939495 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
9939435 AAATGAGTCA
9939445 AATGCTCCTAACTAGATGGGTATG
1 AATGCTCCTAACTAGATGGGTATG
9939469 AATGCT-CTAACTAGATGGGTATG
1 AATGCTCCTAACTAGATGGGTATG
9939492 AATG
1 AATG
9939496 ATGAATGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (24 bp):
AATGCTCCTAACTAGATGGGTATG
Found at i:9941104 original size:3 final size:3
Alignment explanation
Indices: 9941096--9941128 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
9941086 ATATTGAGGT
9941096 AGA AGA AGA AGA AGA A-A AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
9941129 AGGGATGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9941117 original size:14 final size:14
Alignment explanation
Indices: 9941098--9941125 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9941088 ATTGAGGTAG
9941098 AAGAAGAAGAAGAA
1 AAGAAGAAGAAGAA
9941112 AAGAAGAAGAAGAA
1 AAGAAGAAGAAGAA
9941126 GAAAGGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAGAAGAAGAAGAA
Found at i:9941118 original size:17 final size:17
Alignment explanation
Indices: 9941096--9941129 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9941086 ATATTGAGGT
9941096 AGAAGAAGAAGAAGAAA
1 AGAAGAAGAAGAAGAAA
9941113 AGAAGAAGAAGAAGAAA
1 AGAAGAAGAAGAAGAAA
9941130 GGGATGACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAAGAAGAAA
Found at i:9942833 original size:208 final size:209
Alignment explanation
Indices: 9942472--9943143 Score: 926
Period size: 209 Copynumber: 3.2 Consensus size: 209
9942462 CAGTGAAGTG
* * * *
9942472 GTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATG-AACCAAAGCTCAATGTAAGCC
1 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCG
* * * * *
9942536 AATCTTCAAACCCAAGTTTCCTGATAAGATATTGAGAAGCAGATCGAAGCAATAAAACGGTTACC
66 AATCTTCGAACCCAAGCTTCCTGATGAGATATTGAGAAGCAG-TCAAAGCAATAAAATGGTTACC
* * * *
9942601 TTCCTGATAAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAGACACAAAGAAGTGGATC
130 TTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATC
9942666 -AAACAAGTGATGCA
195 AAAACAAGTGATGCA
*
9942680 GTTATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCG
1 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCG
*
9942745 AATCTTCGAACCCTAGCTTCCTGATGAGATATTGAGAAGCAGTCAAAGCAATAAAATGGTTACCT
66 AATCTTCGAACCCAAGCTTCCTGATGAGATATTGAGAAGCAGTCAAAGCAATAAAATGGTTACCT
* * *
9942810 TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTAATGAGATACAGAGAAGTGAATCA
131 TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
9942875 AAACAAGTGATGCA
196 AAACAAGTGATGCA
* * ** *
9942889 GTCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATTGACGAAACCAAAGCTCGATGTGAGCG
1 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCG
* * * * * *
9942954 AATCTTCGAACCCCAGCTTCTTGATGAGATACTGAAAAGCAGGTCGAAA-TAATAAAGTGGTTAC
66 AATCTTCGAACCCAAGCTTCCTGATGAGATATTGAGAAGCA-GTC-AAAGCAATAAAATGGTTAC
* ** * *
9943018 CTTCCTAATGAGATACAGAGAAGTGAACTGGATCCGTCTTTCTGATGGGACACAGAGAAGT-GAT
129 CTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGAT
* * *
9943082 CAAAATAAGCGATGCG
194 CAAAACAAGTGATGCA
*
9943098 GTCATCTTCCTGATGATATACT---AAGTAGACCAAATCAATGAAACCA
1 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
9943144 GACATAAAGA
Statistics
Matches: 413, Mismatches: 47, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
206 20 0.05
208 119 0.29
209 201 0.49
210 70 0.17
211 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (209 bp):
GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCG
AATCTTCGAACCCAAGCTTCCTGATGAGATATTGAGAAGCAGTCAAAGCAATAAAATGGTTACCT
TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
AAACAAGTGATGCA
Found at i:9943492 original size:6 final size:6
Alignment explanation
Indices: 9943483--9943554 Score: 57
Period size: 6 Copynumber: 13.0 Consensus size: 6
9943473 CAATTTGTAT
* * * *
9943483 TTTAAA TTT-AT TTTAAG TTTAAA ATT-AT TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9943527 -TTAAA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
9943555 ATTTGAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
3 2 0.04
4 1 0.02
5 12 0.24
6 36 0.71
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:9943495 original size:17 final size:17
Alignment explanation
Indices: 9943483--9943554 Score: 112
Period size: 17 Copynumber: 4.4 Consensus size: 17
9943473 CAATTTGTAT
*
9943483 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
9943500 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
9943517 TTTAAATTTA--TTAAA
1 TTTAAATTTATTTTAAA
9943532 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
9943549 TTTAAA
1 TTTAAA
9943555 ATTTGAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
15 15 0.30
17 35 0.70
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:9943496 original size:11 final size:11
Alignment explanation
Indices: 9943480--9943552 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 11
9943470 ACCCAATTTG
9943480 TATTTTAAATT
1 TATTTTAAATT
*
9943491 TATTTTAAGTT
1 TATTTTAAATT
9943502 TA----AAA-T
1 TATTTTAAATT
9943508 TATTTTAAATT
1 TATTTTAAATT
*
9943519 TAAATTT--ATT
1 T-ATTTTAAATT
* *
9943529 AAATTTAAATT
1 TATTTTAAATT
9943540 TATTTTAAATT
1 TATTTTAAATT
9943551 TA
1 TA
9943553 AAATTTGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
6 3 0.06
7 2 0.04
9 5 0.10
10 6 0.12
11 28 0.58
12 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (11 bp):
TATTTTAAATT
Found at i:9945509 original size:30 final size:30
Alignment explanation
Indices: 9945468--9945710 Score: 180
Period size: 30 Copynumber: 8.2 Consensus size: 30
9945458 AAAATCATAT
*
9945468 TTTTGACCCCTAAACTTTCCAAAAATTACA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
*
9945498 TTTTAACCCCTAAACTTTCTAAAAATTACA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
*
9945528 TTTTTA-CCCTCAAAC-TT-CACAAAATTACA
1 TTTTAACCCCT-AAACTTTCCA-AAAATTACA
** * *
9945557 TTTTTGCCCCTGAAC-TTCATAAAAATTACA
1 TTTTAACCCCTAAACTTTC-CAAAAATTACA
** * *
9945587 TTTTTGCCCCTAAAC-TACGCAAACATTACA
1 TTTTAACCCCTAAACTTTC-CAAAAATTACA
* *
9945617 TTTTGA-CCCTGAACTTTCCAAAAATTACCA
1 TTTTAACCCCTAAACTTTCCAAAAATTA-CA
* ** *
9945647 TTTT-ACCCTTAAA-TTTCTGAAAATTCCA
1 TTTTAACCCCTAAACTTTCCAAAAATTACA
* * *
9945675 TTTTTAACCTC-GAACTTTCTAAAAATTACCA
1 -TTTTAACCCCTAAACTTTCCAAAAATTA-CA
9945706 TTTTA
1 TTTTA
9945711 CCATCGAATT
Statistics
Matches: 174, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
28 3 0.02
29 57 0.33
30 111 0.64
31 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (30 bp):
TTTTAACCCCTAAACTTTCCAAAAATTACA
Found at i:9945567 original size:59 final size:59
Alignment explanation
Indices: 9945447--9945771 Score: 253
Period size: 59 Copynumber: 5.5 Consensus size: 59
9945437 AAAAGGTTCT
* * * *
9945447 TGAACTATCTAAAAATCATATTTTTGACCC-CTAAACTTTC-CAAAAATTACA-TTTTAACCCC
1 TGAACTTTCTAAAAATTACATTTTT-ACCCTC-AAAC-TTCAC-AAAATTACATTTTTGA-CCC
* *
9945508 TAAACTTTCTAAAAATTACATTTTTACCCTCAAACTTCACAAAATTACATTTTTGCCCC
1 TGAACTTTCTAAAAATTACATTTTTACCCTCAAACTTCACAAAATTACATTTTTGACCC
* * *
9945567 TGAAC-TTCATAAAAATTACATTTTTGCCC-CTAAACTACGCAAACATTACA-TTTTGACCC
1 TGAACTTTC-TAAAAATTACATTTTTACCCTC-AAACTTCACAAA-ATTACATTTTTGACCC
* * * ** * *
9945626 TGAACTTTCCAAAAATTACCA-TTTTACCCTTAAATTTCTGAAAATTCCATTTTT-AACC
1 TGAACTTTCTAAAAATTA-CATTTTTACCCTCAAACTTCACAAAATTACATTTTTGACCC
* * *
9945684 TCGAACTTTCTAAAAATTACCA-TTTTACCATCGAA-TT-ACCAAAAATTCCATTTTTGA-CC
1 T-GAACTTTCTAAAAATTA-CATTTTTACCCTCAAACTTCA-C-AAAATTACATTTTTGACCC
* *
9945743 TGAATTTTC-AAAAATTTCATTTTTACCCT
1 TGAACTTTCTAAAAATTACATTTTTACCCT
9945772 TAAGTTTCCA
Statistics
Matches: 220, Mismatches: 29, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
56 2 0.01
57 15 0.07
58 22 0.10
59 134 0.61
60 25 0.11
61 22 0.10
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (59 bp):
TGAACTTTCTAAAAATTACATTTTTACCCTCAAACTTCACAAAATTACATTTTTGACCC
Found at i:9945718 original size:30 final size:30
Alignment explanation
Indices: 9945475--9945788 Score: 151
Period size: 30 Copynumber: 10.7 Consensus size: 30
9945465 TATTTTTGAC
*
9945475 CCCTAAACTTTCCAAAAATTA-CATTTTAA
1 CCCTGAACTTTCCAAAAATTACCATTTTAA
* * *
9945504 CCCCTAAACTTTCTAAAAATTA-CATTTTTA
1 -CCCTGAACTTTCCAAAAATTACCATTTTAA
* **
9945534 CCCTCAAAC-TT-CACAAAATTA-CATTTTTGC
1 CCCT-GAACTTTCCA-AAAATTACCA-TTTTAA
* **
9945564 CCCTGAAC-TTCATAAAAATTA-CATTTTTGC
1 CCCTGAACTTTC-CAAAAATTACCA-TTTTAA
* * * *
9945594 CCCTAAAC-TACGCAAACATTA-CATTTTGA
1 CCCTGAACTTTC-CAAAAATTACCATTTTAA
9945623 CCCTGAACTTTCCAAAAATTACCATTTT-A
1 CCCTGAACTTTCCAAAAATTACCATTTTAA
* * **
9945652 CCCTTAAATTTCTGAAAATT-CCATTTTTAA
1 CCCTGAACTTTCCAAAAATTACCA-TTTTAA
*
9945682 -CCTCGAACTTTCTAAAAATTACCATTTT-A
1 CCCT-GAACTTTCCAAAAATTACCATTTTAA
* * *
9945711 CCATCGAA-TTACCAAAAATT-CCATTTTTGA
1 CCCT-GAACTTTCCAAAAATTACCA-TTTTAA
* * *
9945741 -CCTGAA-TTTTCAAAAATT-TCATTTTTA
1 CCCTGAACTTTCCAAAAATTACCATTTTAA
* * *
9945768 CCCTTAAGTTTCCATAAATTA
1 CCCTGAACTTTCCAAAAATTA
9945789 TCGTTTTACC
Statistics
Matches: 233, Mismatches: 34, Indels: 34
0.77 0.11 0.11
Matches are distributed among these distances:
27 5 0.02
28 27 0.12
29 91 0.39
30 106 0.45
31 4 0.02
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (30 bp):
CCCTGAACTTTCCAAAAATTACCATTTTAA
Found at i:9945747 original size:28 final size:28
Alignment explanation
Indices: 9945631--9945769 Score: 122
Period size: 29 Copynumber: 4.8 Consensus size: 28
9945621 GACCCTGAAC
**
9945631 TTTCCAAAAATTACCA-TTTTACCCTTAAA
1 TTTCCAAAAATT-CCATTTTTA-CCTCGAA
**
9945660 TTTCTGAAAATTCCATTTTTAACCTCGAA
1 TTTCCAAAAATTCCATTTTT-ACCTCGAA
*
9945689 CTTTCTAAAAATTACCA-TTTTACCATCGAA
1 -TTTCCAAAAATT-CCATTTTTACC-TCGAA
*
9945719 TTACCAAAAATTCCATTTTTGACCT-GAA
1 TTTCCAAAAATTCCATTTTT-ACCTCGAA
* *
9945747 TTTTCAAAAATTTCATTTTTACC
1 TTTCCAAAAATTCCATTTTTACC
9945770 CTTAAGTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
27 3 0.03
28 26 0.28
29 37 0.40
30 24 0.26
31 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (28 bp):
TTTCCAAAAATTCCATTTTTACCTCGAA
Found at i:9945779 original size:28 final size:28
Alignment explanation
Indices: 9945617--9945779 Score: 86
Period size: 29 Copynumber: 5.6 Consensus size: 28
9945607 AAACATTACA
*
9945617 TTTTGACCCTGAACTTTCCAAAAATTACCA-
1 TTTTGA-CCTGAAGTTT-CAAAAATT-CCAT
* * *
9945647 TTTT-ACCCTTAAATTTCTGAAAATTCCAT
1 TTTTGA-CCTGAAGTTTC-AAAAATTCCAT
* *
9945676 TTTTAACCTCGAACTTTCTAAAAATTACCA-
1 TTTTGACCT-GAAGTTTC-AAAAATT-CCAT
*
9945706 TTTT-ACCATCGAA-TTACCAAAAATTCCAT
1 TTTTGACC-T-GAAGTT-TCAAAAATTCCAT
* *
9945735 TTTTGACCTGAATTTTCAAAAATTTCAT
1 TTTTGACCTGAAGTTTCAAAAATTCCAT
*
9945763 TTTT-ACCCTTAAGTTTC
1 TTTTGA-CCTGAAGTTTC
9945780 CATAAATTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
27 1 0.01
28 34 0.31
29 42 0.38
30 31 0.28
31 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (28 bp):
TTTTGACCTGAAGTTTCAAAAATTCCAT
Found at i:9950152 original size:33 final size:32
Alignment explanation
Indices: 9950064--9950163 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 32
9950054 AGTCGAACAA
* * *
9950064 AATGATGAAGCTGCCCTTAGAGATGCTCCAATT
1 AATGATGAAGCTG-CCTTATAGATGTTCCAATC
* ** *
9950097 AATGATGAAGTTGCCGCGATAGATGTTCTAATC
1 AATGATGAAGCTGCC-TTATAGATGTTCCAATC
* *
9950130 ATTGATGAAGCTGCCTTAATAGATGTTTCAATC
1 AATGATGAAGCTGCCTT-ATAGATGTTCCAATC
9950163 A
1 A
9950164 CTTATGTTGA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
32 2 0.04
33 50 0.96
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (32 bp):
AATGATGAAGCTGCCTTATAGATGTTCCAATC
Found at i:9952899 original size:14 final size:14
Alignment explanation
Indices: 9952880--9952908 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9952870 GTCCCATGCA
9952880 AATGCAAAATAGAT
1 AATGCAAAATAGAT
9952894 AATGCAAAATAGAT
1 AATGCAAAATAGAT
9952908 A
1 A
9952909 CCTGTTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
AATGCAAAATAGAT
Found at i:9953171 original size:29 final size:29
Alignment explanation
Indices: 9953118--9953176 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
9953108 ACACACGGCC
*
9953118 TGACACACGGCCATGTACTCACCCGTGTG
1 TGACACACGGCCATGTACACACCCGTGTG
*
9953147 TGACACACGGCCA-GTCACACGCCCGTGTG
1 TGACACACGGCCATGT-ACACACCCGTGTG
9953176 T
1 T
9953177 CTAGCCCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (29 bp):
TGACACACGGCCATGTACACACCCGTGTG
Found at i:9969987 original size:7 final size:7
Alignment explanation
Indices: 9969975--9970002 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9969965 ACTAAGAACA
9969975 AAAATCT
1 AAAATCT
9969982 AAAATCT
1 AAAATCT
9969989 AAAATCT
1 AAAATCT
9969996 AAAATCT
1 AAAATCT
9970003 GAATTGAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATCT
Found at i:9970944 original size:9 final size:9
Alignment explanation
Indices: 9970930--9970978 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
9970920 GAACTAAAGG
9970930 TTGAGAGAA
1 TTGAGAGAA
9970939 TTGAGAGAA
1 TTGAGAGAA
*
9970948 TTGA-TGAA
1 TTGAGAGAA
9970956 TTGAGAGAA
1 TTGAGAGAA
9970965 TT-AGGAGAA
1 TTGA-GAGAA
9970974 -TGAGA
1 TTGAGA
9970979 TTTGAACACA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
8 11 0.31
9 24 0.69
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:9970978 original size:17 final size:16
Alignment explanation
Indices: 9970934--9970966 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
9970924 TAAAGGTTGA
9970934 GAGAATTGAGAGAATT
1 GAGAATTGAGAGAATT
9970950 GATGAATTGAGAGAATT
1 GA-GAATTGAGAGAATT
9970967 AGGAGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (16 bp):
GAGAATTGAGAGAATT
Found at i:9981087 original size:13 final size:13
Alignment explanation
Indices: 9981069--9981095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9981059 TTATTGTTTC
9981069 TAAGCAAAGATTG
1 TAAGCAAAGATTG
9981082 TAAGCAAAGATTG
1 TAAGCAAAGATTG
9981095 T
1 T
9981096 TTTAGTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TAAGCAAAGATTG
Found at i:9981554 original size:22 final size:22
Alignment explanation
Indices: 9981506--9981554 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9981496 CATTTAACAA
9981506 TAAATTAAAATTTTTAATAATT
1 TAAATTAAAATTTTTAATAATT
*
9981528 T-AATTAACATATTTT-ATAATT
1 TAAATTAAAAT-TTTTAATAATT
9981549 TAAATT
1 TAAATT
9981555 TGATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAATTAAAATTTTTAATAATT
Found at i:9982881 original size:29 final size:31
Alignment explanation
Indices: 9982821--9982888 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 31
9982811 ATTTTAAGTA
* * *
9982821 TACATTTGAACCACAATTAGAGTTTCACGTG
1 TACAATTGCACCACAATTAAAGTTTCACGTG
* *
9982852 TATAATTGCACCA-AATTAAAG-TTCATGTG
1 TACAATTGCACCACAATTAAAGTTTCACGTG
9982881 TACAATTG
1 TACAATTG
9982889 TACATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 14 0.45
30 7 0.23
31 10 0.32
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (31 bp):
TACAATTGCACCACAATTAAAGTTTCACGTG
Found at i:9983121 original size:29 final size:30
Alignment explanation
Indices: 9983073--9983129 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
9983063 GAATTTGGTC
*
9983073 AAATAAAAATTTCATTTATAAAATTGCATA
1 AAATAAAAATTTCATATATAAAATTGCATA
* *
9983103 AAATTAAAA-TTCATATATACAATTGCA
1 AAATAAAAATTTCATATATAAAATTGCA
9983130 CATTAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (30 bp):
AAATAAAAATTTCATATATAAAATTGCATA
Found at i:9983660 original size:17 final size:17
Alignment explanation
Indices: 9983630--9983663 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9983620 GCAAATGCCT
9983630 CTAAAATAATAACAAAA
1 CTAAAATAATAACAAAA
9983647 CTAATAATAA-AACAAAA
1 CTAA-AATAATAACAAAA
9983664 GTTATACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (17 bp):
CTAAAATAATAACAAAA
Found at i:9984354 original size:18 final size:19
Alignment explanation
Indices: 9984320--9984356 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9984310 AATAATTTTC
9984320 AAAATTCCAAATATTTATA
1 AAAATTCCAAATATTTATA
9984339 AAAATTCCAAAT-TTTATA
1 AAAATTCCAAATATTTATA
9984357 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCCAAATATTTATA
Found at i:9984373 original size:9 final size:9
Alignment explanation
Indices: 9984359--9984407 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
9984349 ATTTTATATT
9984359 TTTAAAAAA
1 TTTAAAAAA
9984368 TTTAAAAAA
1 TTTAAAAAA
9984377 TTTTAAAAATA
1 -TTTAAAAA-A
*
9984388 TATAAAGAAA
1 TTTAAA-AAA
*
9984398 GTTAAAAAA
1 TTTAAAAAA
9984407 T
1 T
9984408 AAAAAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 12 0.36
10 18 0.55
11 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:9988036 original size:4 final size:4
Alignment explanation
Indices: 9988027--9988058 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
9988017 TTTTGGTTTG
9988027 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
9988059 AATAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:9988175 original size:61 final size:57
Alignment explanation
Indices: 9988035--9988210 Score: 198
Period size: 61 Copynumber: 3.0 Consensus size: 57
9988025 TGTTATTTAT
* *
9988035 TTATTTATTTATTTATTTATTT-ATAATAATAAATAAATAAAAAA-CAAAAT--TAATA
1 TTATTT-TATATTTATTTATTTCATAA-AATAAATAAATAAAAAATAAAAATAATAATA
*
9988090 TTATTTTACATTTATTTATATTCATAAAATAAATAAATAATAAAATAAAAATAAATAAATA
1 TTATTTTATATTTATTTAT-TTCATAAAATAAATAAATAA-AAAATAAAAAT-AAT-AATA
9988151 TTATTTTATATTTATTTATGTTCATAAAAATAATAATAAATAAATAAATAAAAATAATAA
1 TTATTTTATATTTATTTAT-TTCAT-AAAAT-A-AATAAATAAA-AAATAAAAATAATAA
9988211 GAAAAATGGA
Statistics
Matches: 104, Mismatches: 5, Indels: 17
0.83 0.04 0.13
Matches are distributed among these distances:
54 11 0.11
55 21 0.20
56 8 0.08
57 5 0.05
60 1 0.01
61 27 0.26
62 7 0.07
63 5 0.05
64 19 0.18
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (57 bp):
TTATTTTATATTTATTTATTTCATAAAATAAATAAATAAAAAATAAAAATAATAATA
Found at i:9988217 original size:18 final size:18
Alignment explanation
Indices: 9988176--9988217 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9988166 TTATGTTCAT
*
9988176 AAAAATAATAATAAATAA
1 AAAAATAAAAATAAATAA
*
9988194 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
9988211 GAAAAAT
1 -AAAAAT
9988218 GGAATTGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:9989074 original size:159 final size:160
Alignment explanation
Indices: 9988730--9990098 Score: 2181
Period size: 159 Copynumber: 8.6 Consensus size: 160
9988720 CTCTATAACT
* * * * *
9988730 TTAGGGTAAAAGATTAGATTGT-TTCAA-CTTGCCCCATGGTCGAGGTAAGAGATCTGATGGTCT
1 TTAGGGTAAAAGATTGGATT-TCTTCAATC-TGCCCCATGATCGGGGTAAAAGATCGGATGGTCT
*
9988793 TCAATC-TGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAA
64 TCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAA
* *
9988857 AAGATCAGATGGTCTTCAATCTTGCCCCTCTAG
129 AAGATCGGATGGTCTTCAATCTTG-CCCTCTGG
* * * *
9988890 TTAGGGTAAAAGATTGGAGTACTTCAATCTGCCCCATGATCAGGGTAAAAGATCGGATGGTTTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
* *
9988955 AATCTTGCCCTCTGGTT-GGGTAAAAGATTAGA-TTCTTCAATCTGCCCCATGATCGGGGGTAGA
66 AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATC-GGGGTAAA
* *
9989018 AGATCAGATGGTCTTCAATCTTGCCCTCTAG
130 AGATCGGATGGTCTTCAATCTTGCCCTCTGG
* *
9989049 TTAGGGTAAAAGATTGGATTTCTTCAATCTTCCCCATGATCAGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9989114 AATCTT-CCCTCTGGTTAGGGTTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAA
66 AATCTTGCCCTCTGGTTAGGG-TAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAA
9989178 AGATCGGATGGTCTTCAATCTTG-CCTCTGG
130 AGATCGGATGGTCTTCAATCTTGCCCTCTGG
9989208 TTAGGGTAAAAGATT-GATTTCTTCAAT-TGGCCCCATGATCCGGGGGT-AAAGATCGGATGGTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCT-GCCCCATGAT-C-GGGGTAAAAGATCGGATGGTC
* *
9989270 TTCAATCTT--CCTCTGGTTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGTAA
63 TTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGG--G
9989333 TAAAAGATCGGATGGTCTTCAATCTT-CCCTCTGG
126 TAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGG
9989367 TTAGGGTAAAAGATTGGATTTCTTCAAT-TG-CCCATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
*
9989430 AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCTATGATCGGGGTAAAA
66 AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAA
9989495 GATCGGATGGTCTTCAATCTTGCCCTCTGG
131 GATCGGATGGTCTTCAATCTTGCCCTCTGG
9989525 TTA-GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
* * *
9989589 AATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTTTTTAATCTGCCCCATGATCGCGGGTAAA
66 AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCG-GGGTAAA
9989654 AGATCGGATGGTCTTCAATCTTGCCCTCTGG
130 AGATCGGATGGTCTTCAATCTTGCCCTCTGG
9989685 TTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGGTAAAAGATCGGATGGTCT
1 -TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATC-GGGGTAAAAGATCGGATGGTCT
* *
9989750 TCAATCTTGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAG
64 TCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAA
9989815 AAGATCGAGATGGTCTTCAATC-TG-CCTCTGG
129 AAGATCG-GATGGTCTTCAATCTTGCCCTCTGG
*
9989846 TTAGGGTAAAAGATTGAATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9989911 AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAAT-TGCCCCATGATC-GGGTAAAA
66 AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAA
*
9989974 GATCGGATGGTCTTCAATCTTGCCCCCTGG
131 GATCGGATGGTCTTCAATCTTGCCCTCTGG
*
9990004 TTAGGGTAAAAGATT-GATTTCTTCAAT-TGCCCCATGATCGGGGTAAAAGATCTGATGGT-TTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
*
9990066 AATCTTGCCCTCTGGTGAGGGTAAAAGATTGGA
66 AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGA
9990099 GGTTGTAATT
Statistics
Matches: 1139, Mismatches: 43, Indels: 59
0.92 0.03 0.05
Matches are distributed among these distances:
155 35 0.03
156 50 0.04
157 138 0.12
158 98 0.09
159 396 0.35
160 236 0.21
161 44 0.04
162 51 0.04
163 91 0.08
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (160 bp):
TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
AATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAA
GATCGGATGGTCTTCAATCTTGCCCTCTGG
Found at i:9989108 original size:80 final size:80
Alignment explanation
Indices: 9988730--9990098 Score: 2181
Period size: 79 Copynumber: 17.2 Consensus size: 80
9988720 CTCTATAACT
* * * * *
9988730 TTAGGGTAAAAGATTAGATTGT-TTCAA-CTTGCCCCATGGTCGAGGTAAGAGATCTGATGGTCT
1 TTAGGGTAAAAGATTGGATT-TCTTCAATC-TGCCCCATGATCGGGGTAAAAGATCGGATGGTCT
*
9988793 TCAATC-TGCCCTTTGG
64 TCAATCTTGCCCTCTGG
*
9988809 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
*
9988874 AATCTTGCCCCTCTAG
66 AATCTTG-CCCTCTGG
* * * *
9988890 TTAGGGTAAAAGATTGGAGTACTTCAATCTGCCCCATGATCAGGGTAAAAGATCGGATGGTTTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9988955 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
* * *
9988970 TT-GGGTAAAAGATTAGA-TTCTTCAATCTGCCCCATGATCGGGGGTAGAAGATCAGATGGTCTT
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATC-GGGGTAAAAGATCGGATGGTCTT
*
9989033 CAATCTTGCCCTCTAG
65 CAATCTTGCCCTCTGG
* *
9989049 TTAGGGTAAAAGATTGGATTTCTTCAATCTTCCCCATGATCAGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9989114 AATCTT-CCCTCTGG
66 AATCTTGCCCTCTGG
9989128 TTAGGGTTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTT
1 TTAGGG-TAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTT
9989193 CAATCTTG-CCTCTGG
65 CAATCTTGCCCTCTGG
9989208 TTAGGGTAAAAGATT-GATTTCTTCAAT-TGGCCCCATGATCCGGGGGT-AAAGATCGGATGGTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCT-GCCCCATGAT-C-GGGGTAAAAGATCGGATGGTC
9989270 TTCAATCTT--CCTCTGG
63 TTCAATCTTGCCCTCTGG
* *
9989286 TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGTAATAAAAGATCGGATGGTCT
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGG--GTAAAAGATCGGATGGTCT
9989351 TCAATCTT-CCCTCTGG
64 TCAATCTTGCCCTCTGG
9989367 TTAGGGTAAAAGATTGGATTTCTTCAAT-TG-CCCATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9989430 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
*
9989445 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCTATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9989510 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
9989525 TTA-GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
*
9989589 AATCTTGCCCTCTAG
66 AATCTTGCCCTCTGG
* *
9989604 TTAGGGTAAAAGATTGGATTTTTTTAATCTGCCCCATGATCGCGGGTAAAAGATCGGATGGTCTT
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCG-GGGTAAAAGATCGGATGGTCTT
9989669 CAATCTTGCCCTCTGG
65 CAATCTTGCCCTCTGG
9989685 TTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGGTAAAAGATCGGATGGTCT
1 -TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATC-GGGGTAAAAGATCGGATGGTCT
*
9989750 TCAATCTTGCCCTTTGG
64 TCAATCTTGCCCTCTGG
*
9989767 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAGAAGATCGAGATGGTCTT
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCG-GATGGTCTT
9989832 CAATC-TG-CCTCTGG
65 CAATCTTGCCCTCTGG
*
9989846 TTAGGGTAAAAGATTGAATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9989911 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
9989926 TTAGGGTAAAAGATTGGATTTCTTCAAT-TGCCCCATGATC-GGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
*
9989989 AATCTTGCCCCCTGG
66 AATCTTGCCCTCTGG
*
9990004 TTAGGGTAAAAGATT-GATTTCTTCAAT-TGCCCCATGATCGGGGTAAAAGATCTGATGGT-TTC
1 TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
9990066 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
*
9990081 TGAGGGTAAAAGATTGGA
1 TTAGGGTAAAAGATTGGA
9990099 GGTTGTAATT
Statistics
Matches: 1211, Mismatches: 49, Indels: 61
0.92 0.04 0.05
Matches are distributed among these distances:
77 85 0.07
78 189 0.16
79 344 0.28
80 296 0.24
81 220 0.18
82 76 0.06
83 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (80 bp):
TTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
AATCTTGCCCTCTGG
Found at i:9990237 original size:50 final size:50
Alignment explanation
Indices: 9990183--9990328 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
9990173 TTTAAATGAC
* * * * *
9990183 TGAGATTTGCCATTACAGCTTCATTCTGCCCCTCTACAGCTTTAGGTGTA
1 TGAGATTTGCCATTGCAGTTTCAATCTGCACCTCCACAGCTTTAGGTGTA
** * *
9990233 TGAGATTTGATATTGCGGTTTCAATCTGCGCCTCCACAGCTTTAGGTGTA
1 TGAGATTTGCCATTGCAGTTTCAATCTGCACCTCCACAGCTTTAGGTGTA
* * *
9990283 AGAGATTTACCATTGCAGTTTCAATCTGCACCTCCACCGCTTTAGG
1 TGAGATTTGCCATTGCAGTTTCAATCTGCACCTCCACAGCTTTAGG
9990329 GGTAAAAGAT
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (50 bp):
TGAGATTTGCCATTGCAGTTTCAATCTGCACCTCCACAGCTTTAGGTGTA
Found at i:9991276 original size:25 final size:24
Alignment explanation
Indices: 9991248--9991304 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
9991238 ACCTCCCCTT
9991248 TTTCTTTTTCTTTACTTCTTTTTCC
1 TTTCTTTTT-TTTACTTCTTTTTCC
** *
9991273 TTTCTTTGTTTTTTTTTCTTTTTTC
1 TTTCTTT-TTTTTACTTCTTTTTCC
9991298 TTT-TTTT
1 TTTCTTTT
9991305 AATTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.04
24 3 0.11
25 22 0.79
26 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTCTTTTTTTTACTTCTTTTTCC
Found at i:9991293 original size:18 final size:17
Alignment explanation
Indices: 9991266--9991323 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
9991256 TCTTTACTTC
*
9991266 TTTTTCCTTTCTTTGTTT
1 TTTTTCCTTT-TTTCTTT
*
9991284 TTTTTTCTTTTTTCTTT
1 TTTTTCCTTTTTTCTTT
***
9991301 TTTTAATTTTTTATCTTT
1 TTTTTCCTTTTT-TCTTT
9991319 TTTTT
1 TTTTT
9991324 TTGAAATTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 15 0.45
18 18 0.55
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTCCTTTTTTCTTT
Found at i:9991310 original size:25 final size:25
Alignment explanation
Indices: 9991263--9991325 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
9991253 TTTTCTTTAC
* * **
9991263 TTCTTTTTCCTTTCTTTGTTTTTTT
1 TTCTTTTTTCTTTTTTTAATTTTTT
9991288 TTCTTTTTTCTTTTTTTAATTTTTT
1 TTCTTTTTTCTTTTTTTAATTTTTT
*
9991313 ATCTTTTTT-TTTT
1 TTCTTTTTTCTTTT
9991326 GAAATTTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.83
Consensus pattern (25 bp):
TTCTTTTTTCTTTTTTTAATTTTTT
Found at i:9996374 original size:63 final size:60
Alignment explanation
Indices: 9996290--9996461 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 60
9996280 TTTTGGTTTG
*
9996290 TTATTTATTTATTT-AT---AATAATAAATAAATAATAAAACAAAATTAATATTATTTTACA
1 TTATTTATTTATTTCATAAAAATAATAAATAAATAATAAAACAAAATAAATATTATTTT--A
*
9996348 TTTATTTATTTATATTCATAAAATAATAAATAAATAAATAATAAAATAAAATAAATATTATTTTA
1 -TTATTTATTTAT-TTCAT-AAA-AAT-AATAAATAAATAATAAAACAAAATAAATATTATTTTA
9996413 -TATTTATTTATGTTCATAAAAATAAT-AATAAATAAATAAATA-AAAATAA
1 TTATTTATTTAT-TTCATAAAAATAATAAATAAAT-AATAAA-ACAAAATAA
9996462 TAAGAAAAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 19
0.82 0.02 0.16
Matches are distributed among these distances:
59 19 0.19
60 18 0.18
61 6 0.06
62 3 0.03
63 16 0.16
65 1 0.01
66 3 0.03
67 34 0.34
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (60 bp):
TTATTTATTTATTTCATAAAAATAATAAATAAATAATAAAACAAAATAAATATTATTTTA
Found at i:9996464 original size:63 final size:64
Alignment explanation
Indices: 9996304--9996457 Score: 222
Period size: 67 Copynumber: 2.4 Consensus size: 64
9996294 TTATTTATTT
*
9996304 ATAATAATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTCATAA
1 ATAATAATAAATAAATAATAAAACAAAATAAATATTATTTTA-A-TTATTTATTTATATTCATAA
9996369 A
64 A
* *
9996370 ATAATAAATAAATAAATAATAAAATAAAATAAATATTATTTT-A-TATTTATTTATGTTCATAAA
1 ATAAT-AATAAATAAATAATAAAACAAAATAAATATTATTTTAATTATTTATTTATATTCAT-AA
9996433 A
64 A
9996434 ATAATAATAAATAAATAAATAAAA
1 ATAATAATAAATAAAT-AATAAAA
9996458 ATAATAAGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
63 27 0.33
64 15 0.18
65 1 0.01
66 5 0.06
67 34 0.41
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.39
Consensus pattern (64 bp):
ATAATAATAAATAAATAATAAAACAAAATAAATATTATTTTAATTATTTATTTATATTCATAAA
Found at i:9996471 original size:18 final size:18
Alignment explanation
Indices: 9996430--9996471 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9996420 TTATGTTCAT
*
9996430 AAAAATAATAATAAATAA
1 AAAAATAAAAATAAATAA
*
9996448 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
9996465 GAAAAAT
1 -AAAAAT
9996472 GGAATTGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:10003051 original size:32 final size:32
Alignment explanation
Indices: 10003015--10003082 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
10003005 AAAAGGGTTC
* *
10003015 AAAATTTTTTTTT-TCAGTTTTTAAGGGGCCCT
1 AAAATTTTTTTTTACCAATTTTTAAGGGG-CCT
10003047 AAAATTTTTTTTTACCAATTTTTAAGGGGCCT
1 AAAATTTTTTTTTACCAATTTTTAAGGGGCCT
10003079 AAAA
1 AAAA
10003083 AAATTTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (32 bp):
AAAATTTTTTTTTACCAATTTTTAAGGGGCCT
Found at i:10006143 original size:24 final size:24
Alignment explanation
Indices: 10006063--10006131 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
10006053 AATCTTTCAG
* *
10006063 TTAAACTCTGTTTAATTGTTTTAA
1 TTAAACTCTATTTATTTGTTTTAA
*
10006087 TTAAACTCTATTTATTTATTTTAA
1 TTAAACTCTATTTATTTGTTTTAA
10006111 TTAAACTCTATTTATTTGTTT
1 TTAAACTCTATTTATTTGTTT
10006132 GAGTCAAACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (24 bp):
TTAAACTCTATTTATTTGTTTTAA
Found at i:10008838 original size:28 final size:28
Alignment explanation
Indices: 10008785--10008841 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
10008775 CTTAGCGCGC
* *
10008785 TTATTACCGCACTTTGGTGCTGGACGAG
1 TTATTACCGCACTTTGATGCTAGACGAG
*
10008813 TTATTACCGCACTTAT-ATGTTAGACGAG
1 TTATTACCGCACTT-TGATGCTAGACGAG
10008841 T
1 T
10008842 ATTGAGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (28 bp):
TTATTACCGCACTTTGATGCTAGACGAG
Found at i:10010908 original size:24 final size:24
Alignment explanation
Indices: 10010837--10010911 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
10010827 AGAAATAATC
* * *
10010837 TTTCAGTTAAACTATGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
* *
10010861 TTTTAATTAAATTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
10010885 TTTCAATTAAACTCTGTTTTTTTG
1 TTTCAATTAAACTCTGTTTATTTG
10010909 TTT
1 TTT
10010912 GAGTCAAACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.24, C:0.08, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:10010920 original size:24 final size:24
Alignment explanation
Indices: 10010845--10010923 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
10010835 TCTTTCAGTT
* * * *
10010845 AAACTATGTTTAATTGTTTTAATT
1 AAACTCTGTTTATTTGTTTCAATC
* *
10010869 AAATTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTATTTGTTTCAATC
* * *
10010893 AAACTCTGTTTTTTTGTTTGAGTC
1 AAACTCTGTTTATTTGTTTCAATC
10010917 AAACTCT
1 AAACTCT
10010924 TATTTGTTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAATC
Found at i:10019085 original size:21 final size:19
Alignment explanation
Indices: 10019055--10019109 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
10019045 AAAGTCTGGA
10019055 TTGTA-CGGTAGAACCCAGAG
1 TTGTATCGGTAGAACCC--AG
10019075 TTGTATCGGTAGGACACCCAG
1 TTGTATCGGTA-GA-ACCCAG
*
10019096 TTCTATCGGTAGAA
1 TTGTATCGGTAGAA
10019110 TTCTGTAGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.03
20 7 0.23
21 17 0.55
22 2 0.06
23 4 0.13
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (19 bp):
TTGTATCGGTAGAACCCAG
Found at i:10021552 original size:21 final size:21
Alignment explanation
Indices: 10021538--10021592 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
10021528 AGAGTTTTTA
10021538 GTATCGGTAGAAGAGTCACTT
1 GTATCGGTAGAAGAGTCACTT
**
10021559 GTATCGGTAGAACTGTCACTT
1 GTATCGGTAGAAGAGTCACTT
10021580 GTATCGGTAGAAG
1 GTATCGGTAGAAG
10021593 TCTGCACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (21 bp):
GTATCGGTAGAAGAGTCACTT
Found at i:10025199 original size:50 final size:51
Alignment explanation
Indices: 10025123--10025220 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 51
10025113 AAAGGTGAGC
* *
10025123 CTGACACGATTCATTTTGATTCTGTATAGCTGACAAGCTTAAACGTTCTGT
1 CTGACACGATTCATTCTGATTCTGTATAACTGACAAGCTTAAACGTTCTGT
* * *
10025174 CTGACATGATT-ATTCTGATTTTGTATAACTGACGAGCTTAAACGTTC
1 CTGACACGATTCATTCTGATTCTGTATAACTGACAAGCTTAAACGTTC
10025221 AGTAATCACG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 32 0.76
51 10 0.24
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (51 bp):
CTGACACGATTCATTCTGATTCTGTATAACTGACAAGCTTAAACGTTCTGT
Found at i:10026683 original size:31 final size:30
Alignment explanation
Indices: 10026648--10026710 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
10026638 CTTATATGTT
* *
10026648 AAAAAATCGGTTTTAATCACTAAA-TATTCAA
1 AAAAAAT-GATTTAAATCACTAAACTATT-AA
*
10026679 AAAAAATTATTTAAATCACTAAACTATTAA
1 AAAAAATGATTTAAATCACTAAACTATTAA
10026709 AA
1 AA
10026711 TCAATGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAAATGATTTAAATCACTAAACTATTAA
Found at i:10030603 original size:20 final size:20
Alignment explanation
Indices: 10030578--10030647 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
10030568 TTACCCTGGG
10030578 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGGTAGAACTTC
*
10030598 ACTTCTACTGGTAGAACTTC
1 ACTTCTACCGGTAGAACTTC
* * * *
10030618 ATTTCTACCGATACACCTTC
1 ACTTCTACCGGTAGAACTTC
*
10030638 AATTCTACCG
1 ACTTCTACCG
10030648 ATACAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (20 bp):
ACTTCTACCGGTAGAACTTC
Found at i:10030648 original size:20 final size:20
Alignment explanation
Indices: 10030614--10030652 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10030604 ACTGGTAGAA
*
10030614 CTTCATTTCTACCGATACAC
1 CTTCAATTCTACCGATACAC
10030634 CTTCAATTCTACCGATACA
1 CTTCAATTCTACCGATACA
10030653 AGTATGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.33
Consensus pattern (20 bp):
CTTCAATTCTACCGATACAC
Found at i:10031470 original size:39 final size:39
Alignment explanation
Indices: 10031390--10031472 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
10031380 ATATGAAAAA
* * **
10031390 AATATATGATTTTAATATTTTTAACATTAATATAACTTT
1 AATATATAATTTCAATATTTTTAACATTAATATAAAGTT
*
10031429 AATATATAATTTCAATATTTTTAACTATT-ATTTAAAGTT
1 AATATATAATTTCAATATTTTTAAC-ATTAATATAAAGTT
10031468 AATAT
1 AATAT
10031473 TATTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (39 bp):
AATATATAATTTCAATATTTTTAACATTAATATAAAGTT
Found at i:10040910 original size:15 final size:16
Alignment explanation
Indices: 10040886--10040918 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10040876 AGAAGAGGGA
10040886 GAAAGAGAAAAAGAAG
1 GAAAGAGAAAAAGAAG
*
10040902 GAAAG-GAAAGAGAAG
1 GAAAGAGAAAAAGAAG
10040917 GA
1 GA
10040919 TAAAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
GAAAGAGAAAAAGAAG
Found at i:10042533 original size:15 final size:16
Alignment explanation
Indices: 10042508--10042537 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10042498 CATCAAAATC
10042508 TCCATCTAATGCTGGA
1 TCCATCTAATGCTGGA
10042524 TCCA-CTAATGCTGG
1 TCCATCTAATGCTGG
10042538 GAGATCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (16 bp):
TCCATCTAATGCTGGA
Found at i:10049623 original size:20 final size:20
Alignment explanation
Indices: 10049595--10049644 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
10049585 CTCCAGTGAG
10049595 ACTTCTACCGGTAGAACTCC
1 ACTTCTACCGGTAGAACTCC
*
10049615 ACTTTTACCGGTAGAACTCC
1 ACTTCTACCGGTAGAACTCC
10049635 ACTTCTACCG
1 ACTTCTACCG
10049645 ATACAACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (20 bp):
ACTTCTACCGGTAGAACTCC
Done.