Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 25 of 259
Found at i:6918501 original size:15 final size:15
Alignment explanation
Indices: 6918481--6918510 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6918471 ACAAATTAAG
*
6918481 GAATTATTAGAAAAA
1 GAATTAATAGAAAAA
6918496 GAATTAATAGAAAAA
1 GAATTAATAGAAAAA
6918511 ACTAATAGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
GAATTAATAGAAAAA
Found at i:6922309 original size:3 final size:3
Alignment explanation
Indices: 6922301--6922404 Score: 50
Period size: 3 Copynumber: 32.7 Consensus size: 3
6922291 AGAAAATGAC
* * * **
6922301 AAT AAT AAT AAT AAT ACT AAT AAC AAC AAT AAT AA- AGAT AGC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
6922346 AAT AAAT AA- AAA AAGT AAT AAAT AAGT ATGT GAAT AAAT AAC AAT AAT
1 AAT -AAT AAT AAT AA-T AAT -AAT AA-T A-AT -AAT -AAT AAT AAT AAT
6922394 AAT AAT AAT AA
1 AAT AAT AAT AA
6922405 AAGAAATAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
2 3 0.04
3 58 0.74
4 16 0.21
5 1 0.01
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:6922366 original size:16 final size:16
Alignment explanation
Indices: 6922345--6922420 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
6922335 AAGATAGCAA
6922345 TAATAAATAAAAAAAG
1 TAATAAATAAAAAAAG
** *
6922361 TAATAAAT-AAGTATG
1 TAATAAATAAAAAAAG
*
6922376 TGAATAAATAACAATAA-
1 T-AATAAATAA-AAAAAG
*
6922393 TAAT-AATAATAAAAG
1 TAATAAATAAAAAAAG
*
6922408 AAATAAATAAAAA
1 TAATAAATAAAAA
6922421 TATAAACAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
14 3 0.07
15 13 0.28
16 25 0.54
17 2 0.04
18 3 0.07
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (16 bp):
TAATAAATAAAAAAAG
Found at i:6924110 original size:49 final size:47
Alignment explanation
Indices: 6923870--6924498 Score: 324
Period size: 44 Copynumber: 13.6 Consensus size: 47
6923860 CTTCGATCCA
* * * * * *
6923870 CTCCAATGCAACCTCAGGGAAATAAAACTTGTA-GC--TTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
* * * * * *
6923914 TTCCGCTGCAACTCCAGGGAGGTGAGATTTGT--G-TCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
* **** *
6923958 CTCCACTACAACTTCAGGGAGATAAGATTTGTTTAATTTT-AACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
* * *
6924004 CACCACTACAACTTCAGGGAGATAAGGTTTGT-GGC-TTT-AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
* *
6924048 CTCCACTGTAACTTC-GGAGAGATAGGATTTGTAGGCTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGG-GAGATAAGATTTGTAGGCT-T-TTCAATCTG
* * *
6924097 CTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCCTATTTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGC--TTTTCAATCTG
** *
6924146 CTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGATTTT-AA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATC-TG
* * * *
6924192 CTCCATTGCAACTTTAGGGAGATAAGATTTATAACTCGTAGC-TTT-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGT-A---G--GCTTTTCAATCTG
* * * * ** * * *
6924243 TTCCACTACAACTTCAGCGAAATAAGATCCGCTA-TC-TTT-AGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGGCTTTTCAATCTG
* * * *
6924288 CTCCACTGCAACTTGAGGGAGATAAGACTTGTA-AC-TTT-AACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
* * * *
6924332 CTCCAATGCATCTTCAGGGAGATAAGGTTTGT-GAC--TTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
* ** * * * * * * *
6924376 CTCCATTGCAACTTCAAAGAGATAAGATTCGCCATGATAACTTCGATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGGCT--TTTCAATCTG
* * *
6924426 CTTCACTGCAACTTCAGGGAGATAAAATTTGT-GGC--TTCAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
* *
6924470 CTCCACTACAACTAT-AGGGAGGTAAGATT
1 CTCCACTGCAACT-TCAGGGAGATAAGATT
6924499 CGCCATAATG
Statistics
Matches: 447, Mismatches: 106, Indels: 64
0.72 0.17 0.10
Matches are distributed among these distances:
43 5 0.01
44 187 0.42
45 34 0.08
46 68 0.15
47 8 0.02
48 3 0.01
49 75 0.17
50 34 0.08
51 30 0.07
52 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (47 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGCTTTTCAATCTG
Found at i:6924482 original size:94 final size:94
Alignment explanation
Indices: 6924338--6924513 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 94
6924328 CCTGCTCCAA
* ** * * *
6924338 TGCATCTTCAGGGAGATAAGGTTTGTGACTTCAATCTGCTCCATTGCAACT-TCAAAGAGATAAG
1 TGCAACTTCAGGGAGATAAAATTTGTGACTTCAATATGCTCCACTACAACTAT-AAAGAGATAAG
*
6924402 ATTCGCCATGATAACTTCGATATGCTTCAC
65 ATTCGCCATAATAACTTCGATATGCTTCAC
* ** *
6924432 TGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATATGCTCCACTACAACTATAGGGAGGTAAGA
1 TGCAACTTCAGGGAGATAAAATTTGTGACTTCAATATGCTCCACTACAACTATAAAGAGATAAGA
*
6924497 TTCGCCATAATGACTTC
66 TTCGCCATAATAACTTC
6924514 AATCCATCCC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (94 bp):
TGCAACTTCAGGGAGATAAAATTTGTGACTTCAATATGCTCCACTACAACTATAAAGAGATAAGA
TTCGCCATAATAACTTCGATATGCTTCAC
Found at i:6928558 original size:32 final size:33
Alignment explanation
Indices: 6928525--6928637 Score: 115
Period size: 32 Copynumber: 3.5 Consensus size: 33
6928515 TAGAGGAATA
*
6928525 TTGTTATCATTTAACAAAAATTAAAGTTGATAT
1 TTGTTATCATTTCACAAAAATTAAAGTTGATAT
* *
6928558 TTGTTATCACTTCAC-AAAATTGAAGTTG-TAAT
1 TTGTTATCATTTCACAAAAATTAAAGTTGAT-AT
* ** *
6928590 TTGTTACCATTTCAC-AAAATGGAAGCTGATAT
1 TTGTTATCATTTCACAAAAATTAAAGTTGATAT
* *
6928622 TTATCATCATTTCACA
1 TTGTTATCATTTCACA
6928638 TAACCACACG
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
31 1 0.01
32 52 0.78
33 14 0.21
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (33 bp):
TTGTTATCATTTCACAAAAATTAAAGTTGATAT
Found at i:6929886 original size:23 final size:23
Alignment explanation
Indices: 6929856--6929902 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
6929846 TTAAATAAAA
*
6929856 TAAGAGATTGCTTGCAAGTCAAG
1 TAAGAGATTGCTTACAAGTCAAG
6929879 TAAGAGATTGCTTACAAGTCAAG
1 TAAGAGATTGCTTACAAGTCAAG
6929902 T
1 T
6929903 TAAACAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (23 bp):
TAAGAGATTGCTTACAAGTCAAG
Found at i:6939941 original size:10 final size:10
Alignment explanation
Indices: 6939911--6939992 Score: 66
Period size: 10 Copynumber: 8.3 Consensus size: 10
6939901 CACATAAGCA
6939911 TTTAATTAATT
1 TTTAA-TAATT
*
6939922 TTT--TATTT
1 TTTAATAATT
*
6939930 TTTTATAATT
1 TTTAATAATT
6939940 TTTAATAATT
1 TTTAATAATT
6939950 TTTAATAA-T
1 TTTAATAATT
*
6939959 TTTAAT-TTT
1 TTTAATAATT
6939968 TTTAAAAATAATT
1 TTT---AATAATT
6939981 TTT-ATAATT
1 TTTAATAATT
6939990 TTT
1 TTT
6939993 CTGAATTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
8 7 0.12
9 20 0.34
10 21 0.36
11 3 0.05
12 3 0.05
13 5 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTAATAATT
Found at i:6939999 original size:10 final size:9
Alignment explanation
Indices: 6939929--6940011 Score: 53
Period size: 10 Copynumber: 8.7 Consensus size: 9
6939919 ATTTTTTATT
6939929 TTTTTATAA
1 TTTTTATAA
6939938 TTTTTAATAA
1 TTTTT-ATAA
6939948 TTTTTAATAA
1 TTTTT-ATAA
* *
6939958 TTTTAAT-T
1 TTTTTATAA
6939966 TTTTTAAAAATAA
1 TTTTT----ATAA
6939979 TTTTTATAA
1 TTTTTATAA
*
6939988 TTTTTCTGAA
1 TTTTTAT-AA
6939998 TTTTT-TAA
1 TTTTTATAA
*
6940006 ATTTTA
1 TTTTTA
6940012 AAAAATTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
8 10 0.17
9 18 0.30
10 25 0.42
12 2 0.03
13 5 0.08
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6950325 original size:6 final size:6
Alignment explanation
Indices: 6950314--6950340 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6950304 TGCACAAAAA
6950314 AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AAT
6950341 AAAAACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:6950554 original size:9 final size:9
Alignment explanation
Indices: 6950542--6950593 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
6950532 TATTAAAAAC
6950542 GAGAGAGTT
1 GAGAGAGTT
*
6950551 GAGAGACTT
1 GAGAGAGTT
*
6950560 GAGAGGGTTT
1 GAGAGAG-TT
*
6950570 GAGAGAATT
1 GAGAGAGTT
6950579 GAGAGAGTT
1 GAGAGAGTT
6950588 GAGAGA
1 GAGAGA
6950594 ATGATGTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
9 29 0.81
10 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.42, T:0.21
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:6950573 original size:19 final size:18
Alignment explanation
Indices: 6950542--6950595 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
6950532 TATTAAAAAC
*
6950542 GAGAGAGTTGAGAGACTT
1 GAGAGAGTTGAGAGAATT
*
6950560 GAGAGGGTTTGAGAGAATT
1 GAGAGAG-TTGAGAGAATT
6950579 GAGAGAGTTGAGAGAAT
1 GAGAGAGTTGAGAGAAT
6950596 GATGTGAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.35, C:0.02, G:0.41, T:0.22
Consensus pattern (18 bp):
GAGAGAGTTGAGAGAATT
Found at i:6952010 original size:26 final size:23
Alignment explanation
Indices: 6951961--6952021 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
6951951 TGATTTAAAC
*
6951961 AAATACTCATATTTATATAATTA
1 AAATATTCATATTTATATAATTA
*
6951984 AAATATTCATATTTTATACTATGTTA
1 AAATATTCATA-TTTATA-TA-ATTA
6952010 AAATATGTCATA
1 AAATAT-TCATA
6952022 AGTCTTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 10 0.31
24 6 0.19
25 2 0.06
26 9 0.28
27 5 0.16
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (23 bp):
AAATATTCATATTTATATAATTA
Found at i:6952554 original size:18 final size:18
Alignment explanation
Indices: 6952521--6952559 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6952511 ATTTATTTAT
* *
6952521 TAAAATAAAATTTTAATA
1 TAAAATAAAATATTAAAA
*
6952539 TAAAATAATATATTAAAA
1 TAAAATAAAATATTAAAA
6952557 TAA
1 TAA
6952560 TATTTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATAAAATATTAAAA
Found at i:6953555 original size:4 final size:4
Alignment explanation
Indices: 6953546--6953599 Score: 81
Period size: 4 Copynumber: 13.2 Consensus size: 4
6953536 CCTAGCAAGG
* *
6953546 TACA TACA TACA AACCA TGCA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA TACA TACA
6953595 TACA T
1 TACA T
6953600 GTACATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
4 43 0.96
5 2 0.04
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:6957140 original size:18 final size:18
Alignment explanation
Indices: 6957106--6957160 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
6957096 TTTTTTAAAA
6957106 TATAAAT-TTTGGAATTT
1 TATAAATATTTGGAATTT
*
6957123 TATAAATATTTTGAATTT
1 TATAAATATTTGGAATTT
*
6957141 TAAAAATTATTTGGAATTT
1 TATAAA-TATTTGGAATTT
6957160 T
1 T
6957161 TTTTTTGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 7 0.21
18 14 0.42
19 12 0.36
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TATAAATATTTGGAATTT
Found at i:6957276 original size:10 final size:10
Alignment explanation
Indices: 6957261--6957285 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6957251 GTTACTCGAG
6957261 TTATTTGGAA
1 TTATTTGGAA
6957271 TTATTTGGAA
1 TTATTTGGAA
6957281 TTATT
1 TTATT
6957286 CGAGTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (10 bp):
TTATTTGGAA
Found at i:6961036 original size:17 final size:18
Alignment explanation
Indices: 6961014--6961055 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
6961004 GGATTTGACG
* *
6961014 TTTGACAAAC-TTTATGT
1 TTTGACAAACATTAAGGT
*
6961031 TTTGACGAACATTAAGGT
1 TTTGACAAACATTAAGGT
6961049 TTTGACA
1 TTTGACA
6961056 GACTCTTCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGACAAACATTAAGGT
Found at i:6967447 original size:28 final size:28
Alignment explanation
Indices: 6967416--6967487 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
6967406 TCAGTTTGCG
* *
6967416 ACAAAGGCTATTCTTTTCAGAGTTCACC
1 ACAAAGGTTATTCTTTTCAAAGTTCACC
**
6967444 ACAAAGGTTATTCTTTTCAAAGTTTGCC
1 ACAAAGGTTATTCTTTTCAAAGTTCACC
*
6967472 ACAATGGTTATTCTTT
1 ACAAAGGTTATTCTTT
6967488 ATTGTCGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (28 bp):
ACAAAGGTTATTCTTTTCAAAGTTCACC
Found at i:6969879 original size:20 final size:20
Alignment explanation
Indices: 6969854--6969901 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
6969844 TAAATTCTAA
* *
6969854 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAATT
6969874 AAAGATAAATAAATATAATT
1 AAAGATAAATAAATATAATT
6969894 AAA-ATAAA
1 AAAGATAAA
6969902 ATCCTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAATATAATT
Found at i:6969945 original size:15 final size:15
Alignment explanation
Indices: 6969925--6969954 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6969915 ATAATCCTAA
*
6969925 TAATTATCTTAATAT
1 TAATTATCCTAATAT
6969940 TAATTATCCTAATAT
1 TAATTATCCTAATAT
6969955 AAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:6969965 original size:5 final size:5
Alignment explanation
Indices: 6969950--6969979 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
6969940 TAATTATCCT
6969950 AATATA AATAA AATAA AATAA AATAA AATA
1 AATA-A AATAA AATAA AATAA AATAA AATA
6969980 GAGTCTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:6973419 original size:28 final size:28
Alignment explanation
Indices: 6973374--6973474 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
6973364 TAAGAATTTT
*
6973374 CCACAAAGGC-ATCCTTTTCAGAGTTCG
1 CCACAAAGGCTATTCTTTTCAGAGTTCG
*
6973401 TCACACAA-GCTATTCTTTTCAGAGTTCG
1 CCACA-AAGGCTATTCTTTTCAGAGTTCG
* *
6973429 CCACAAAGGCTATTCTTTTCAGGGTTCC
1 CCACAAAGGCTATTCTTTTCAGAGTTCG
* *
6973457 CCACAAGGGCCATTCTTT
1 CCACAAAGGCTATTCTTT
6973475 ACTGTTGGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 8 0.12
28 56 0.88
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (28 bp):
CCACAAAGGCTATTCTTTTCAGAGTTCG
Found at i:6978795 original size:110 final size:110
Alignment explanation
Indices: 6978602--6978824 Score: 446
Period size: 110 Copynumber: 2.0 Consensus size: 110
6978592 ATATCTTTAA
6978602 TCCCATTGGGTTAAATTCGTTCTCATAATATGATCATATTTTATCTTGTGGTAATCATTACATCT
1 TCCCATTGGGTTAAATTCGTTCTCATAATATGATCATATTTTATCTTGTGGTAATCATTACATCT
6978667 TTCTTCATGAAAAATCCAATTATTAACTAATAGTAATTAAATAAT
66 TTCTTCATGAAAAATCCAATTATTAACTAATAGTAATTAAATAAT
6978712 TCCCATTGGGTTAAATTCGTTCTCATAATATGATCATATTTTATCTTGTGGTAATCATTACATCT
1 TCCCATTGGGTTAAATTCGTTCTCATAATATGATCATATTTTATCTTGTGGTAATCATTACATCT
6978777 TTCTTCATGAAAAATCCAATTATTAACTAATAGTAATTAAATAAT
66 TTCTTCATGAAAAATCCAATTATTAACTAATAGTAATTAAATAAT
6978822 TCC
1 TCC
6978825 TCCTAAACAA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 113 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (110 bp):
TCCCATTGGGTTAAATTCGTTCTCATAATATGATCATATTTTATCTTGTGGTAATCATTACATCT
TTCTTCATGAAAAATCCAATTATTAACTAATAGTAATTAAATAAT
Found at i:6979968 original size:16 final size:17
Alignment explanation
Indices: 6979930--6979972 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
6979920 GGTTTAAAAT
* *
6979930 TATTCTCAATAATTTAA
1 TATTTTCAATAATATAA
6979947 TA-TTTCAA-AATATAA
1 TATTTTCAATAATATAA
6979962 TATTTTCAATA
1 TATTTTCAATA
6979973 TGGATTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.36
16 11 0.50
17 3 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTTCAATAATATAA
Found at i:6982835 original size:24 final size:24
Alignment explanation
Indices: 6982771--6982853 Score: 87
Period size: 24 Copynumber: 3.3 Consensus size: 24
6982761 ATCTCTCTAA
*
6982771 AAAATCTAACCCTAGCCCATGGCCC
1 AAAA-CTAACCCTAACCCATGGCCC
* **
6982796 AAAA-TACAACAAAACCCATGGCCC
1 AAAACTA-ACCCTAACCCATGGCCC
6982820 AAAACTAACCCTAACCCAAATGGCCC
1 AAAACTAACCCTAACCC--ATGGCCC
6982846 AAAACTAA
1 AAAACTAA
6982854 ACCAATTTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 2 0.04
24 24 0.51
25 6 0.13
26 15 0.32
ACGTcount: A:0.45, C:0.35, G:0.08, T:0.12
Consensus pattern (24 bp):
AAAACTAACCCTAACCCATGGCCC
Found at i:6985630 original size:3 final size:3
Alignment explanation
Indices: 6985624--6985660 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6985614 TTGTTCCCTT
6985624 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6985661 ATACTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6996212 original size:10 final size:10
Alignment explanation
Indices: 6996199--6996224 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6996189 TTTTGGACTT
6996199 TTTTTGTTTA
1 TTTTTGTTTA
6996209 TTTTTGTTTA
1 TTTTTGTTTA
6996219 TTTTTG
1 TTTTTG
6996225 GGTTTTGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.81
Consensus pattern (10 bp):
TTTTTGTTTA
Found at i:7003047 original size:13 final size:13
Alignment explanation
Indices: 7003001--7003048 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
7002991 TTGGCAATGT
7003001 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
7003014 TTTTAAAAAGTGC
1 TTTTGAAAAGTGC
** *
7003027 CGTGGAAAAGTGC
1 TTTTGAAAAGTGC
7003040 TTTTGAAAA
1 TTTTGAAAA
7003049 TTTTGATTTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.33
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:7005639 original size:18 final size:19
Alignment explanation
Indices: 7005607--7005645 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
7005597 TCAAATTTAA
*
7005607 TTTTAATATTATTGAGTTT
1 TTTTAATATTATTGACTTT
*
7005626 TTTTAAT-TTTTTGACTTT
1 TTTTAATATTATTGACTTT
7005644 TT
1 TT
7005646 ATGAGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (19 bp):
TTTTAATATTATTGACTTT
Found at i:7014849 original size:30 final size:30
Alignment explanation
Indices: 7014813--7014871 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
7014803 TATGCCATAG
7014813 TTGAATGAATAATTTATTGTATAAAGATAT
1 TTGAATGAATAATTTATTGTATAAAGATAT
*
7014843 TTGAATGAATAATTTGTTGTATAAAGATA
1 TTGAATGAATAATTTATTGTATAAAGATA
7014872 CTTTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (30 bp):
TTGAATGAATAATTTATTGTATAAAGATAT
Found at i:7016177 original size:6 final size:6
Alignment explanation
Indices: 7016166--7016190 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7016156 TTCTAATAAC
7016166 CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT C
7016191 TTCTCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:7032723 original size:18 final size:17
Alignment explanation
Indices: 7032700--7032734 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7032690 AATTTTAAAA
7032700 ATATATATTAAAAATTTT
1 ATATAT-TTAAAAATTTT
*
7032718 ATATATTTTAAAATTTT
1 ATATATTTAAAAATTTT
7032735 GAGAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATTTAAAAATTTT
Found at i:7037243 original size:95 final size:95
Alignment explanation
Indices: 7037080--7037263 Score: 359
Period size: 95 Copynumber: 1.9 Consensus size: 95
7037070 CAGGCAGATG
7037080 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
1 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
7037145 ATGCTCCGGATGTCATTACGGGTACGCTTT
66 ATGCTCCGGATGTCATTACGGGTACGCTTT
7037175 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
1 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
*
7037240 ATGCTCTGGATGTCATTACGGGTA
66 ATGCTCCGGATGTCATTACGGGTA
7037264 TGTTTTTTAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 88 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (95 bp):
TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
ATGCTCCGGATGTCATTACGGGTACGCTTT
Found at i:7043460 original size:23 final size:23
Alignment explanation
Indices: 7043434--7043483 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
7043424 CCATTCACTT
*
7043434 TCAAACATTGTTTAAGGTTCAAA-
1 TCAAACA-TATTTAAGGTTCAAAC
*
7043457 TCAAGCATATTTAAGGTTCAAAC
1 TCAAACATATTTAAGGTTCAAAC
7043480 TCAA
1 TCAA
7043484 GAACATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (23 bp):
TCAAACATATTTAAGGTTCAAAC
Found at i:7045257 original size:17 final size:17
Alignment explanation
Indices: 7045235--7045269 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7045225 AAATTGAAAG
7045235 TAAGAATAGAGAAAATA
1 TAAGAATAGAGAAAATA
7045252 TAAGAATAGAGAAAATA
1 TAAGAATAGAGAAAATA
7045269 T
1 T
7045270 GTTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (17 bp):
TAAGAATAGAGAAAATA
Found at i:7047977 original size:23 final size:24
Alignment explanation
Indices: 7047935--7047995 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
7047925 TTCTTTGAAA
*
7047935 ATAATAAAATCATAAATTAA-TAC
1 ATAATAAAATTATAAATTAACTAC
** *
7047958 ATAATAAAATTATATTTTAACTTC
1 ATAATAAAATTATAAATTAACTAC
*
7047982 TTAA-AAAATTATAA
1 ATAATAAAATTATAA
7047996 TTCAATTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATAAAATTATAAATTAACTAC
Found at i:7048004 original size:22 final size:23
Alignment explanation
Indices: 7047963--7048005 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7047953 AATACATAAT
* *
7047963 AAAATTATATTTTAACTTCTTAA
1 AAAATTATAATTCAACTTCTTAA
7047986 AAAATTATAATTCAA-TTCTT
1 AAAATTATAATTCAACTTCTT
7048006 CTTAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATTATAATTCAACTTCTTAA
Found at i:7050962 original size:15 final size:15
Alignment explanation
Indices: 7050942--7050987 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
7050932 ACTTCCACTG
*
7050942 GAATTAAAATGAAAT
1 GAATTAAATTGAAAT
*
7050957 GAATTAAATTGAATT
1 GAATTAAATTGAAAT
7050972 GAATTGAAATTGAAAT
1 GAATT-AAATTGAAAT
7050988 ATCAACCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (15 bp):
GAATTAAATTGAAAT
Found at i:7052362 original size:25 final size:26
Alignment explanation
Indices: 7052316--7052379 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
7052306 TTTAATTGTC
* * *
7052316 TTATTTTTATAATGAATTTGATATAA
1 TTATTTTTTTAATAAATCTGATATAA
*
7052342 TTATTTTTTTAA-AAATCTGATATGA
1 TTATTTTTTTAATAAATCTGATATAA
*
7052367 -GATTTTTTTAATA
1 TTATTTTTTTAATA
7052380 TTCCCAAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 10 0.31
25 11 0.34
26 11 0.34
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (26 bp):
TTATTTTTTTAATAAATCTGATATAA
Found at i:7052873 original size:21 final size:21
Alignment explanation
Indices: 7052821--7052874 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
7052811 GTGGCCCTAA
*
7052821 ACATGGTCGTGTGGCTACTCT
1 ACATGCTCGTGTGGCTACTCT
* * *
7052842 ACATACCCGTGTGGTTACT-T
1 ACATGCTCGTGTGGCTACTCT
7052862 CACATGCTCGTGT
1 -ACATGCTCGTGT
7052875 ACAATTCGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (21 bp):
ACATGCTCGTGTGGCTACTCT
Found at i:7053501 original size:17 final size:18
Alignment explanation
Indices: 7053474--7053507 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7053464 ATATTGTGAA
7053474 AAAATAAAATAAAGAAAT
1 AAAATAAAATAAAGAAAT
7053492 AAAA-AAAATAAAGAAA
1 AAAATAAAATAAAGAAA
7053508 CACACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAATAAAATAAAGAAAT
Found at i:7059178 original size:30 final size:30
Alignment explanation
Indices: 7059142--7059203 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
7059132 TGACCAAACC
* *
7059142 TTAGTTTCTCCTAGCTATGGAGTTTCGGGT
1 TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
*
7059172 TTAGTTTCTCCTAGTTATAGAGTTTCAGGT
1 TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
7059202 TT
1 TT
7059204 CTTTTTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.16, C:0.15, G:0.23, T:0.47
Consensus pattern (30 bp):
TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
Found at i:7065028 original size:20 final size:20
Alignment explanation
Indices: 7065003--7065040 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7064993 GTCAGTCCTA
* *
7065003 TAAATAGTGGGGTCAAATCG
1 TAAATAGTAGAGTCAAATCG
7065023 TAAATAGTAGAGTCAAAT
1 TAAATAGTAGAGTCAAAT
7065041 TATGAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (20 bp):
TAAATAGTAGAGTCAAATCG
Found at i:7065601 original size:10 final size:10
Alignment explanation
Indices: 7065588--7065616 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
7065578 TACATATATC
7065588 TGACTTTAGG
1 TGACTTTAGG
7065598 TGACTTTAGG
1 TGACTTTAGG
7065608 TGACTTTAG
1 TGACTTTAG
7065617 ATGAGCGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (10 bp):
TGACTTTAGG
Found at i:7080498 original size:42 final size:42
Alignment explanation
Indices: 7080446--7080541 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
7080436 TATAATTATT
*
7080446 CACTGACTCAAAACCTGCTAGGGCC-AAGGCCTAATACAAATA
1 CACTGGCTCAAAACCTGCTA-GGCCTAAGGCCTAATACAAATA
* **
7080488 CACTGGCTCAAAGCCTGCTAGGCCTAAGGCCTTTTACAAATA
1 CACTGGCTCAAAACCTGCTAGGCCTAAGGCCTAATACAAATA
**
7080530 CACCAGCTCAAA
1 CACTGGCTCAAA
7080542 TTCTGCTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (42 bp):
CACTGGCTCAAAACCTGCTAGGCCTAAGGCCTAATACAAATA
Found at i:7085391 original size:91 final size:94
Alignment explanation
Indices: 7085226--7085488 Score: 293
Period size: 94 Copynumber: 2.8 Consensus size: 94
7085216 GGGTTAAGTT
* * * * * * * *
7085226 GCCGCTGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGTATATACATGCTGATGGATGTCC
1 GCCGATGCCATGTCCCAAACATCGTCTTACACTGGC-CATCATA-AT-GAGGCTGATGCATGTCC
7085290 CAGACATGTCTTACACTAGCACGAAACT-TA-
63 CAGACATGTCTTACACTAGCACGAAACTCTAC
* * *
7085320 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCTGATGCATGTCCCA
1 GCCGATGCCATGTCCCAAACATCGTCTTACACTGGCCATCATAAT-GAGGCTGATGCATGTCCCA
* ** *
7085383 AACATGTCTTACACTAGCACTTATCTCTAC
65 GACATGTCTTACACTAGCACGAAACTCTAC
* * *
7085413 GCCGATGCCATGTCCCAAACATGGTTTTACACTGGCCATCATAATGTGGCTGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAAACATCGTCTTACACTGGCCATCATAATGAGGCTGATGCATGTCCCAG
7085478 ACATGTCTTAC
66 ACATGTCTTAC
7085489 TTTAGCCCTG
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
91 40 0.28
92 17 0.12
93 20 0.14
94 47 0.33
95 19 0.13
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAAACATCGTCTTACACTGGCCATCATAATGAGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACGAAACTCTAC
Found at i:7085392 original size:47 final size:46
Alignment explanation
Indices: 7085323--7085488 Score: 174
Period size: 47 Copynumber: 3.5 Consensus size: 46
7085313 AAACTTAGCC
* *
7085323 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCT
1 GATGCATGTCCCAAACATGTCTTACACTGGC-ATCATCATCGAGGCT
* * * * *
7085370 GATGCATGTCCCAAACATGTCTTACACTAGCACTTATC-TCTACGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCA-TCATCATCGAGGCT
* * *
7085416 GATGCCATGTCCCAAACATGGTTTTACACTGGCCATCATAAT-GTGGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGG-CATCATCATCGAGGCT
*
7085464 GATGCATGTCCCAGACATGTCTTAC
1 GATGCATGTCCCAAACATGTCTTAC
7085489 TTTAGCCCTG
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
46 16 0.16
47 59 0.61
48 19 0.20
49 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCATCATCATCGAGGCT
Found at i:7088734 original size:29 final size:29
Alignment explanation
Indices: 7088702--7088764 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
7088692 GAAAATCTGT
7088702 CAAATAAAGAATAAATGCGAAAAAATGGC
1 CAAATAAAGAATAAATGCGAAAAAATGGC
* * * *
7088731 CAAATAATGAATAAATGTGACAAAATTGC
1 CAAATAAAGAATAAATGCGAAAAAATGGC
7088760 CAAAT
1 CAAAT
7088765 CCCTTCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (29 bp):
CAAATAAAGAATAAATGCGAAAAAATGGC
Found at i:7089470 original size:18 final size:17
Alignment explanation
Indices: 7089440--7089482 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
7089430 ATCGTTTCGA
* *
7089440 AGTTTTTAGAAAACCTT
1 AGTTTTTGGAAAACCTG
*
7089457 AGTTTTTGGTAAAATCTG
1 AGTTTTTGG-AAAACCTG
7089475 AGTTTTTG
1 AGTTTTTG
7089483 TCGAGTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.47
Consensus pattern (17 bp):
AGTTTTTGGAAAACCTG
Found at i:7089836 original size:35 final size:35
Alignment explanation
Indices: 7089765--7089839 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
7089755 TTAGAATAAG
* *
7089765 ACAGATACAGATTCGGGCCTAAGCCCATTACCGAT
1 ACAGATACAGATTCAGGCCTAAGCCCATTACAGAT
*
7089800 ACAGATGCAGATTCAGGCCTAAGCCCATCT-CAGAT
1 ACAGATACAGATTCAGGCCTAAGCCCAT-TACAGAT
7089835 ACAGA
1 ACAGA
7089840 CATAGATGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (35 bp):
ACAGATACAGATTCAGGCCTAAGCCCATTACAGAT
Found at i:7101963 original size:10 final size:10
Alignment explanation
Indices: 7101948--7102007 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
7101938 TAAATCTAAG
*
7101948 ATTTATTTTT
1 ATTTATCTTT
7101958 ATTTATCTTT
1 ATTTATCTTT
*
7101968 AATTATCTTT
1 ATTTATCTTT
* *
7101978 AATTACCTTT
1 ATTTATCTTT
7101988 ATTTAT-TTGT
1 ATTTATCTT-T
7101998 ATTTATCTTT
1 ATTTATCTTT
7102008 TAGAATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:7120572 original size:13 final size:13
Alignment explanation
Indices: 7120554--7120591 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
7120544 ATGTACTTCA
7120554 TATTTGTTGTCAT
1 TATTTGTTGTCAT
7120567 TATTTGTTGTCAT
1 TATTTGTTGTCAT
7120580 TATTTGTT-TCAT
1 TATTTGTTGTCAT
7120592 ATGTCATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.16, C:0.08, G:0.13, T:0.63
Consensus pattern (13 bp):
TATTTGTTGTCAT
Found at i:7120657 original size:25 final size:24
Alignment explanation
Indices: 7120603--7120659 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
7120593 TGTCATGTTA
*
7120603 ATAAATAATTTAAAATTATAAAAT
1 ATAAAAAATTTAAAATTATAAAAT
7120627 ATTAAAAAATTTAAAATTCA-AAGAAT
1 A-TAAAAAATTTAAAATT-ATAA-AAT
7120653 ATAAAAA
1 ATAAAAA
7120660 GTTCATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.03
25 23 0.79
26 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAAAAATTTAAAATTATAAAAT
Found at i:7121314 original size:26 final size:26
Alignment explanation
Indices: 7121281--7121341 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
7121271 AAAACATTTA
7121281 TTTTAAATTTAAAT-ATTTTTAATAAT
1 TTTTAAATTTAAATCA-TTTTAATAAT
7121307 TTTTAAATTTAAATCATTTTAATAAT
1 TTTTAAATTTAAATCATTTTAATAAT
*
7121333 TGTTAAATT
1 TTTTAAATT
7121342 ATAGTTTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTAAATTTAAATCATTTTAATAAT
Found at i:7121326 original size:16 final size:15
Alignment explanation
Indices: 7121279--7121328 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
7121269 TAAAAACATT
7121279 TATTTTAAATTTAAA
1 TATTTTAAATTTAAA
*
7121294 TATTTTTAA--T-AA
1 TATTTTAAATTTAAA
7121306 T-TTTTAAATTTAAA
1 TATTTTAAATTTAAA
7121320 TCATTTTAA
1 T-ATTTTAA
7121329 TAATTGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
11 6 0.21
12 3 0.11
13 2 0.07
14 3 0.11
15 8 0.29
16 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTTAAATTTAAA
Found at i:7123335 original size:38 final size:39
Alignment explanation
Indices: 7123278--7123379 Score: 100
Period size: 39 Copynumber: 2.6 Consensus size: 39
7123268 TTAGTGGCAT
* *
7123278 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGC-C
1 TAGCGGCGC-TTTTAAAAAACGCCGCTATAGATCGACCAC
* * * *
7123317 TAGCGACGCTATTTAAAAAATGCCGCTGTAGGTCGACCAC
1 TAGCGGCGCT-TTTAAAAAACGCCGCTATAGATCGACCAC
* *
7123357 TAGCGGCAC-TTTGAAAAACGCCG
1 TAGCGGCGCTTTTAAAAAACGCCG
7123380 TAAAAAAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
38 13 0.25
39 30 0.59
40 8 0.16
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (39 bp):
TAGCGGCGCTTTTAAAAAACGCCGCTATAGATCGACCAC
Found at i:7123511 original size:40 final size:39
Alignment explanation
Indices: 7123427--7123534 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 39
7123417 GCTTTAGTGG
** *
7123427 CATTAGCAACGCTTTTTGAAAACGCCGCTATAGATCGAT
1 CATTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCGAT
* *
7123466 CATTAGCGGCGCTTTTTAAAAAATGCCGCTATAGGTCGA-
1 CATTAGCGGCGCTTTTT-AAAAACGCCGCTATAGATCGAT
*
7123505 CTATTAGTGGCGCTTTTTGAAAAACGCCGC
1 C-ATTAGCGGCGCTTTTT-AAAAACGCCGC
7123535 AAAAAAATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
39 16 0.27
40 43 0.73
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (39 bp):
CATTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCGAT
Found at i:7123585 original size:154 final size:153
Alignment explanation
Indices: 7123176--7123601 Score: 586
Period size: 152 Copynumber: 2.8 Consensus size: 153
7123166 GGCGTTTGGA
* * ** * * **
7123176 TAAAAAAAGCCGCTATAGATTAAGCATTAGCGGCGCTTTTTGAAAAATGCTACAAAAAAATTAAG
1 TAAAAAATGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAG
* *
7123241 CACAATGCTGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCCGCTA
66 CACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTG-AAAACGCCGCTA
7123306 TAGATCGAGCCTAGCGACGCTATT
130 TAGATCGAGCCTAGCGACGCTATT
* * * *
7123330 TAAAAAATGCCGCTGTAGGTCGACCACTAGCGGCAC--TTTGAAAAACGCCGTAAAAAAATTAAG
1 TAAAAAATGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAG
** * *
7123393 CACAACACCGTTGTTTTATGTTGAGCTTTAGTGGCATTAGCAACGCTTTTTGAAAACGCCGCTAT
66 CACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTGAAAACGCCGCTAT
* * * *
7123458 AGATCGATCATTAGCGGCGCTTTT
131 AGATCGAGC-CTAGCGACGCTATT
* *
7123482 TAAAAAATGCCGCTATAGGTCGACTATTAGTGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAG
1 TAAAAAATGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAG
* *
7123547 CACAATGCCATCGTTTTATGTTTAGCTTTAGTGGCATTAGCGACGCTTTTTGAAA
66 CACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTGAAA
7123602 TATTTATCAT
Statistics
Matches: 235, Mismatches: 34, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
151 21 0.09
152 111 0.47
154 103 0.44
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (153 bp):
TAAAAAATGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAG
CACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTGAAAACGCCGCTAT
AGATCGAGCCTAGCGACGCTATT
Found at i:7123632 original size:7 final size:7
Alignment explanation
Indices: 7123617--7123742 Score: 76
Period size: 7 Copynumber: 17.7 Consensus size: 7
7123607 ATCATTATAT
*
7123617 TTTAGGG
1 TTTATGG
7123624 TTTATGG
1 TTTATGG
*
7123631 TTTAGGG
1 TTTATGG
*
7123638 TTTAAGG
1 TTTATGG
*
7123645 TTTAGGAG
1 TTTATG-G
7123653 TTACTAT--
1 TT--TATGG
*
7123660 TTTAAGG
1 TTTATGG
7123667 TTTATGG
1 TTTATGG
*
7123674 ATTATGGG
1 TTTAT-GG
*
7123682 TTTAGGG
1 TTTATGG
*
7123689 ATTATGG
1 TTTATGG
7123696 TTTATGG
1 TTTATGG
*
7123703 TTTAAGG
1 TTTATGG
* **
7123710 GTTGGGG
1 TTTATGG
*
7123717 TTTAAGG
1 TTTATGG
*
7123724 TTTAAGG
1 TTTATGG
7123731 TTTATGG
1 TTTATGG
7123738 TTTAT
1 TTTAT
7123743 ATCTTATAAT
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
5 2 0.02
7 80 0.87
8 8 0.09
10 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:7123634 original size:14 final size:14
Alignment explanation
Indices: 7123617--7123742 Score: 87
Period size: 14 Copynumber: 8.9 Consensus size: 14
7123607 ATCATTATAT
7123617 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
*
7123631 TTTAGGGTTTAAGG
1 TTTAGGGTTTATGG
7123645 TTTAGGAGTTACTAT--
1 TTTAGG-GTT--TATGG
*
7123660 TTTAAGGTTTATGG
1 TTTAGGGTTTATGG
* *
7123674 ATTATGGGTTTAGGG
1 TTTA-GGGTTTATGG
* *
7123689 ATTATGGTTTATGG
1 TTTAGGGTTTATGG
**
7123703 TTTAAGGG-TTGGGG
1 TTT-AGGGTTTATGG
* *
7123717 TTTAAGGTTTAAGG
1 TTTAGGGTTTATGG
*
7123731 TTTATGGTTTAT
1 TTTAGGGTTTAT
7123743 ATCTTATAAT
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
12 3 0.03
13 3 0.03
14 56 0.64
15 23 0.26
17 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:7123646 original size:21 final size:21
Alignment explanation
Indices: 7123617--7123741 Score: 101
Period size: 21 Copynumber: 5.9 Consensus size: 21
7123607 ATCATTATAT
*
7123617 TTTAGGGTTTATGGTTTAGGG
1 TTTAAGGTTTATGGTTTAGGG
* *
7123638 TTTAAGGTTTAGGAGTTACTA--T
1 TTTAAGGTTTATG-GTT--TAGGG
*
7123660 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGTTTA-GGG
* * *
7123682 TTTAGGGATTATGGTTTATGG
1 TTTAAGGTTTATGGTTTAGGG
* ** *
7123703 TTTAAGGGTTGGGGTTTAAGG
1 TTTAAGGTTTATGGTTTAGGG
7123724 TTTAAGGTTTATGGTTTA
1 TTTAAGGTTTATGGTTTA
7123742 TATCTTATAA
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
19 2 0.03
21 46 0.57
22 30 0.38
24 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTATGGTTTAGGG
Found at i:7123685 original size:15 final size:15
Alignment explanation
Indices: 7123665--7123712 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
7123655 ACTATTTTAA
7123665 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
7123680 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
7123694 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
7123709 GGTT
1 GGTT
7123713 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:7127715 original size:43 final size:43
Alignment explanation
Indices: 7127572--7127930 Score: 322
Period size: 43 Copynumber: 8.5 Consensus size: 43
7127562 ATTTTTTTAC
* * *
7127572 AAGGTCATGTTCTTTAGCAGCATTTGTGGGAAAAGCGCCGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * * *
7127615 AAGGTCTAT-TT-TATAGTGGCATTTTTGGAAAAAGTGCCGCTA
1 AAGGTC-ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * **
7127657 AAGATC-TGTTTTATAGCGGCGTTTGTGGGAAAAGAGCCATTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * *
7127699 AAGGTCATGTTCTATAGCTGCGATTGTGGG-AGAGCGCTGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * * * *
7127741 AAGGTCATGTTCTATAGTGGGGTTTGTAGGAAAACCGTCTCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * ** *
7127784 AAAGTCATGTTCTATAGAGGCGTTTGTGGAAAAAATGCCACTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
7127827 AAGGTCA-----TATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * * *
7127865 AAAGTCATGTTCTATAGTGGCATTTATGGGAAAAGCGCTGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* *
7127908 AATGTCATGTTTTATAGCGGCGT
1 AAGGTCATGTTCTATAGCGGCGT
7127931 GTTTCTATAT
Statistics
Matches: 249, Mismatches: 57, Indels: 20
0.76 0.17 0.06
Matches are distributed among these distances:
38 32 0.13
40 1 0.00
41 2 0.01
42 91 0.37
43 121 0.49
44 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (43 bp):
AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
Found at i:7127897 original size:124 final size:124
Alignment explanation
Indices: 7127594--7127930 Score: 364
Period size: 124 Copynumber: 2.7 Consensus size: 124
7127584 TTTAGCAGCA
* * * *
7127594 TTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-TT-TATAGTGGCATTTTTGGAAAAAGTGCCGCT-
1 TTTGTGGGAAAAGCGCCGCTAAAGGTC-ATGTTCTATAGTGGCATTTATGGGAAAAGCG-CTCTA
* * *
7127656 AAAGATC-TGTTTTATAGCGGCGTTTGTGGGAAAAGAGCCATTAAAGGTCATGTTCTATAGCTGC
64 AAAG-TCATGTTTTATAGCGGCGTTTGTGGGAAAAAAGCCACTAAAGGTCA---T-TATAGCGGC
7127720 G
124 G
* * * ** * * *
7127721 ATTGTGGG-AGAGCGCTGCTAAAGGTCATGTTCTATAGTGGGGTTTGTAGGAAAACCGTCTCTAA
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGTGGCATTTATGGGAAAAGCG-CTCTAA
* *
7127785 AAGTCATGTTCTATAGAGGCGTTTGT-GGAAAAAATGCCACTAAAGGTCA-TATAGCGGCG
65 AAGTCATGTTTTATAGCGGCGTTTGTGGGAAAAAA-GCCACTAAAGGTCATTATAGCGGCG
*
7127844 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTATGGGAAAAGCGCTGCTAA
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGTGGCATTTATGGGAAAAGCGCT-CTAA
*
7127909 ATGTCATGTTTTATAGCGGCGT
65 AAGTCATGTTTTATAGCGGCGT
7127931 GTTTCTATAT
Statistics
Matches: 174, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
123 18 0.10
124 64 0.37
125 2 0.01
126 18 0.10
127 37 0.21
128 35 0.20
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (124 bp):
TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGTGGCATTTATGGGAAAAGCGCTCTAAA
AGTCATGTTTTATAGCGGCGTTTGTGGGAAAAAAGCCACTAAAGGTCATTATAGCGGCG
Found at i:7127909 original size:81 final size:81
Alignment explanation
Indices: 7127594--7127915 Score: 258
Period size: 81 Copynumber: 3.9 Consensus size: 81
7127584 TTTAGCAGCA
* * *
7127594 TTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-TT-TATAGTGGCATTTTTGGAAAAAGTGCCGCTA
1 TTTGTGGGAAAAGCGCCGCTAAAAGTC-ATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTA
**
7127657 AAGATCTGTTTTATAGCGGCG
65 AAG----GTCATATAGCGGCG
* ** * * * *
7127678 TTTGTGGGAAAAGAGCCATTAAAGGTCATGTTCTATAGCT-GCGA-TTGTGG-GAGAGCGCTGCT
1 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAG-TGGC-ATTTGTGGAAAAAGCGCCGCT
* *
7127740 AAAGGTCATGTTCTATAGTGGGG
64 AAAGGTCA-----TATAGCGGCG
* * * * * * ** *
7127763 TTTGTAGGAAAACCGTCTCTAAAAGTCATGTTCTATAGAGGCGTTTGTGGAAAAAATGCCACTAA
1 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAA
7127828 AGGTCATATAGCGGCG
66 AGGTCATATAGCGGCG
* * *
7127844 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTATGGGAAAAGCGCTGCTAA
1 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAA
*
7127909 ATGTCAT
66 AGGTCAT
7127916 GTTTTATAGC
Statistics
Matches: 184, Mismatches: 42, Indels: 27
0.73 0.17 0.11
Matches are distributed among these distances:
80 2 0.01
81 67 0.36
83 2 0.01
84 38 0.21
85 59 0.32
86 16 0.09
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAA
AGGTCATATAGCGGCG
Found at i:7128294 original size:17 final size:18
Alignment explanation
Indices: 7128258--7128295 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7128248 CCCTCTTTTT
7128258 TTTCTCACTCAGAATTTA
1 TTTCTCACTCAGAATTTA
* *
7128276 TTTCTCTCTCA-ACTTTA
1 TTTCTCACTCAGAATTTA
7128293 TTT
1 TTT
7128296 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTCACTCAGAATTTA
Found at i:7129108 original size:27 final size:27
Alignment explanation
Indices: 7129078--7129133 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
7129068 TGTTGGCAAC
* *
7129078 GTTGTTTAGGAAGATGTGTCAGGTGAT
1 GTTGTATAGGAAGATGTGTCAGGCGAT
* *
7129105 GTTGTATAGGGAGATGTGTCGGGCGAT
1 GTTGTATAGGAAGATGTGTCAGGCGAT
7129132 GT
1 GT
7129134 AACCACACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.05, G:0.41, T:0.34
Consensus pattern (27 bp):
GTTGTATAGGAAGATGTGTCAGGCGAT
Found at i:7131919 original size:19 final size:19
Alignment explanation
Indices: 7131897--7131936 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7131887 TCAAATTAAA
*
7131897 ACCATTCGTGCCATCAAAC
1 ACCATTCGTACCATCAAAC
*
7131916 ACCATTTGTACCATCAAAC
1 ACCATTCGTACCATCAAAC
7131935 AC
1 AC
7131937 ATACCAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.23
Consensus pattern (19 bp):
ACCATTCGTACCATCAAAC
Found at i:7133071 original size:23 final size:21
Alignment explanation
Indices: 7133045--7133094 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
7133035 CGGTAAGCTC
*
7133045 CTCTTGAGCTGATAAACAGTAAG
1 CTCTTGAGCT-A-AAAAAGTAAG
7133068 CTCTATTGAGCTAAAAAAGTAAG
1 CTC--TTGAGCTAAAAAAGTAAG
7133091 CTCT
1 CTCT
7133095 AACGAGCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
23 15 0.62
24 1 0.04
25 7 0.29
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (21 bp):
CTCTTGAGCTAAAAAAGTAAG
Found at i:7133095 original size:23 final size:24
Alignment explanation
Indices: 7133037--7133128 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
7133027 GCCATGATCG
* *
7133037 GTAAGCTCCTCTTGAGCTGATAAACA
1 GTAAGCT-CTATTGAGCTGA-AAAAA
7133063 GTAAGCTCTATTGAGCT-AAAAAA
1 GTAAGCTCTATTGAGCTGAAAAAA
** * *
7133086 GTAAGCTCTAACGAGCTGAGAATA
1 GTAAGCTCTATTGAGCTGAAAAAA
**
7133110 GTAAGCTCTAACGAGCTGA
1 GTAAGCTCTATTGAGCTGA
7133129 TATATCGGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
23 19 0.32
24 24 0.41
25 9 0.15
26 7 0.12
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (24 bp):
GTAAGCTCTATTGAGCTGAAAAAA
Found at i:7133117 original size:24 final size:24
Alignment explanation
Indices: 7133050--7133128 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
7133040 AGCTCCTCTT
* **
7133050 GAGCTGATAAACAGTAAGCTCTATT
1 GAGCTGA-AAAAAGTAAGCTCTAAC
7133075 GAGCT-AAAAAAGTAAGCTCTAAC
1 GAGCTGAAAAAAGTAAGCTCTAAC
* *
7133098 GAGCTGAGAATAGTAAGCTCTAAC
1 GAGCTGAAAAAAGTAAGCTCTAAC
7133122 GAGCTGA
1 GAGCTGA
7133129 TATATCGGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 19 0.40
24 24 0.50
25 5 0.10
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (24 bp):
GAGCTGAAAAAAGTAAGCTCTAAC
Found at i:7140539 original size:48 final size:45
Alignment explanation
Indices: 7140433--7140544 Score: 120
Period size: 48 Copynumber: 2.4 Consensus size: 45
7140423 TCATGTTTGT
*
7140433 GAGCTAGTGTAAGACATGTCTGCGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGCGACATGCATCAG-CAAATTATGA
* *
7140479 GAGCCAGTGTAAGACTATGTCTGGGACATGACATC-G-AAATTGAGATGA
1 GAGCTAGTGTAAGAC-ATGTCTGCGACATG-CATCAGCAAATT---ATGA
*
7140527 GTGCTAGTGTAAGACATG
1 GAGCTAGTGTAAGACATG
7140545 CATGCATCGG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
45 4 0.07
46 14 0.25
47 17 0.30
48 21 0.38
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGCGACATGCATCAGCAAATTATGA
Found at i:7141276 original size:16 final size:16
Alignment explanation
Indices: 7141255--7141286 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7141245 AAGATGTATT
7141255 GTCATGGTTAAATGAA
1 GTCATGGTTAAATGAA
7141271 GTCATGGTTAAATGAA
1 GTCATGGTTAAATGAA
7141287 TGTCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
GTCATGGTTAAATGAA
Found at i:7147029 original size:26 final size:26
Alignment explanation
Indices: 7147000--7147049 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7146990 TTGGGTGAAT
* * * *
7147000 TTTTTCTTCTTCTTCTTCTTTTTAAG
1 TTTTTATTCTGCTACTTATTTTTAAG
7147026 TTTTTATTCTGCTACTTATTTTTA
1 TTTTTATTCTGCTACTTATTTTTA
7147050 TTTCATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.12, C:0.16, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTTTATTCTGCTACTTATTTTTAAG
Found at i:7148509 original size:91 final size:91
Alignment explanation
Indices: 7148375--7148689 Score: 425
Period size: 92 Copynumber: 3.4 Consensus size: 91
7148365 GGATGGCCAT
* * * * *
7148375 ATTGCATTATACCGCATGTACGTTAGCTACGCTACGTATCTTTGACTGAACTGGCAATTTACTAC
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAATTTACTGC
7148440 AACCTATCGATATAGCGGATTACCGC
66 AACCTATCGATATAGCGGATTACCGC
* *
7148466 ATTGCACTGTACCATATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCA-ATTTACTG
* *
7148531 TAACCTATC-AGTATAGCGGATTACCGT
65 CAACCTATCGA-TATAGCGGATTACCGC
* * * * * * *
7148558 ATTGCACTGTACCGCATTTACGTTAGCTACGCTATGTACTTTTAACTGAACCGGCAATTTTATTG
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAA-TTTACTG
* *
7148623 CAACCTATCGGTATAGCTGATTACCGC
65 CAACCTATCGATATAGCGGATTACCGC
*
7148650 ATTGCACTGTACCACATGTACGTTAGCTACGCTATGTACC
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACC
7148690 ACTATCTGAT
Statistics
Matches: 195, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
91 52 0.27
92 143 0.73
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (91 bp):
ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAATTTACTGC
AACCTATCGATATAGCGGATTACCGC
Found at i:7148708 original size:184 final size:184
Alignment explanation
Indices: 7148360--7148715 Score: 493
Period size: 184 Copynumber: 1.9 Consensus size: 184
7148350 TAATATCGGC
* * *
7148360 ATAGCGGATGGCCATATTGCATTATACCGCATGTACGTTAGCTACGCTACGTATCTTTGACTGAA
1 ATAGCGGATGACCATATTGCACTATACCGCATGTACGTTAGCTACGCTACGTATCTTTAACTGAA
* *
7148425 CTGGCAATTTACTACAACCTATCGATATAGCGGATTACCGCATTGCACTGTACCATATGTACGTT
66 CCGGCAATTTACTACAACCTATCGATATAGCGGATTACCGCATTGCACTGTACCACATGTACGTT
** *
7148490 AGCTACGCTACGTACCTTTGACTGAACTGGCAGTTT-TACTGTAACCTATCAGT
131 AGCTACGCTACGTACCACTGACTGAACAGGCAGTTTATACTGTAACCTATCAGT
* * * * *
7148543 ATAGCGGATTACCGTATTGCACTGTACCGCATTTACGTTAGCTACGCTATGTA-CTTTTAACTGA
1 ATAGCGGATGACCATATTGCACTATACCGCATGTACGTTAGCTACGCTACGTATC-TTTAACTGA
* * * *
7148607 ACCGGCAATTTTATTGCAACCTATCGGTATAGCTGATTACCGCATTGCACTGTACCACATGTACG
65 ACCGGCAA-TTTACTACAACCTATCGATATAGCGGATTACCGCATTGCACTGTACCACATGTACG
* *
7148672 TTAGCTACGCTATGTACCACT-ATCTGATCAGGCAGTTTATACTG
129 TTAGCTACGCTACGTACCACTGA-CTGAACAGGCAGTTTATACTG
7148716 CATGTCTGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
182 1 0.01
183 62 0.41
184 82 0.55
185 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (184 bp):
ATAGCGGATGACCATATTGCACTATACCGCATGTACGTTAGCTACGCTACGTATCTTTAACTGAA
CCGGCAATTTACTACAACCTATCGATATAGCGGATTACCGCATTGCACTGTACCACATGTACGTT
AGCTACGCTACGTACCACTGACTGAACAGGCAGTTTATACTGTAACCTATCAGT
Found at i:7156725 original size:17 final size:18
Alignment explanation
Indices: 7156688--7156731 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
7156678 AAGGCAAAGT
7156688 AATTTGGTATGAAATTTG
1 AATTTGGTATGAAATTTG
7156706 AATTTGGT-TGATAA-TTG
1 AATTTGGTATGA-AATTTG
7156723 AATTATGGT
1 AATT-TGGT
7156732 GTCGATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (18 bp):
AATTTGGTATGAAATTTG
Found at i:7161322 original size:21 final size:21
Alignment explanation
Indices: 7161298--7161339 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7161288 TATTTATCAC
7161298 AAAGACAAATGAAATAGTAAT
1 AAAGACAAATGAAATAGTAAT
7161319 AAAGACAAATGAAATAGTAAT
1 AAAGACAAATGAAATAGTAAT
7161340 TAAATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (21 bp):
AAAGACAAATGAAATAGTAAT
Found at i:7164997 original size:90 final size:90
Alignment explanation
Indices: 7164839--7165004 Score: 212
Period size: 90 Copynumber: 1.8 Consensus size: 90
7164829 ATGCCAAAGC
* * * *
7164839 CATGTCCCTGACATGGTCTTACATGGGACTACATGTCGATGCCATATCCAAGATATGGTTCTATA
1 CATGTCCCAGACATGGTCTTACACGGGACTACATGTCGATGCCATATCCAAGACATGGTTCTACA
*
7164904 CGAAGTCTCATGTTGGTGCCGATGA
66 CGAAATCTCATGTTGGTGCCGATGA
* **
7164929 CATGTCCCAGACATGGTCTTACACGGGACCTCACAT-T-GATGCCATGTCTTAGACATGG-TCTT
1 CATGTCCCAGACATGGTCTTACACGGGA-CT-ACATGTCGATGCCATATCCAAGACATGGTTC-T
7164991 ACACGAAATCTCAT
63 ACACGAAATCTCAT
7165005 ATCAATGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
89 2 0.03
90 56 0.86
91 3 0.05
92 4 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (90 bp):
CATGTCCCAGACATGGTCTTACACGGGACTACATGTCGATGCCATATCCAAGACATGGTTCTACA
CGAAATCTCATGTTGGTGCCGATGA
Found at i:7165013 original size:42 final size:42
Alignment explanation
Indices: 7164933--7165036 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
7164923 CGATGACATG
** ** *
7164933 TCCCAGACATGGTCTTACACGGGACCTCACATTGATGCCATG
1 TCCCAGACATGGTCTTACACGAAACCTCACATCAATGCCATA
** * *
7164975 TCTTAGACATGGTCTTACACGAAATCTCATATCAATGCCATA
1 TCCCAGACATGGTCTTACACGAAACCTCACATCAATGCCATA
*
7165017 TCCCAGATATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
7165037 TGGCATACAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAACCTCACATCAATGCCATA
Found at i:7165082 original size:48 final size:48
Alignment explanation
Indices: 7165008--7165180 Score: 195
Period size: 48 Copynumber: 3.6 Consensus size: 48
7164998 ATCTCATATC
* * *
7165008 AATGCCATATCCCAGATATGGTCTTACACTGGCATACATAACAACGCA
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCAACGCA
* * *
7165056 AATGCCATGTCCCAGACATGGCCTTACACTGGCCCT-CATATCAACGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTGG-CATACATATCAACGCA
* * * * * *
7165104 AATGCTATGTCCCACACATGATCTTACACTGGCACACATATCAACACT
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCAACGCA
* * *
7165152 GATGCCATGTCCTAGACGTGGTCTTACAC
1 AATGCCATGTCCCAGACATGGTCTTACAC
7165181 GGGATCTTAT
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 100 0.97
49 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
AATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCAACGCA
Found at i:7173599 original size:41 final size:42
Alignment explanation
Indices: 7173553--7173652 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 42
7173543 TGACACATAT
** *
7173553 AACAAAATAATA-AGTAATACATACCATATTTAAATGTAATA
1 AACAAAATAATACACCAAAACATACCATATTTAAATGTAATA
* * *
7173594 AAC-AAATTATACCCCAAAAGATACCATATTTAAATGTAATA
1 AACAAAATAATACACCAAAACATACCATATTTAAATGTAATA
*
7173635 AAC-AAATTATAC-CCAAAA
1 AACAAAATAATACACCAAAA
7173653 GATTTGTTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 13 0.25
41 39 0.75
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (42 bp):
AACAAAATAATACACCAAAACATACCATATTTAAATGTAATA
Found at i:7174296 original size:42 final size:42
Alignment explanation
Indices: 7174190--7174302 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
7174180 ATGCTATGTG
* * * * * *
7174190 CCAGACATGGTCTTACACGAGACCTCACATCCATGCCATGTC
1 CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
7174232 CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
1 CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
* * *
7174274 CCAGATATGGTCTTACATGAAATCACATA
1 CCAGACATGGTCTTACACGAAATCTCATA
7174303 CCGATGCTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
Found at i:7174326 original size:132 final size:132
Alignment explanation
Indices: 7174093--7174336 Score: 285
Period size: 132 Copynumber: 1.8 Consensus size: 132
7174083 AATTCCAAAT
* ** * * *
7174093 CCATGTCCTCGACATGGTCTTACATGGGACTACATATCGATGCCATATCCCAGATATGGTCTTAT
1 CCATGTCCTCGACATGGTCTTACACGAAACTACATATCAACGCCATATCCCAGATATGGTCTTAC
* * ** * * * * *
7174158 ACGAAGCCTCATGTCGGTGCTTATGCTATGTGCCAGACATGGTCTTACACGAGACCTCACATCCA
66 ACGAAACCACATACCGATGCTGACGCCATATGCCAGACATGGTCTTACACGAGACCTCACATCCA
7174223 TG
131 TG
7174225 CCATGTCC-CAGACATGGTCTTACACGAAATCT-CATATCAACGCCATATCCCAGATATGGTCTT
1 CCATGTCCTC-GACATGGTCTTACACGAAA-CTACATATCAACGCCATATCCCAGATATGGTCTT
* * * *
7174288 ACATGAAATCACATACCGATGCTGACGCCATATTCCAGATATGGTCTTA
64 ACACGAAACCACATACCGATGCTGACGCCATATGCCAGACATGGTCTTA
7174337 TGCTGGCATA
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
131 1 0.01
132 88 0.97
133 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (132 bp):
CCATGTCCTCGACATGGTCTTACACGAAACTACATATCAACGCCATATCCCAGATATGGTCTTAC
ACGAAACCACATACCGATGCTGACGCCATATGCCAGACATGGTCTTACACGAGACCTCACATCCA
TG
Found at i:7174411 original size:48 final size:48
Alignment explanation
Indices: 7174330--7174435 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
7174320 TTCCAGATAT
** * * ** *
7174330 GGTCTTATGCTGGCATACATATCAGCGTGGATGCAATATCCCAAATAG
1 GGTCTTACACTGGCACACATATCAACGCCGATGCAATATCCCAAACAG
* * * *
7174378 GGTCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACAT
1 GGTCTTACACTGGCACACATATCAACGCCGATGCAATATCCCAAACAG
7174426 GGTCTTACAC
1 GGTCTTACAC
7174436 GGGATCTCAT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (48 bp):
GGTCTTACACTGGCACACATATCAACGCCGATGCAATATCCCAAACAG
Found at i:7189643 original size:11 final size:11
Alignment explanation
Indices: 7189627--7189651 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7189617 ATATGATATT
7189627 TTATTATTTTA
1 TTATTATTTTA
7189638 TTATTATTTTA
1 TTATTATTTTA
7189649 TTA
1 TTA
7189652 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:7193051 original size:28 final size:28
Alignment explanation
Indices: 7193011--7193065 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
7193001 ATTCATAACT
* *
7193011 ATTTTCAAACTTATTCAATGCTTATTAA
1 ATTTTCAAACTTAGTCAATACTTATTAA
7193039 ATTTTCAAACTTAGTCAATACTTATTA
1 ATTTTCAAACTTAGTCAATACTTATTA
7193066 GTGGCGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTTTCAAACTTAGTCAATACTTATTAA
Found at i:7195581 original size:24 final size:25
Alignment explanation
Indices: 7195530--7195583 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
7195520 AAATCTAAGG
*
7195530 TTTCATTTTTCTTCCTCCTCTTTTT
1 TTTCATTTTTCTTCCTCCCCTTTTT
*
7195555 TTTC-TTTTTCTT-TTCCCCTTTTCT
1 TTTCATTTTTCTTCCTCCCCTTTT-T
7195579 TTTCA
1 TTTCA
7195584 ACAGAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 8 0.32
24 13 0.52
25 4 0.16
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTCATTTTTCTTCCTCCCCTTTTT
Found at i:7215479 original size:23 final size:23
Alignment explanation
Indices: 7215452--7215498 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
7215442 TTAAATTAAG
7215452 TAAAAAATAA-TATAAA-T-TTTA
1 TAAAAAA-AATTATAAAGTGTTTA
7215473 TAAAAAAAATTATAAAGTGTTTA
1 TAAAAAAAATTATAAAGTGTTTA
7215496 TAA
1 TAA
7215499 TTTGTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 1 0.04
23 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAAAAAAATTATAAAGTGTTTA
Found at i:7216237 original size:20 final size:20
Alignment explanation
Indices: 7216173--7216237 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
7216163 AAATTAAATA
*
7216173 ATTGTATCTCTTGGATTAAT
1 ATTGTATCTCTTGGTTTAAT
* *
7216193 ATTGCAT-T-TT--TTCATAT
1 ATTGTATCTCTTGGTTTA-AT
7216210 AGTTGTATCTCTTGGTTTAAT
1 A-TTGTATCTCTTGGTTTAAT
7216231 ATTGTAT
1 ATTGTAT
7216238 TTTTTTTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 7 0.21
19 2 0.06
20 14 0.41
21 3 0.09
22 3 0.09
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (20 bp):
ATTGTATCTCTTGGTTTAAT
Found at i:7219587 original size:20 final size:20
Alignment explanation
Indices: 7219539--7219589 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
7219529 TAGAGTAGGA
*
7219539 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
* *
7219559 ATTTTGATACCTTAAGAAAT
1 ATATCGATACCTTAAGAAAT
*
7219579 GTATCGATACC
1 ATATCGATACC
7219590 GGACCGATAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:7219937 original size:31 final size:31
Alignment explanation
Indices: 7219901--7219962 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
7219891 ATAGATTGCT
*
7219901 CCCCCT-TAATAAAAGTCATTTTAAATTTAAG
1 CCCCCTAT-ATAAAAATCATTTTAAATTTAAG
**
7219932 CCCCCTATATAAAAATCATTTTCTATTTAAG
1 CCCCCTATATAAAAATCATTTTAAATTTAAG
7219963 GCATAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (31 bp):
CCCCCTATATAAAAATCATTTTAAATTTAAG
Found at i:7233382 original size:25 final size:25
Alignment explanation
Indices: 7233354--7233406 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
7233344 GGTCAAACAA
7233354 AATACACCACAAAGGCATCATACAG
1 AATACACCACAAAGGCATCATACAG
** **
7233379 AATATGCTGCAAAGGCATCATACAG
1 AATACACCACAAAGGCATCATACAG
7233404 AAT
1 AAT
7233407 CATGTGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (25 bp):
AATACACCACAAAGGCATCATACAG
Found at i:7235840 original size:28 final size:28
Alignment explanation
Indices: 7235809--7236020 Score: 212
Period size: 28 Copynumber: 7.6 Consensus size: 28
7235799 AGTCCCTGTG
*
7235809 GACTCTTTTTTGAAAGATAATTCATGCA
1 GACTCTTTCTTGAAAGATAATTCATGCA
*
7235837 GACTCTTTTTTGAAAGATAATTCATGCA
1 GACTCTTTCTTGAAAGATAATTCATGCA
* *
7235865 GACTCTTTCTTGAAAAATAATTCATGCG
1 GACTCTTTCTTGAAAGATAATTCATGCA
7235893 GACTCTTTCTTGAAAGATAATTCATGCA
1 GACTCTTTCTTGAAAGATAATTCATGCA
* * * * *
7235921 -AGCTCTTGCTTGAAAAATAATCCTTGTA
1 GA-CTCTTTCTTGAAAGATAATTCATGCA
* * * * **
7235949 AACTCTTGCTTGAAAGACAATTCAAGTG
1 GACTCTTTCTTGAAAGATAATTCATGCA
* * * * **
7235977 GACTCTTACTTGAATGATAGTCCATGTG
1 GACTCTTTCTTGAAAGATAATTCATGCA
7236005 GACTCTTTCTT-AAAGA
1 GACTCTTTCTTGAAAGA
7236021 ATAGTCCCTG
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
27 5 0.03
28 151 0.96
29 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (28 bp):
GACTCTTTCTTGAAAGATAATTCATGCA
Found at i:7236027 original size:28 final size:29
Alignment explanation
Indices: 7235782--7236023 Score: 180
Period size: 28 Copynumber: 8.7 Consensus size: 29
7235772 GTTTATGCGA
* * * *
7235782 ACTCTTGCTTG-AAGAATAGTCCCTGTGG
1 ACTCTTTCTTGAAAGAATAATTCATGTGG
* **
7235810 ACTCTTTTTTGAAAG-ATAATTCATGCAG
1 ACTCTTTCTTGAAAGAATAATTCATGTGG
* **
7235838 ACTCTTTTTTGAAAG-ATAATTCATGCAG
1 ACTCTTTCTTGAAAGAATAATTCATGTGG
*
7235866 ACTCTTTCTTGAAA-AATAATTCATGCGG
1 ACTCTTTCTTGAAAGAATAATTCATGTGG
**
7235894 ACTCTTTCTTGAAAG-ATAATTCATG-CA
1 ACTCTTTCTTGAAAGAATAATTCATGTGG
* * * **
7235921 AGCTCTTGCTTGAAA-AATAATCCTTGTAA
1 A-CTCTTTCTTGAAAGAATAATTCATGTGG
* * *
7235950 ACTCTTGCTTGAAAG-ACAATTCAAGTGG
1 ACTCTTTCTTGAAAGAATAATTCATGTGG
* * * *
7235978 ACTCTTACTTGAATG-ATAGTCCATGTGG
1 ACTCTTTCTTGAAAGAATAATTCATGTGG
7236006 ACTCTTTCTT-AAAGAATA
1 ACTCTTTCTTGAAAGAATA
7236024 GTCCCTGCAT
Statistics
Matches: 177, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.02
28 168 0.95
29 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (29 bp):
ACTCTTTCTTGAAAGAATAATTCATGTGG
Found at i:7245956 original size:27 final size:27
Alignment explanation
Indices: 7245877--7245983 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 27
7245867 AAACATACAT
* * * *
7245877 CACATAGGGGTAAAACAGTCATCTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
7245904 CATAAAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
7245931 CACATAAGGGCAAAACAGTCACTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
7245958 CTCATAAAGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
7245984 TTAATTAAGA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:7246125 original size:18 final size:17
Alignment explanation
Indices: 7246099--7246132 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7246089 CCATATTGCG
7246099 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
7246117 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
7246133 AAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:7254641 original size:43 final size:43
Alignment explanation
Indices: 7254569--7254675 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
7254559 GTTTATCTAA
* * *
7254569 AAAAATGCCGTTAAAGGTCATGACCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTCTCCC
* * *
7254612 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGATGTTTCTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTCTCCC
** *
7254655 AAAAACGTAGCTAAATGTCAT
1 AAAAACGCCGCTAAAGGTCAT
7254676 AATTTAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTCTCCC
Found at i:7255784 original size:16 final size:16
Alignment explanation
Indices: 7255763--7255793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7255753 CCTTACACCT
*
7255763 AAAGATTTTTTAAAGA
1 AAAGATTTTTCAAAGA
7255779 AAAGATTTTTCAAAG
1 AAAGATTTTTCAAAG
7255794 TATGATTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (16 bp):
AAAGATTTTTCAAAGA
Found at i:7258789 original size:179 final size:179
Alignment explanation
Indices: 7258488--7259516 Score: 1649
Period size: 179 Copynumber: 5.8 Consensus size: 179
7258478 CTCCAATTGC
* * ** *
7258488 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAAGCTAGTGGCTAAAATCTGCTCCATTGTTGACA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATCTGCTCCATTGCCGATA
* * * * *
7258553 CATGGAGATAAGATTGACCATTTTC---GATCTACTCCACTGCGACTTCAGGGAGATAAGATAC-
65 CATGGAGATAAGATTCACCATCTGCAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGAT-CT
*
7258614 TCAATTTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTC-TATCTT
129 TCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAT-TCTT
* * * * *
7258665 CAACCTACTCTCTTGCTACCTTAAAGAGATAAGGCTGGTGGTAAAATCTACTCCATTACCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* * *
7258730 ATGGAGATAAGATTCACCATCTGCGAAGATCTACTCCACTGGCACTTCAGGGAGATAAGATCTTC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
* * *
7258795 AATCTTCAGTCTGCTTTCTTGCTACCTTAAAAAGATAAGACTTATTCTT
131 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
* *
7258844 CAACCTGCTCTCTTGCTGCCTCAAAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
*
7258909 ATGGAGATAAGATTCACCATCTGTAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
7258974 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
131 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
7259023 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* *
7259088 ATGAAGATAAGATTCACCATCTGTAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
7259153 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
131 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
7259202 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* *
7259267 ATGAAGATAAGATTCACCATCTGTAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
7259332 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
131 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
7259381 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* ** * * *
7259446 ATGGAGATAAGATTCACCATCTGCGAAGATCTGTTTCG-TTG-CAATCTCAGGGAGATAAGATCC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCT-ACTCGACTGCCACT-TCAGGGAGATAAGATCT
7259509 TCAATCTT
129 TCAATCTT
7259517 TACCAATGCC
Statistics
Matches: 803, Mismatches: 42, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
176 40 0.05
177 36 0.04
178 4 0.00
179 719 0.90
180 4 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (179 bp):
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
Found at i:7258852 original size:43 final size:45
Alignment explanation
Indices: 7258782--7258876 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 45
7258772 CACTTCAGGG
** * *
7258782 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTTAAAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAAAA
* * *
7258827 AGATAAGA-CTT-ATTCTTCAACCTGCTCTCTTGCTGCCTCAAAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAAAA
7258870 AGATAAG
1 AGATAAG
7258877 GCTGGTGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 32 0.74
44 3 0.07
45 8 0.19
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAAAA
Found at i:7259031 original size:43 final size:45
Alignment explanation
Indices: 7258961--7259055 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
7258951 CACTTCAGGG
** *
7258961 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* *
7259006 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
7259049 AGATAAG
1 AGATAAG
7259056 GCTGGTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:7259210 original size:43 final size:45
Alignment explanation
Indices: 7259140--7259234 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
7259130 CACTTCAGGG
** *
7259140 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* *
7259185 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
7259228 AGATAAG
1 AGATAAG
7259235 GCTGGTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:7259389 original size:43 final size:45
Alignment explanation
Indices: 7259319--7259413 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
7259309 CACTTCAGGG
** *
7259319 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* *
7259364 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
7259407 AGATAAG
1 AGATAAG
7259414 GCTGGTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:7260723 original size:53 final size:54
Alignment explanation
Indices: 7260640--7260796 Score: 205
Period size: 51 Copynumber: 2.9 Consensus size: 54
7260630 ATTTTCTCTT
7260640 TTTTCATTTTTATTATTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG-CCC
1 TTTTCATTTTTA-T-TTG-GTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGACCC
* * *
7260696 TTTTCATTTTTATTTGGTTTCAAAGCGCCCTTTACGAGTTTTCACTTTGGACCC
1 TTTTCATTTTTATTTGGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGACCC
***
7260750 TTTT--TTTTT-TAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG
1 TTTTCATTTTTATTTGGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG
7260797 GCTTCCCTTG
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
51 32 0.35
52 5 0.05
53 31 0.34
54 10 0.11
55 1 0.01
56 12 0.13
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (54 bp):
TTTTCATTTTTATTTGGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGACCC
Found at i:7262253 original size:15 final size:15
Alignment explanation
Indices: 7262217--7262269 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
7262207 ACATAACATA
* *
7262217 TATATAAAAAAACAA
1 TATATAAAAAAATAT
*
7262232 TAAATAAAAAAATAT
1 TATATAAAAAAATAT
* *
7262247 TATATAATAAAATGT
1 TATATAAAAAAATAT
*
7262262 AATATAAA
1 TATATAAA
7262270 TATATAAGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
TATATAAAAAAATAT
Found at i:7262347 original size:11 final size:11
Alignment explanation
Indices: 7262247--7262348 Score: 59
Period size: 11 Copynumber: 8.8 Consensus size: 11
7262237 AAAAAAATAT
7262247 TATATAATAAA
1 TATATAATAAA
*
7262258 -ATGTAATATAAA
1 TATAT-A-ATAAA
*
7262270 TATATAAGAAA
1 TATATAATAAA
7262281 TATAATAGATATAA
1 TAT-ATA-ATA-AA
*
7262295 TATAAAATAACA
1 TATATAATAA-A
*
7262307 TGTA-AA-ACAA
1 TATATAATA-AA
7262317 TATATATATAAA
1 TATATA-ATAAA
7262329 TA-ATTAATAAA
1 TATA-TAATAAA
7262340 TATATAATA
1 TATATAATA
7262349 TATGTGAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
10 8 0.11
11 26 0.37
12 24 0.34
13 8 0.11
14 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (11 bp):
TATATAATAAA
Found at i:7264090 original size:83 final size:83
Alignment explanation
Indices: 7263934--7264184 Score: 342
Period size: 83 Copynumber: 3.0 Consensus size: 83
7263924 GCCGAATCAA
* * ** * * * * *
7263934 CTTGAATCCGTTTGAGAATGTTTGAGAGTTATATCTACCA-GTCCTTGATTTGTCCCTTGTAAGC
1 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
7263998 ACAAGGATGCCAAACCAT
66 ACAAGGATGCCAAACCAT
* *
7264016 CTTGAGTTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCATTGTAAGC
1 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
7264081 ACAAGGATGCCAAACCAT
66 ACAAGGATGCCAAACCAT
* *
7264099 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAAC
1 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
* * * *
7264164 AAAAGAATACCAAATCAT
66 ACAAGGATGCCAAACCAT
7264182 CTT
1 CTT
7264185 AGATCTGCTT
Statistics
Matches: 149, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 32 0.21
83 117 0.79
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (83 bp):
CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
ACAAGGATGCCAAACCAT
Found at i:7264320 original size:119 final size:119
Alignment explanation
Indices: 7264109--7264581 Score: 761
Period size: 119 Copynumber: 4.0 Consensus size: 119
7264099 CTTGAGTCTG
* * * *
7264109 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACAAAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
7264174 CAAATCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
7264228 TTTGAGAACGTCTGAGAG-CAAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACACAAGAATA
1 TTTGAGAACATCTGAGAGTC-AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATA
* *
7264292 CCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
7264347 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
7264412 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
7264466 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* **
7264531 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
7264582 GTCTTCAATT
Statistics
Matches: 329, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
118 3 0.01
119 325 0.99
120 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:7276514 original size:15 final size:15
Alignment explanation
Indices: 7276468--7276514 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
7276458 TGATATACAT
7276468 AACATATATATAAAAA
1 AACA-ATATATAAAAA
*
7276484 AACAATAAATAAAAA
1 AACAATATATAAAAA
* *
7276499 AA-ATTATATAATAA
1 AACAATATATAAAAA
7276513 AA
1 AA
7276515 TGTAATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.41
15 12 0.44
16 4 0.15
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (15 bp):
AACAATATATAAAAA
Found at i:7276603 original size:11 final size:11
Alignment explanation
Indices: 7276460--7276604 Score: 54
Period size: 11 Copynumber: 12.7 Consensus size: 11
7276450 GCGATACATG
7276460 ATATACATAACAT
1 ATATA-ATAA-AT
*
7276473 ATAT-ATAAAA
1 ATATAATAAAT
* *
7276483 AAACAATAAAT
1 ATATAATAAAT
*
7276494 A-A-AAAAAATT
1 ATATAATAAA-T
7276504 ATATAATAAA-
1 ATATAATAAAT
*
7276514 ATGTAATATAA-
1 ATATAATA-AAT
7276525 ATATATATGAAAT
1 ATATA-AT-AAAT
7276538 ATAATAGATATAAT
1 AT-ATA-ATA-AAT
*
7276552 ATAAAATAACAT
1 ATATAATAA-AT
*
7276564 GTA-AA-ACAAT
1 ATATAATA-AAT
7276574 ATATATATAAAT
1 ATATA-ATAAAT
7276586 A-ATTAATAAAT
1 ATA-TAATAAAT
7276597 ATATAATA
1 ATATAATA
7276605 TATGTGAAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 36
0.68 0.08 0.24
Matches are distributed among these distances:
9 5 0.05
10 18 0.17
11 35 0.34
12 24 0.23
13 11 0.11
14 10 0.10
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (11 bp):
ATATAATAAAT
Found at i:7278291 original size:80 final size:82
Alignment explanation
Indices: 7278164--7278362 Score: 266
Period size: 81 Copynumber: 2.5 Consensus size: 82
7278154 TACCAGTCTC
* *
7278164 GATTT-TTCCTTGTAAG-A-CAGGATGCCAAACCATCTTGAGTTGTTTGAGAACA-TTGAGAGTC
1 GATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTTGAGTTGTTTGAGAAAATTTGAGAGTC
7278225 ATATCTGCAATGTCCTA
66 ATATCTGCAATGTCCTA
7278242 GATTTGTTCC-TGTAAGCATAAGGATGCC-AACCATCTTGAGTCTGTTTGAGAAAATTTGAGAGT
1 GATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTTGAGT-TGTTTGAGAAAATTTGAGAGT
* *
7278305 CATATTTGCAATGTCCTC
65 CATATCTGCAATGTCCTA
* * * * *
7278323 GATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
1 GATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTTG
7278363 GATCTGCTTC
Statistics
Matches: 105, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
78 11 0.10
79 18 0.17
80 19 0.18
81 34 0.32
82 14 0.13
83 9 0.09
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (82 bp):
GATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTTGAGTTGTTTGAGAAAATTTGAGAGTC
ATATCTGCAATGTCCTA
Found at i:7278743 original size:119 final size:119
Alignment explanation
Indices: 7278315--7278757 Score: 667
Period size: 119 Copynumber: 3.7 Consensus size: 119
7278305 CATATTTGCA
*
7278315 ATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAA
1 ATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAA
* * * *
7278380 ACATCT-AAGGTTAGATCTGCCATATTTGAGAATGTCTGAGAGCCAAATCTGCT
66 ACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAAAGTCAAATCTGCT
* *
7278433 ATGTCTTCAATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAA
1 ATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAA
* * * *
7278498 ACATCTCAAGGTTAGATCTGTTATATTTGAGAACATCT-AAGAGTCAAATCTACT
66 ACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAA-AGTCAAATCTGCT
* * *
7278552 ATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATTATCTTGGATCTGCTTCAGTAGAA
1 ATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAA
7278617 ACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAAAGTCAAATCTGCT
66 ACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAAAGTCAAATCTGCT
* * * *
7278671 ATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTAGATCTGCTTCAGCAAAA
1 ATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAA
**
7278736 ATGTCTGAA-GTCTAGATCTGCT
66 ACATCTGAAGGT-TAGATCTGCT
7278758 GTCTTCAATT
Statistics
Matches: 294, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
118 71 0.24
119 221 0.75
120 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (119 bp):
ATGTCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAA
ACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAAAGTCAAATCTGCT
Found at i:7301487 original size:57 final size:57
Alignment explanation
Indices: 7301421--7301535 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
7301411 TAGAGTTTTT
7301421 TTTTGTTAATAAGATAGTTTGTATGCAAGTATGAATGATGATTTTATTGAGTGAAAG
1 TTTTGTTAATAAGATAGTTTGTATGCAAGTATGAATGATGATTTTATTGAGTGAAAG
7301478 TTTTGTTAATAAGATAGTTTGTATGCAAGTATGAATGATGATTTTATTGAGTGAAAG
1 TTTTGTTAATAAGATAGTTTGTATGCAAGTATGAATGATGATTTTATTGAGTGAAAG
7301535 T
1 T
7301536 ATGTTATCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.43
Consensus pattern (57 bp):
TTTTGTTAATAAGATAGTTTGTATGCAAGTATGAATGATGATTTTATTGAGTGAAAG
Found at i:7305500 original size:33 final size:31
Alignment explanation
Indices: 7305420--7305500 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
7305410 CTTCCTGCAT
7305420 TAAAATCCAACCAAAAACAACAAATATAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
7305451 TGAAATCCAACCAAAAACAGCAAATGTAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
7305482 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
7305501 TATTAAATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 28 0.67
33 14 0.33
ACGTcount: A:0.60, C:0.20, G:0.06, T:0.14
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:7311172 original size:9 final size:9
Alignment explanation
Indices: 7311158--7311333 Score: 71
Period size: 9 Copynumber: 20.0 Consensus size: 9
7311148 TATGTATTAC
*
7311158 GTAAGTTAA
1 GTAAGTTAT
*
7311167 GTAAGTTTT
1 GTAAGTTAT
7311176 GTAAGTTAT
1 GTAAGTTAT
*
7311185 GTAAGTCAT
1 GTAAGTTAT
* *
7311194 GATATGATAT
1 G-TAAGTTAT
* *
7311204 -AAATTTAT
1 GTAAGTTAT
*
7311212 GTAAGGTAT
1 GTAAGTTAT
7311221 GTAAGTTAT
1 GTAAGTTAT
*
7311230 GTAAATTAT
1 GTAAGTTAT
* **
7311239 GATATGAAAT
1 G-TAAGTTAT
* *
7311249 AT-ATTTAT
1 GTAAGTTAT
*
7311257 GT-A-TTAC
1 GTAAGTTAT
*
7311264 GCAAGTTAT
1 GTAAGTTAT
7311273 GTAAGTTAT
1 GTAAGTTAT
*
7311282 -TATA-TGAT
1 GTA-AGTTAT
* *
7311290 ATATATTTAT
1 GTA-AGTTAT
7311300 GT-A-TTAT
1 GTAAGTTAT
7311307 GTAAGTTAT
1 GTAAGTTAT
**
7311316 GTAAGTTGC
1 GTAAGTTAT
7311325 GTAAGTTAT
1 GTAAGTTAT
7311334 TATATGATAT
Statistics
Matches: 120, Mismatches: 37, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
7 10 0.08
8 16 0.13
9 81 0.68
10 13 0.11
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:7311281 original size:52 final size:52
Alignment explanation
Indices: 7311142--7311377 Score: 199
Period size: 52 Copynumber: 4.7 Consensus size: 52
7311132 TTTTCAAGTG
* * * *
7311142 TATATTTATGTATTACGTAAGTTAAGTAAGTTTTGTAAGTTATGTAAGTCATGATA
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAATTATG--A-T-ATGATA
** * *
7311198 TGATA--TAAAT-TTATGTAAGGTATGTAAGTTATGTAAATTATGATATGAAA
1 T-ATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAATTATGATATGATA
* *
7311248 TATATTTATGTATTACGCAAGTTATGTAAG---T-T--A-T-T-ATATGATA
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAATTATGATATGATA
** * *
7311291 TATATTTATGTATTATGTAAGTTATGTAAGTTGCGTAAGTTATTATATGATA
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAATTATGATATGATA
* *
7311343 TATATTTATGTATTATGTAAGTTACGTAAGCTATG
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATG
7311378 ATATCATGTA
Statistics
Matches: 145, Mismatches: 22, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
43 35 0.24
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 4 0.03
50 7 0.05
51 5 0.03
52 55 0.38
54 27 0.19
55 3 0.02
56 1 0.01
57 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (52 bp):
TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAATTATGATATGATA
Found at i:7311287 original size:43 final size:43
Alignment explanation
Indices: 7311175--7311381 Score: 216
Period size: 43 Copynumber: 4.6 Consensus size: 43
7311165 AAGTAAGTTT
* * *
7311175 TGTAAGTTATGTAAGTCATGATATGATATAAATTTATGTAAGGTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGT-A-TTA
* *
7311220 TGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTA
* * *
7311263 CGCAAGTTATGTAAGTTATTATATGATATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTA
*
7311306 TGTAAGTTATGTAAGTTGCGTAAGTTATTATATGATATATATTTATGTATTA
1 TGTAAG---T-T-A--T--GTAAGTTATGATATGATATATATTTATGTATTA
* *
7311358 TGTAAGTTACGTAAGCTATGATAT
1 TGTAAGTTATGTAAGTTATGATAT
7311382 CATGTATTTA
Statistics
Matches: 138, Mismatches: 15, Indels: 20
0.80 0.09 0.12
Matches are distributed among these distances:
43 56 0.41
44 1 0.01
45 35 0.25
46 1 0.01
47 2 0.01
48 2 0.01
49 1 0.01
50 1 0.01
52 39 0.28
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (43 bp):
TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTA
Found at i:7311348 original size:95 final size:95
Alignment explanation
Indices: 7311208--7311381 Score: 249
Period size: 95 Copynumber: 1.8 Consensus size: 95
7311198 TGATATAAAT
* *
7311208 TTATGTAAGGTATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTACGCAAGTTAT
1 TTATGTAAGGTATGTAAGTTACGTAAATTATGATATGAAATATATTTATGTATTACGCAAGTTAC
* *
7311273 GTAAGTTATTATATGATATATATTTATGTA
66 GTAAGCTATGATATGATATATATTTATGTA
* * * * * * *
7311303 TTATGTAAGTTATGTAAGTTGCGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTAC
1 TTATGTAAGGTATGTAAGTTACGTAAATTATGATATGAAATATATTTATGTATTACGCAAGTTAC
7311368 GTAAGCTATGATAT
66 GTAAGCTATGATAT
7311382 CATGTATTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 68 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (95 bp):
TTATGTAAGGTATGTAAGTTACGTAAATTATGATATGAAATATATTTATGTATTACGCAAGTTAC
GTAAGCTATGATATGATATATATTTATGTA
Done.