Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 42 of 211
Found at i:11191237 original size:36 final size:34
Alignment explanation
Indices: 11191198--11191376 Score: 121
Period size: 36 Copynumber: 5.1 Consensus size: 34
11191188 ATAAAAATAA
*
11191198 AAAAGAATCCGTTTTTTAAAATTTTTCGTGTTTTC
1 AAAA-AATCCGTTTTTTAAAAATTTTCGTGTTTTC
* *
11191233 AAAAAATTCC-TATGTTTCAAAAATCTTCGTGTTTTC
1 AAAAAA-TCCGT-T-TTTTAAAAATTTTCGTGTTTTC
** * * *
11191269 AAAAGTTTCGGTGTTTTCAAAAATTTTCATGTTTTC
1 AAAA-AATCCGT-TTTTTAAAAATTTTCGTGTTTTC
* * * *
11191305 AAAAATTCCCGTGTTTTAAAAATTTCCATGTTTT-
1 AAAAAAT-CCGTTTTTTAAAAATTTTCGTGTTTTC
** * * *
11191339 AAAAAATTTGTGTTTTAAAATTTTTCGTG-CTTC
1 AAAAAATCCGTTTTTTAAAAATTTTCGTGTTTTC
11191372 AAAAA
1 AAAAA
11191377 GAAAATTCGT
Statistics
Matches: 116, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
32 2 0.02
33 22 0.19
34 9 0.08
35 29 0.25
36 52 0.45
37 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (34 bp):
AAAAAATCCGTTTTTTAAAAATTTTCGTGTTTTC
Found at i:11191401 original size:20 final size:22
Alignment explanation
Indices: 11191363--11191417 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
11191353 TTAAAATTTT
*
11191363 TCGTGCTTCAAAAAGAAAA-T-
1 TCGTGTTTCAAAAAGAAAATTC
11191383 TCGTGTTTTCAAAAA-AAAATTC
1 TCGTG-TTTCAAAAAGAAAATTC
11191405 TCGTGTTTCAAAA
1 TCGTGTTTCAAAA
11191418 TTTTCGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 9 0.29
21 17 0.55
22 5 0.16
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (22 bp):
TCGTGTTTCAAAAAGAAAATTC
Found at i:11191419 original size:16 final size:16
Alignment explanation
Indices: 11191398--11191428 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11191388 TTTTCAAAAA
11191398 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
11191414 AAAATTTTCGTGTTT
1 AAAATTCTCGTGTTT
11191429 TTTTAAAAAA
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:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:11191518 original size:53 final size:54
Alignment explanation
Indices: 11191398--11191518 Score: 135
Period size: 53 Copynumber: 2.3 Consensus size: 54
11191388 TTTTCAAAAA
* * ** *
11191398 AAAATTCTCGTG-TTTCAAAATTTTCGTGTTTTTTTAAAAAAATTCGTGTTTCT
1 AAAATTCTCGTGTTTTAAAAAGTTTCGTGTTTTTAAAAAAAAATTCGCGTTTCT
11191451 AAAATTCT-GTTGTTTTAAAAAGTTTCGTG-TTTTAAAAAAAAAGGTT-GCGTTTC-
1 AAAATTCTCG-TGTTTTAAAAAGTTTCGTGTTTTTAAAAAAAAA--TTCGCGTTTCT
11191504 AAAATTCTCGTGTTT
1 AAAATTCTCGTGTTT
11191519 CAATTGGATC
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
52 1 0.02
53 34 0.59
54 21 0.36
55 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (54 bp):
AAAATTCTCGTGTTTTAAAAAGTTTCGTGTTTTTAAAAAAAAATTCGCGTTTCT
Found at i:11194910 original size:13 final size:13
Alignment explanation
Indices: 11194892--11194937 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
11194882 TAAACAGTTA
11194892 TTAAAAAAATATT
1 TTAAAAAAATATT
11194905 TT-AAAAAATATT
1 TTAAAAAAATATT
11194917 TTCAATAAAAACTA-T
1 TT-AA-AAAAA-TATT
11194932 TTAAAA
1 TTAAAA
11194938 TAAAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 12 0.41
13 4 0.14
14 3 0.10
15 8 0.28
16 2 0.07
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAAAAAAATATT
Found at i:11205845 original size:29 final size:32
Alignment explanation
Indices: 11205774--11205845 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 32
11205764 AATTTTAAAG
*
11205774 TTATTAAAAACCATAAAAATTATAAACAAGAT
1 TTATTAAAAATCATAAAAATTATAAACAAGAT
* * *
11205806 TTATAAAAAATTAT-AAAATTATAAA-AA-CT
1 TTATTAAAAATCATAAAAATTATAAACAAGAT
11205835 TTATTAAAAAT
1 TTATTAAAAAT
11205846 AACAATATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.31
30 2 0.06
31 11 0.31
32 11 0.31
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (32 bp):
TTATTAAAAATCATAAAAATTATAAACAAGAT
Found at i:11206348 original size:32 final size:32
Alignment explanation
Indices: 11206289--11206349 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
11206279 CTAGATTGAA
* *
11206289 TTCTAAAAAGTCAAGAATCTTGAGATAAAGTT
1 TTCTAAAAACTCAAGAATCTAGAGATAAAGTT
*
11206321 TTCTAAAAACTCAATAATCTCAG-GATAAA
1 TTCTAAAAACTCAAGAATCT-AGAGATAAA
11206350 ATTTACGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (32 bp):
TTCTAAAAACTCAAGAATCTAGAGATAAAGTT
Found at i:11208521 original size:42 final size:42
Alignment explanation
Indices: 11208392--11208704 Score: 335
Period size: 42 Copynumber: 7.4 Consensus size: 42
11208382 ACGTCGCTAA
* *
11208392 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCGTGTT
* * *
11208436 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCGTGTT
* *
11208479 CTTTAGCGGCGCTTAGGAAAAAACGCCACTAAAGATCGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCGTGTT
* * *
11208521 CTTTAGCGGCGCTTTGAAAAAAACGCCGCTATAGATCGTGTA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCGTGTT
* * *
11208563 CTTTAGCAGCGCTTTGAAAAAAACGCCGCTAAATATCGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCGTGTT
* ** **
11208605 CTTTAGCGGCGCTTTGGAGGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCGTGTT
* ** * *
11208648 CTATAGCGGCGCTT-GTTCAAAAATGCCGCTAATAG-TAGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAA-AGATCGTGTT
11208690 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
11208705 TTTCACAAAC
Statistics
Matches: 232, Mismatches: 30, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.00
42 144 0.62
43 75 0.32
44 12 0.05
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCGTGTT
Found at i:11208677 original size:85 final size:84
Alignment explanation
Indices: 11208410--11208703 Score: 344
Period size: 85 Copynumber: 3.5 Consensus size: 84
11208400 GCGCTTACAG
* **
11208410 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCA
1 AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGAAA-AAACGCCGCTAAAGATCA
11208475 TGTTCTTTAGCGGCGCTTAG-
65 TGTTCTTTAGCGGCGCTT-GT
* * * * *
11208495 GAAAAAACGCCACTAAAGATCGTGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTATAGATCGT
1 AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGAAAAAACGCCGCTAAAGATCAT
* *
11208560 GTACTTTAGCAGCGCTT-T
66 GTTCTTTAGCGGCGCTTGT
* *
11208578 GAAAAAAACGCCGCTAAATATCGTGTTCTTTAGCGGCGCTTTGGAGGAAAACGCCGCTAAA-AGT
1 -AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGA-AAAAACGCCGCTAAAGA-T
* *
11208642 AATGTTCTATAGCGGCGCTTGT
63 CATGTTCTTTAGCGGCGCTTGT
** * *
11208664 TCAAAAATGCCGCTAATAG-TAGTGTTCTTTAGCGGCGCTT
1 AAAAAAACGCCGCTAA-AGATCGTGTTCTTTAGCGGCGCTT
11208704 ATTTCACAAA
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
84 73 0.41
85 102 0.58
86 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTGT
Found at i:11209177 original size:21 final size:21
Alignment explanation
Indices: 11209153--11209221 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
11209143 GCTTCTATCG
*
11209153 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
11209174 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCTCTCGCTGCAGCCT
* *
11209195 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
11209216 CTGCTT
1 CTGCTT
11209222 TAAGTTGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.42, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:11211157 original size:9 final size:9
Alignment explanation
Indices: 11211122--11211518 Score: 272
Period size: 9 Copynumber: 44.0 Consensus size: 9
11211112 TTAAACAATA
11211122 ATGTAAGTT
1 ATGTAAGTT
*
11211131 A-GGAAGGTT
1 ATGTAA-GTT
11211140 ATGT-A-TT
1 ATGTAAGTT
11211147 ATGTAAGTT
1 ATGTAAGTT
11211156 ATGTAAGTT
1 ATGTAAGTT
*
11211165 ATGTAATTT
1 ATGTAAGTT
11211174 ATGTAAGTT
1 ATGTAAGTT
11211183 ATGTAAGTT
1 ATGTAAGTT
11211192 ATGTAAGTT
1 ATGTAAGTT
* *
11211201 ATTTAATTT
1 ATGTAAGTT
*
11211210 AGGTAAGTT
1 ATGTAAGTT
*
11211219 ATGTAAGAT
1 ATGTAAGTT
11211228 ATGTAAGTT
1 ATGTAAGTT
*
11211237 ATTTAAGTT
1 ATGTAAGTT
11211246 ATGTAAGTT
1 ATGTAAGTT
11211255 ATGTAAGTT
1 ATGTAAGTT
*
11211264 ATTTAA-TT
1 ATGTAAGTT
11211272 AATGTAAGTT
1 -ATGTAAGTT
11211282 ATGTAAGTT
1 ATGTAAGTT
* *
11211291 ATATAATTT
1 ATGTAAGTT
11211300 ATGTAAGCAATT
1 ATGTAAG---TT
* *
11211312 -TAGAAAAAATT
1 AT-G--TAAGTT
11211323 ATGTAAGTT
1 ATGTAAGTT
*
11211332 GTGTACTAAGTT
1 ATG---TAAGTT
*
11211344 TTGT-A-TT
1 ATGTAAGTT
*
11211351 ATGTAAATT
1 ATGTAAGTT
11211360 ATGTACTAAGTT
1 ATG---TAAGTT
11211372 ATGT-A-TT
1 ATGTAAGTT
* *
11211379 ATGTAAATA
1 ATGTAAGTT
* *
11211388 ATTTAAGTA
1 ATGTAAGTT
*
11211397 ATGTATGTT
1 ATGTAAGTT
11211406 ATGTAAG-T
1 ATGTAAGTT
* *
11211414 AAGT-TGTT
1 ATGTAAGTT
11211422 ATGTAAGTT
1 ATGTAAGTT
* *
11211431 TTG-CA-TT
1 ATGTAAGTT
11211438 ATGTAAGTT
1 ATGTAAGTT
11211447 ATGTAAGTT
1 ATGTAAGTT
11211456 AAATGT-A-TT
1 --ATGTAAGTT
11211465 ATG-AAGGTT
1 ATGTAA-GTT
11211474 ATGTAAGTT
1 ATGTAAGTT
*
11211483 GTGTAAGTT
1 ATGTAAGTT
11211492 ATGTAAGTT
1 ATGTAAGTT
11211501 AAATGT-A-TT
1 --ATGTAAGTT
11211510 ATGTAAGTT
1 ATGTAAGTT
11211519 TATATAAAAA
Statistics
Matches: 306, Mismatches: 45, Indels: 74
0.72 0.11 0.17
Matches are distributed among these distances:
7 30 0.10
8 21 0.07
9 214 0.70
10 7 0.02
11 12 0.04
12 20 0.07
14 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:11211364 original size:28 final size:28
Alignment explanation
Indices: 11211320--11211386 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
11211310 TTTAGAAAAA
* * *
11211320 ATTATGTAAGTTGTGTACTAAGTTTTGT
1 ATTATGTAAATTATGTACTAAGTTATGT
11211348 ATTATGTAAATTATGTACTAAGTTATGT
1 ATTATGTAAATTATGTACTAAGTTATGT
11211376 ATTATGTAAAT
1 ATTATGTAAAT
11211387 AATTTAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (28 bp):
ATTATGTAAATTATGTACTAAGTTATGT
Found at i:11211423 original size:16 final size:18
Alignment explanation
Indices: 11211391--11211429 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
11211381 GTAAATAATT
11211391 TAAGTAATGTATGTTATG
1 TAAGTAATGTATGTTATG
11211409 TAAGTAA-GT-TGTTATG
1 TAAGTAATGTATGTTATG
11211425 TAAGT
1 TAAGT
11211430 TTTGCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
17 2 0.10
18 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (18 bp):
TAAGTAATGTATGTTATG
Found at i:11211563 original size:23 final size:23
Alignment explanation
Indices: 11211537--11211580 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
11211527 AAAAAATTAT
*
11211537 AAGTTATGTATTATGTAAGTTAA
1 AAGTAATGTATTATGTAAGTTAA
11211560 AAGTAATGTATTATGTAAGTT
1 AAGTAATGTATTATGTAAGTT
11211581 TACATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (23 bp):
AAGTAATGTATTATGTAAGTTAA
Found at i:11211610 original size:41 final size:36
Alignment explanation
Indices: 11211582--11211691 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 36
11211572 ATGTAAGTTT
11211582 ACATATCTTAAATTTTAGTAAGTAATGTATTTAAGTA
1 ACATA-CTTAAATTTTAGTAAGTAATGTATTTAAGTA
*
11211619 ACATACTTAAA-TTT--T-A--CA--TA--TAAGTAA
1 ACATACTTAAATTTTAGTAAGTAATGTATTTAAGT-A
*
11211646 ACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTA
1 ACATACTTAAATTTTAGTAAGTAATGTATTTAAGTA
*
11211682 ACATATTTAA
1 ACATACTTAA
11211692 GTAATAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
26 5 0.09
27 11 0.19
28 5 0.09
30 2 0.04
31 1 0.02
32 1 0.02
33 2 0.04
35 5 0.09
36 15 0.26
37 10 0.18
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (36 bp):
ACATACTTAAATTTTAGTAAGTAATGTATTTAAGTA
Found at i:11211681 original size:13 final size:13
Alignment explanation
Indices: 11211663--11211726 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
11211653 TAAATTTTAG
*
11211663 TAAGTAATGTATT
1 TAAGTAATATATT
*
11211676 TAAGTAACATATT
1 TAAGTAATATATT
*
11211689 TAAGTAATA-AAT
1 TAAGTAATATATT
11211701 TAA-T-ATATATAT
1 TAAGTAATATAT-T
11211713 T-AGTAATA-ATT
1 TAAGTAATATATT
11211724 TAA
1 TAA
11211727 ATTAAATTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
10 3 0.07
11 5 0.12
12 11 0.27
13 22 0.54
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:11214359 original size:146 final size:147
Alignment explanation
Indices: 11214129--11214464 Score: 392
Period size: 146 Copynumber: 2.3 Consensus size: 147
11214119 AAATTAACCA
* * * **
11214129 TTTGCGGCGTTTATAAAT-AAGCGCCACTAACTATAAGTCGAAACGCAGTCGTTTCATCAACAAA
1 TTTGCGGCGTTT-TAAATAAAGCGCCACTAACTATAAATCAAAACACAGTCACTTCATCAACAAA
* * * * * **
11214193 TAGCGCACACCTGTGGCGTTTTTGAATAAA-CGCCACTAAT-A-ATACAACAAAACGGCCTCGTA
65 TACCGCAAACCCGTGGCG-TTTTAAAAAAATCGCCACTAATAACATACAA-AAAACGGCAGCGTA
*
11214255 TCGATAAATGTTAAAACATT
128 TCGATAAATGTTAAAACAAT
* **
11214275 TTTGCGGCGTTTTAATTAAAGCGCCACTAACTATAAATCAAAACACAGTCACTTCATCAACACTT
1 TTTGCGGCGTTTTAAATAAAGCGCCACTAACTATAAATCAAAACACAGTCACTTCATCAACAAAT
* ** * *
11214340 ACCTCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACATTTAAAAAACGGCAGCGTTTCT
66 ACCGCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACATACAAAAAACGGCAGCGTATCG
*
11214405 ATAAATGTTAGAACAAT
131 ATAAATGTTAAAACAAT
* *
11214422 TTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAA
1 TTTGCGGCGTTTTAAATAAAGCGCCACTAACTATAA-ATCAAA
11214465 CGAAGTCGTT
Statistics
Matches: 161, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
145 13 0.08
146 75 0.47
147 63 0.39
148 10 0.06
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (147 bp):
TTTGCGGCGTTTTAAATAAAGCGCCACTAACTATAAATCAAAACACAGTCACTTCATCAACAAAT
ACCGCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACATACAAAAAACGGCAGCGTATCG
ATAAATGTTAAAACAAT
Found at i:11214587 original size:146 final size:146
Alignment explanation
Indices: 11214255--11214593 Score: 366
Period size: 147 Copynumber: 2.3 Consensus size: 146
11214245 CGGCCTCGTA
** * *
11214255 TCGATAAATGTTAAAACATTTTTGCGGCGTTTTAAT-TAAAGCGCCACTAACTATAAATCAAAAC
1 TCGATAAATCATAAAACAATTTTGCGGCGTTTT-ATGTAAAGCGCCACTAAATATAAATCAAAAC
* *
11214319 ACAGTCACTTCATCAACACTTACCTCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACAT
65 ACAGTCACTTCATCAACACTTAACTCAAACCCGTGGCGTTTCAAAAAAA-CGCCACTAATAACAT
* * * *
11214384 TTAAAAAACGGCAGCGTT
129 TGAAAAAACGACAACATT
* ** * *
11214402 TCTATAAATGTTAGAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAAC
1 TCGATAAATCATAAAACAATTTTGCGGCGTTTTATGTAAAGCGCCACTAAATATAA-ATCAAAAC
** * * ** *
11214466 GA-AGTCGTTTC-TCCAACATTTAACTCAAGCTTGTGGCGTTTCCAAAAAAA-GCCACTAATACC
65 -ACAGTCACTTCAT-CAACACTTAACTCAAACCCGTGGCGTTT-CAAAAAAACGCCACTAATAAC
*
11214528 ATTGACAAAACGACAACATT
127 ATTGAAAAAACGACAACATT
11214548 TCGATAAA-CATAAATACAATTTTGCGGCGTTTTATGTAAAGCGCCA
1 TCGATAAATCATAAA-ACAATTTTGCGGCGTTTTATGTAAAGCGCCA
11214594 GTAATAGAAA
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
145 3 0.02
146 65 0.40
147 83 0.51
148 11 0.07
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (146 bp):
TCGATAAATCATAAAACAATTTTGCGGCGTTTTATGTAAAGCGCCACTAAATATAAATCAAAACA
CAGTCACTTCATCAACACTTAACTCAAACCCGTGGCGTTTCAAAAAAACGCCACTAATAACATTG
AAAAAACGACAACATT
Found at i:11216154 original size:114 final size:114
Alignment explanation
Indices: 11215943--11216199 Score: 263
Period size: 114 Copynumber: 2.3 Consensus size: 114
11215933 TAGGTTATTG
* * * * *
11215943 GCGGCGCTT-ACCAAAAACGCCGCTAAATCCCCGAATACTCAGAGAACGGTGTCGTTCGGCTTAT
1 GCGGCGCTTAATCAAAAACGCCGCTAAATCACCGAATACTCAGAAAACGGCGTCGTTCGGCTTAG
* *
11216007 GTTTATTTGCGGCGCTTCCATACAAACGCCGCTAAAGTAC-TGAACATTA
66 GTTTATTTGCGGCGATTCCATAAAAACGCCGCTAAA-TACTTGAACATTA
* ** * **
11216056 GCGGCGC-TACCTCAAAAACGCCGCTAGGTTACCGAATGTTCAGAAAACGGCGTCGTT-GGTCTT
1 GCGGCGCTTA-ATCAAAAACGCCGCTAAATCACCGAATACTCAGAAAACGGCGTCGTTCGG-CTT
* * * * * *
11216119 AGGTTTCTTTGCGGCGATT-TATCAAAAATGCCGCTAAATCCTTGATCTTTA
64 AGGTTTATTTGCGGCGATTCCAT-AAAAACGCCGCTAAATACTTGAACATTA
*
11216170 GCGGCGCTTAATAAAAAACGCCGCTAAATC
1 GCGGCGCTTAATCAAAAACGCCGCTAAATC
11216200 CCCGCATGCC
Statistics
Matches: 114, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
112 1 0.01
113 13 0.11
114 98 0.86
115 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTAATCAAAAACGCCGCTAAATCACCGAATACTCAGAAAACGGCGTCGTTCGGCTTAG
GTTTATTTGCGGCGATTCCATAAAAACGCCGCTAAATACTTGAACATTA
Found at i:11216187 original size:41 final size:40
Alignment explanation
Indices: 11216124--11216200 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
11216114 GTCTTAGGTT
* * *
11216124 TCTTTGCGGCGATTTATCAAAAATGCCGCTAAATCCTTGA
1 TCTTTGCGGCGATTAATAAAAAACGCCGCTAAATCCTTGA
*
11216164 TCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAATCC
1 TCTTT-GCGGCGATTAATAAAAAACGCCGCTAAATCC
11216201 CCGCATGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (40 bp):
TCTTTGCGGCGATTAATAAAAAACGCCGCTAAATCCTTGA
Found at i:11217815 original size:68 final size:67
Alignment explanation
Indices: 11217716--11217892 Score: 209
Period size: 64 Copynumber: 2.6 Consensus size: 67
11217706 ATAATTTACA
* * *
11217716 ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTATATTCGAACCACACACATATGTATGTAAAA
1 ACATT-AAATTCAGCTC-AAGAACTTTATAACCTATATTCGAACCAC-CACATATGTATATAAAA
11217780 TTCAT
63 TTCAT
*
11217785 ACATTAAATTCAGCTCAAGAACTTTATAACCTATATTTG-A--ACCACATATGTATATAAAATTC
1 ACATTAAATTCAGCTCAAGAACTTTATAACCTATATTCGAACCACCACATATGTATATAAAATTC
*
11217847 GT
66 AT
* * **
11217849 ACATTAATTTCAGCTCAAGAACTTTAAATATATATATTCGAACC
1 ACATTAAATTCAGCTCAAGAACTTTATA-ACCTATATTCGAACC
11217893 GTATGTGCAT
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
64 46 0.49
65 10 0.11
66 1 0.01
67 6 0.06
68 25 0.27
69 5 0.05
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (67 bp):
ACATTAAATTCAGCTCAAGAACTTTATAACCTATATTCGAACCACCACATATGTATATAAAATTC
AT
Found at i:11224497 original size:11 final size:11
Alignment explanation
Indices: 11224480--11224509 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11224470 GCCCATATTA
11224480 AATTTTTATAT
1 AATTTTTATAT
*
11224491 TATTTTTATAT
1 AATTTTTATAT
11224502 AATTTTTA
1 AATTTTTA
11224510 AATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
AATTTTTATAT
Found at i:11224665 original size:30 final size:30
Alignment explanation
Indices: 11224631--11224690 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
11224621 ACTTAACAAG
*
11224631 TAAATTCCTCTAAAATAATAACAAAATTAA
1 TAAATACCTCTAAAATAATAACAAAATTAA
* *
11224661 TAAATACCTTTAAAATAATAACCAAATTAA
1 TAAATACCTCTAAAATAATAACAAAATTAA
11224691 CAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAATACCTCTAAAATAATAACAAAATTAA
Found at i:11224748 original size:22 final size:22
Alignment explanation
Indices: 11224723--11224765 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11224713 TATCCAAATA
11224723 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
11224745 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
11224766 AATAGAGAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:11241714 original size:12 final size:12
Alignment explanation
Indices: 11241697--11241722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11241687 GTTTGGCATG
11241697 TACCTATCTAGT
1 TACCTATCTAGT
11241709 TACCTATCTAGT
1 TACCTATCTAGT
11241721 TA
1 TA
11241723 AGTCACTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
TACCTATCTAGT
Found at i:11244371 original size:25 final size:25
Alignment explanation
Indices: 11244343--11244405 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
11244333 ACAAGCACAT
* *
11244343 TAACGGAAAGCTCTTCCGAGCCATA
1 TAACGGGAAGCTCATCCGAGCCATA
** *
11244368 TAACGGGAAGCTCATGTGAGCCATG
1 TAACGGGAAGCTCATCCGAGCCATA
11244393 TAACGGGAAGCTC
1 TAACGGGAAGCTC
11244406 GCAAGAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (25 bp):
TAACGGGAAGCTCATCCGAGCCATA
Found at i:11248293 original size:23 final size:23
Alignment explanation
Indices: 11248263--11248309 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11248253 ATTACAACTT
*
11248263 ATCTATACTTATATAGTAAAGTA
1 ATCTATACCTATATAGTAAAGTA
*
11248286 ATCTATACCTATATATTAAAGTA
1 ATCTATACCTATATAGTAAAGTA
11248309 A
1 A
11248310 GGTCCAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (23 bp):
ATCTATACCTATATAGTAAAGTA
Found at i:11248596 original size:29 final size:29
Alignment explanation
Indices: 11248554--11248609 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
11248544 GTTGGTTTTC
*
11248554 ATATTTGTATAATGTTATTAATTAGTTTA
1 ATATTTGTATAATGTAATTAATTAGTTTA
*
11248583 ATATTTTTATAATGTAATTAATTAGTT
1 ATATTTGTATAATGTAATTAATTAGTT
11248610 AAAATAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (29 bp):
ATATTTGTATAATGTAATTAATTAGTTTA
Found at i:11249762 original size:29 final size:30
Alignment explanation
Indices: 11249727--11249785 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
11249717 TCTTGGTTGA
*
11249727 TGTGTAATTTTATATA-AAAACTTTGATTT
1 TGTGTAATTTTATACATAAAACTTTGATTT
*
11249756 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTTTATACATAAAACTTTGATTT
11249786 GATTTTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (30 bp):
TGTGTAATTTTATACATAAAACTTTGATTT
Found at i:11257927 original size:2 final size:2
Alignment explanation
Indices: 11257922--11257946 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11257912 AAACAAAAAA
11257922 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
11257947 AAAAGCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11263001 original size:26 final size:25
Alignment explanation
Indices: 11262972--11263023 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
11262962 TTCTAAAAAC
* **
11262972 GGGATGCTAGAAATTTTATGTTATTT
1 GGGATACTAGAAAAATTA-GTTATTT
11262998 GGGATACTAGAAAAATTAGTTATTT
1 GGGATACTAGAAAAATTAGTTATTT
11263023 G
1 G
11263024 AGTATTTACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (25 bp):
GGGATACTAGAAAAATTAGTTATTT
Found at i:11271570 original size:21 final size:21
Alignment explanation
Indices: 11271546--11271597 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
11271536 AATTTCCATA
*
11271546 ATGTAATTATTATT-ATTATAT
1 ATGTAATT-TTATTCAATATAT
* *
11271567 ATGTGATTTTTTTCAATATAT
1 ATGTAATTTTATTCAATATAT
11271588 ATGTATATTT
1 ATGTA-ATTT
11271598 GCTGTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (21 bp):
ATGTAATTTTATTCAATATAT
Found at i:11272044 original size:15 final size:15
Alignment explanation
Indices: 11272021--11272053 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11272011 TTTTTATGTC
11272021 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
11272036 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
11272051 ATT
1 ATT
11272054 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:11272432 original size:98 final size:98
Alignment explanation
Indices: 11272323--11272582 Score: 502
Period size: 98 Copynumber: 2.7 Consensus size: 98
11272313 TTAAAAATCA
* *
11272323 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
11272388 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
11272421 TAAAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
11272486 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
11272519 TAAAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
11272583 GGCCCAATTC
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 160 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:11274055 original size:30 final size:29
Alignment explanation
Indices: 11274018--11274112 Score: 104
Period size: 30 Copynumber: 3.3 Consensus size: 29
11274008 TATTCATAAC
*
11274018 AATAAAAA-CATATTAAAATTCTTAAAAACT
1 AATAAAAATCATA-TAAAATTATTAAAAA-T
*
11274048 TATAAAAATCATATAAAATTATTAAAAAT
1 AATAAAAATCATATAAAATTATTAAAAAT
* * *
11274077 AATAAAATTGATATAAACTTA-TAAAAAT
1 AATAAAAATCATATAAAATTATTAAAAAT
*
11274105 TATAAAAA
1 AATAAAAA
11274113 AACATAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.23
29 18 0.32
30 21 0.38
31 4 0.07
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (29 bp):
AATAAAAATCATATAAAATTATTAAAAAT
Found at i:11274112 original size:9 final size:9
Alignment explanation
Indices: 11274040--11274112 Score: 67
Period size: 10 Copynumber: 7.7 Consensus size: 9
11274030 TTAAAATTCT
11274040 TAAAAACTTA
1 TAAAAA-TTA
*
11274050 TAAAAATCA
1 TAAAAATTA
11274059 TATAAAATTA
1 TA-AAAATTA
*
11274069 TTAAAAATAA
1 -TAAAAATTA
11274079 T-AAAATTGA
1 TAAAAATT-A
*
11274088 TATAAACTTA
1 TA-AAAATTA
11274098 TAAAAATTA
1 TAAAAATTA
11274107 TAAAAA
1 TAAAAA
11274113 AACATAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.10
9 19 0.37
10 21 0.40
11 7 0.13
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:11274123 original size:29 final size:29
Alignment explanation
Indices: 11274039--11274125 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
11274029 ATTAAAATTC
11274039 TTAAAAACTTATAAAAATCATATAAAA-TTA
1 TTAAAAA-TTATAAAAATCATA-AAAACTTA
* * * *
11274069 TTAAAAATAATAAAATTGATATAAACTTA
1 TTAAAAATTATAAAAATCATAAAAACTTA
*
11274098 -TAAAAATTATAAAAAAACATAAAAACTT
1 TTAAAAATTAT-AAAAATCATAAAAACTT
11274126 GAATTGGACA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 12 0.26
29 27 0.59
30 7 0.15
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (29 bp):
TTAAAAATTATAAAAATCATAAAAACTTA
Found at i:11286562 original size:23 final size:21
Alignment explanation
Indices: 11286536--11286578 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
11286526 AAATGATCAT
11286536 GAATTTTAAAATTTTATAATTTC
1 GAATTTT-AAATTTT-TAATTTC
*
11286559 GAATTTTTAATTTTTAATTT
1 GAATTTTAAATTTTTAATTT
11286579 TTAATTGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
GAATTTTAAATTTTTAATTTC
Found at i:11286579 original size:6 final size:7
Alignment explanation
Indices: 11286545--11286584 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
11286535 TGAATTTTAA
11286545 AATTTTAT
1 AATTTT-T
**
11286553 AATTTCG
1 AATTTTT
11286560 AATTTTT
1 AATTTTT
11286567 AATTTTT
1 AATTTTT
11286574 AATTTTT
1 AATTTTT
11286581 AATT
1 AATT
11286585 GCTTATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (7 bp):
AATTTTT
Found at i:11287115 original size:16 final size:16
Alignment explanation
Indices: 11287094--11287127 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11287084 ATAAACATAT
11287094 TATAAATATTATTATA
1 TATAAATATTATTATA
* *
11287110 TATAAATTTTATTTTA
1 TATAAATATTATTATA
11287126 TA
1 TA
11287128 CAAGCAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATAAATATTATTATA
Found at i:11290954 original size:2 final size:2
Alignment explanation
Indices: 11290947--11290974 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11290937 ATGATGAACA
11290947 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11290975 TCTACCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11291119 original size:2 final size:2
Alignment explanation
Indices: 11291114--11291158 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
11291104 AAAAGCTTTG
11291114 TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11291155 TC TC
1 TC TC
11291159 CTCCTCTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:11303408 original size:34 final size:34
Alignment explanation
Indices: 11303370--11303483 Score: 142
Period size: 34 Copynumber: 3.4 Consensus size: 34
11303360 GCAATAATCC
*
11303370 ATTATAAGCATGTTAATTCCTACCGTATTGATCT
1 ATTATAAGCATGTTAATTGCTACCGTATTGATCT
* ** *
11303404 ATTATAAGCATGATAATTGCTATTGTATCGA-CTT
1 ATTATAAGCATGTTAATTGCTACCGTATTGATC-T
*
11303438 ATTATAAGCATGTT-ATTGCTACCGTATTGATTT
1 ATTATAAGCATGTTAATTGCTACCGTATTGATCT
*
11303471 TTTATAAGCATGT
1 ATTATAAGCATGT
11303484 CATGTTGTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
33 27 0.40
34 40 0.60
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (34 bp):
ATTATAAGCATGTTAATTGCTACCGTATTGATCT
Found at i:11303616 original size:21 final size:23
Alignment explanation
Indices: 11303590--11303640 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
11303580 GCAGTTTATT
11303590 TACAAC-GATT-AGTGGTTCATC
1 TACAACAGATTAAGTGGTTCATC
*
11303611 TACAACATATTACAGTGGTTCATC
1 TACAACAGATTA-AGTGGTTCATC
*
11303635 CACAAC
1 TACAAC
11303641 CTACTAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.24
22 3 0.12
24 16 0.64
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (23 bp):
TACAACAGATTAAGTGGTTCATC
Found at i:11305177 original size:40 final size:40
Alignment explanation
Indices: 11305109--11305243 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
11305099 ACCAGTTTAG
* *
11305109 CACCTAGTGCCTCATCGGATAATTCGAAGTAATAAGTTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGA
* * * *
11305149 CACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA-TTGG
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGA
**
11305186 CACCCAGTGCCTCATCAAATTAATCCGAAGTAAT-AGATTGA
1 CACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAAG-TTGA
* *
11305227 TACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
11305244 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 18 0.24
38 12 0.16
39 3 0.04
40 25 0.33
41 17 0.23
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGA
Found at i:11305241 original size:41 final size:39
Alignment explanation
Indices: 11305128--11305242 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 39
11305118 CCTCATCGGA
* **
11305128 TAATTCGAAGTAATAAGTTGACACCCAGTGTCTCATCGGC
1 TAATCCGAAGTAATAA-TTGACACCCAGTGTCTCATCAAC
* * * *
11305168 TAAACCGAAGT-A-AATTGGCACCCAGTGCCTCATCAAAT
1 TAATCCGAAGTAATAATTGACACCCAGTGTCTCATC-AAC
*
11305206 TAATCCGAAGTAATAGATTGATACCCAGTGTCTCATC
1 TAATCCGAAGTAATA-ATTGACACCCAGTGTCTCATC
11305243 GACTCGAGGT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
37 18 0.30
38 12 0.20
39 2 0.03
40 10 0.17
41 18 0.30
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (39 bp):
TAATCCGAAGTAATAATTGACACCCAGTGTCTCATCAAC
Found at i:11305762 original size:13 final size:13
Alignment explanation
Indices: 11305744--11305768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11305734 TTCATATTAT
11305744 TATAATAATATAA
1 TATAATAATATAA
11305757 TATAATAATATA
1 TATAATAATATA
11305769 TAATATACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:11305784 original size:15 final size:14
Alignment explanation
Indices: 11305744--11305798 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
11305734 TTCATATTAT
11305744 TATAAT-AATATAA
1 TATAATAAATATAA
11305757 TATAATAATATATAA
1 TATAATAA-ATATAA
*
11305772 TATACTTAAATATTAA
1 TATA-ATAAATA-TAA
*
11305788 T-TAATACATAT
1 TATAATAAATAT
11305799 TTTATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.20
14 6 0.17
15 15 0.43
16 7 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATAAATATAA
Found at i:11312401 original size:20 final size:20
Alignment explanation
Indices: 11312378--11312422 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11312368 TTCTTTCCTT
*
11312378 TTTCTTTCTTTCGTTCTCTG
1 TTTCTTTCTATCGTTCTCTG
* * *
11312398 TTTCATTCTATCTTTCTCTT
1 TTTCTTTCTATCGTTCTCTG
11312418 TTTCT
1 TTTCT
11312423 ATTTCTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTCTTTCTATCGTTCTCTG
Found at i:11312498 original size:13 final size:13
Alignment explanation
Indices: 11312480--11312504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11312470 TTAATATTAT
11312480 TATAATAATATAA
1 TATAATAATATAA
11312493 TATAATAATATA
1 TATAATAATATA
11312505 TAATATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:11315197 original size:21 final size:21
Alignment explanation
Indices: 11315173--11315213 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11315163 TATAATTAAC
*
11315173 ATAATATTATTTATATTTATG
1 ATAATATTATATATATTTATG
* *
11315194 ATAATTTTATATATTTTTAT
1 ATAATATTATATATATTTAT
11315214 TTTCTTAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATAATATTATATATATTTATG
Found at i:11322766 original size:6 final size:7
Alignment explanation
Indices: 11322744--11322776 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
11322734 CAACTACATC
11322744 AAATCAA
1 AAATCAA
11322751 AAATCAA
1 AAATCAA
11322758 AAATCAA
1 AAATCAA
*
11322765 AAATAAA
1 AAATCAA
11322772 AAATC
1 AAATC
11322777 TAATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATCAA
Found at i:11323573 original size:2 final size:2
Alignment explanation
Indices: 11323566--11323591 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11323556 CTGAATATTC
11323566 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11323592 TTCCTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11329093 original size:3 final size:3
Alignment explanation
Indices: 11329087--11329133 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
11329077 AAAATTAGCA
* *
11329087 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCA TCA TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
11329134 GGCTGTTGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:11333134 original size:4 final size:4
Alignment explanation
Indices: 11333125--11333183 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
11333115 CGGATTTTTC
11333125 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
11333173 TATG TATG TAT
1 TATG TATG TAT
11333184 TAGTTTACTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:11347387 original size:37 final size:37
Alignment explanation
Indices: 11347337--11347410 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
11347327 ACCCTCCCCC
11347337 AACTTAACATCAACCCTTCGGTTCAATTCAAATCAAT
1 AACTTAACATCAACCCTTCGGTTCAATTCAAATCAAT
11347374 AACTTAACATCAACCCTTCGGTTCAATTCAAATCAAT
1 AACTTAACATCAACCCTTCGGTTCAATTCAAATCAAT
11347411 CATTTCCAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (37 bp):
AACTTAACATCAACCCTTCGGTTCAATTCAAATCAAT
Found at i:11347827 original size:5 final size:5
Alignment explanation
Indices: 11347789--11347823 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
11347779 TTTCATATTC
* *
11347789 CAACA CAACA CAACA CAACA CAACA TAACA TAACA
1 CAACA CAACA CAACA CAACA CAACA CAACA CAACA
11347824 TAACCATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.60, C:0.34, G:0.00, T:0.06
Consensus pattern (5 bp):
CAACA
Found at i:11357131 original size:85 final size:85
Alignment explanation
Indices: 11356988--11357162 Score: 323
Period size: 85 Copynumber: 2.1 Consensus size: 85
11356978 GGGATAGCTT
*
11356988 ACACATAGTATGCTAACTCATATAACTATAATCTGTCAATTCCTGTACATGTATGCTCACACGAG
1 ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCCTGTACATGTATGCTCACACGAG
*
11357053 TTGTGAAAATAGGTCTGCTC
66 CTGTGAAAATAGGTCTGCTC
*
11357073 ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCTTGTACATGTATGCTCACACGAG
1 ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCCTGTACATGTATGCTCACACGAG
11357138 CTGTGAAAATAGGTCTGCTC
66 CTGTGAAAATAGGTCTGCTC
11357158 ACACA
1 ACACA
11357163 AGCTGTGGGT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (85 bp):
ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCCTGTACATGTATGCTCACACGAG
CTGTGAAAATAGGTCTGCTC
Found at i:11363564 original size:13 final size:13
Alignment explanation
Indices: 11363548--11363573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11363538 ATTAATTTAG
11363548 TTAATTTAATTAA
1 TTAATTTAATTAA
11363561 TTAATTTAATTAA
1 TTAATTTAATTAA
11363574 GTAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATTTAATTAA
Found at i:11365191 original size:41 final size:41
Alignment explanation
Indices: 11365146--11365265 Score: 204
Period size: 41 Copynumber: 2.9 Consensus size: 41
11365136 ACTAGCTCTT
* *
11365146 AGCCTGCTAGACTTAAAGCCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
*
11365187 AGCCTGCTAGACTTAAAATCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
*
11365228 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCA
11365266 ATAAACATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:11369207 original size:2 final size:2
Alignment explanation
Indices: 11369200--11369233 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11369190 GAGTGATACA
11369200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11369234 TTGTTTATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11379016 original size:17 final size:17
Alignment explanation
Indices: 11378991--11379024 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11378981 TGTTTACACT
*
11378991 CTTTTTTTTCAGTTTTA
1 CTTTATTTTCAGTTTTA
*
11379008 CTTTATTTTTAGTTTTA
1 CTTTATTTTCAGTTTTA
11379025 AAATTTGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.71
Consensus pattern (17 bp):
CTTTATTTTCAGTTTTA
Found at i:11379540 original size:30 final size:30
Alignment explanation
Indices: 11379475--11379551 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
11379465 TTTTAGGTTA
*
11379475 CTTAAAAGTTGGAAAAAAAATTTTAAATCC
1 CTTAAAAGTTGGAAAAAAAATTTTAAAGCC
*
11379505 CTTAAAAGTTGGTAAAAAAAATTTT-CAGCC
1 CTTAAAAGTTGG-AAAAAAAATTTTAAAGCC
*
11379535 TTTAAAAGTT--AAAAAAA
1 CTTAAAAGTTGGAAAAAAA
11379552 TATATTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.16
30 24 0.56
31 12 0.28
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (30 bp):
CTTAAAAGTTGGAAAAAAAATTTTAAAGCC
Found at i:11381473 original size:21 final size:21
Alignment explanation
Indices: 11381451--11381497 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
11381441 ATTAAATTTT
11381451 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAA-ATAAAAATTA
* *
11381473 AAAATTTTAAAAT-AAAATAA
1 AAAATTTGAAAATAAAAATTA
11381493 AAAAT
1 AAAAT
11381498 AAATTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 2 0.09
22 10 0.43
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTTGAAAATAAAAATTA
Found at i:11398149 original size:40 final size:40
Alignment explanation
Indices: 11398094--11398173 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
11398084 AAGCTGAAGA
11398094 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
1 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
11398134 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
1 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
11398174 CAGCATTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (40 bp):
AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
Found at i:11409662 original size:22 final size:22
Alignment explanation
Indices: 11409634--11409678 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11409624 TAACACTTTG
11409634 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11409656 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11409678 T
1 T
11409679 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11414254 original size:22 final size:22
Alignment explanation
Indices: 11414226--11414270 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11414216 AGGGGGAGTG
11414226 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11414248 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11414270 T
1 T
11414271 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11421893 original size:14 final size:14
Alignment explanation
Indices: 11421874--11421903 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11421864 GTTTAGTTTA
11421874 CTTTTTATCTCACG
1 CTTTTTATCTCACG
*
11421888 CTTTTTGTCTCACG
1 CTTTTTATCTCACG
11421902 CT
1 CT
11421904 ACGGTGTCGC
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:0.10, C:0.30, G:0.10, T:0.50
Consensus pattern (14 bp):
CTTTTTATCTCACG
Found at i:11422452 original size:24 final size:24
Alignment explanation
Indices: 11422420--11422470 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
11422410 TATTAATTAT
*
11422420 AAACATGAATTAAAAAT-AAATAAA
1 AAACATGAAAT-AAAATGAAATAAA
* *
11422444 AAACTTGAAATAACATGAAATAAA
1 AAACATGAAATAAAATGAAATAAA
11422468 AAA
1 AAA
11422471 AATACATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (24 bp):
AAACATGAAATAAAATGAAATAAA
Found at i:11434826 original size:16 final size:16
Alignment explanation
Indices: 11434805--11434835 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11434795 TGCTTTGCTC
11434805 TGCCTCTTTTGCTTTG
1 TGCCTCTTTTGCTTTG
11434821 TGCCTCTTTTGCTTT
1 TGCCTCTTTTGCTTT
11434836 ACCGCTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.26, G:0.16, T:0.58
Consensus pattern (16 bp):
TGCCTCTTTTGCTTTG
Found at i:11441005 original size:23 final size:23
Alignment explanation
Indices: 11440967--11441015 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
11440957 TACTAATAGT
* *
11440967 TTAAATATTGAGTTACACTTTTA
1 TTAAATATTGAGTTACAATTTCA
11440990 TTAAATATTGTA-TTACAATTTCA
1 TTAAATATTG-AGTTACAATTTCA
11441013 TTA
1 TTA
11441016 GAAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (23 bp):
TTAAATATTGAGTTACAATTTCA
Found at i:11445364 original size:87 final size:86
Alignment explanation
Indices: 11445197--11445405 Score: 242
Period size: 87 Copynumber: 2.3 Consensus size: 86
11445187 TTTAGGGTGT
*
11445197 AAAAAACTCTCAAATTTTTTTTTTAAAAAAGAGTAATTAAGTCCCTATTTTTTTTTGCACTCAAT
1 AAAAAACTCTCAAA-TTTTTTTTT--AAAA-A--AATTAAGTCCCTATTTTGTTTTGCACTCAAT
*
11445262 TGGGTACTTGAACTTTCAAAATGTATA
60 TGGGTACTTGAACTTTCAAAATATATA
* * *
11445289 AAAAAACTCTCAAATTTTTTTTTAAAAAAATTAAG-CTCCTGCTTTTGTTTTGTAGTCAATTGGG
1 AAAAAACTCTCAAATTTTTTTTTAAAAAAATTAAGTC-CCT-ATTTTGTTTTGCACTCAATTGGG
11445353 TA-TATGAACTTTCAAAATATATA
64 TACT-TGAACTTTCAAAATATATA
* * **
11445376 AAAATACCCTCAAATTTTTTTCAAAAAAAA
1 AAAAAACTCTCAAATTTTTTTTTAAAAAAA
11445406 ATATCAACCC
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
85 1 0.01
86 11 0.10
87 65 0.62
88 1 0.01
89 4 0.04
91 9 0.09
92 14 0.13
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (86 bp):
AAAAAACTCTCAAATTTTTTTTTAAAAAAATTAAGTCCCTATTTTGTTTTGCACTCAATTGGGTA
CTTGAACTTTCAAAATATATA
Found at i:11445623 original size:9 final size:9
Alignment explanation
Indices: 11445609--11445706 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
11445599 AAACCAATAG
11445609 AAATTATAA
1 AAATTATAA
*
11445618 AAATTATTA
1 AAATTATAA
**
11445627 ATTTTAATAA
1 AAATT-ATAA
**
11445637 AAACAATAA
1 AAATTATAA
*
11445646 AAATGTTTAA
1 AAAT-TATAA
*
11445656 AATTTATTAA
1 AAATTA-TAA
11445666 AAATT-TAA
1 AAATTATAA
11445674 AAGATTATAA
1 AA-ATTATAA
*
11445684 AAATCATAAAA
1 AAAT--TATAA
11445695 AAATTATAA
1 AAATTATAA
11445704 AAA
1 AAA
11445707 AAATGTAAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
8 5 0.08
9 31 0.47
10 22 0.33
11 8 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:11445716 original size:20 final size:21
Alignment explanation
Indices: 11445664--11445727 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
11445654 AAAATTTATT
*
11445664 AAAAATTTAAAAGATTATAAA
1 AAAAATATAAAAGATTATAAA
** *
11445685 AATCATA-AAAAAATTATAAA
1 AAAAATATAAAAGATTATAAA
* **
11445705 AAAAATGTAAAATTTTATAAA
1 AAAAATATAAAAGATTATAAA
11445726 AA
1 AA
11445728 TAGTAAGAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAATATAAAAGATTATAAA
Found at i:11445726 original size:69 final size:68
Alignment explanation
Indices: 11445645--11445774 Score: 149
Period size: 69 Copynumber: 1.9 Consensus size: 68
11445635 AAAAACAATA
* * * *
11445645 AAAATGTTTAAAATTTATTAA-AAATTTAAAAGATTATA-AAAATCA-TAAAAAAATTATAAAAA
1 AAAATGTTTAAAA-ATAGTAAGAAATGTAAAAGA-TATAGAAAAT-AGAAAAAAAATTATAAAAA
11445707 AAATGT
63 AAATGT
* *
11445713 AAAATTTTATAAAAATAGTAAGAAATGTAAAATATATAGAAAATAGAAAAAAAATTATAAAA
1 AAAATGTT-TAAAAATAGTAAGAAATGTAAAAGATATAGAAAATAGAAAAAAAATTATAAAA
11445775 TTTTATAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
68 17 0.33
69 35 0.67
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (68 bp):
AAAATGTTTAAAAATAGTAAGAAATGTAAAAGATATAGAAAATAGAAAAAAAATTATAAAAAAAA
TGT
Found at i:11445745 original size:28 final size:29
Alignment explanation
Indices: 11445693--11445783 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 29
11445683 AAAATCATAA
*
11445693 AAAAATTATAAAAAAAATGTAAAATTTTAT
1 AAAAA-TAGAAAAAAAATGTAAAATTTTAT
* * *
11445723 AAAAATAG-TAAGAAATGTAAAA-TATAT
1 AAAAATAGAAAAAAAATGTAAAATTTTAT
*
11445750 AGAAAATAGAAAAAAAATTATAAAATTTTAT
1 A-AAAATAGAAAAAAAA-TGTAAAATTTTAT
11445781 AAA
1 AAA
11445784 GTCATAAGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
27 5 0.10
28 19 0.39
29 7 0.14
30 13 0.27
31 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.29
Consensus pattern (29 bp):
AAAAATAGAAAAAAAATGTAAAATTTTAT
Found at i:11446078 original size:29 final size:30
Alignment explanation
Indices: 11446032--11446088 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
11446022 GTATTTTATA
*
11446032 AATTTTTTTATGATTTTTATAAAAATTTAC
1 AATTCTTTTATGATTTTTATAAAAATTTAC
*
11446062 AATTCTTTTAT-ATTTTTATTAAAATTT
1 AATTCTTTTATGATTTTTATAAAAATTT
11446089 GATAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (30 bp):
AATTCTTTTATGATTTTTATAAAAATTTAC
Found at i:11449498 original size:67 final size:67
Alignment explanation
Indices: 11449418--11449566 Score: 194
Period size: 67 Copynumber: 2.2 Consensus size: 67
11449408 ATTTTTTTTC
* * * * *
11449418 TCAAAAGTACTTTTTTATAGTAATGCTAAACACTTAAATTTTAAATTAAA-CTTTTCAAAAGTAC
1 TCAAAAATACTTTTTTACAGCAATACTAAACACTTAAATTTTAAATTAAACCTTTT-AAAAATAC
11449482 TTA
65 TTA
* * *
11449485 TCAAAAATACTTTTTGACAGCAATACTGAACATTTAAATTTTAAATTAAACCTTTTAAAAATACT
1 TCAAAAATACTTTTTTACAGCAATACTAAACACTTAAATTTTAAATTAAACCTTTTAAAAATACT
*
11449550 TC
66 TA
11449552 TCAAAAATA-TTTTTT
1 TCAAAAATACTTTTTT
11449567 CACAAACACA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
66 5 0.07
67 61 0.86
68 5 0.07
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (67 bp):
TCAAAAATACTTTTTTACAGCAATACTAAACACTTAAATTTTAAATTAAACCTTTTAAAAATACT
TA
Found at i:11450901 original size:30 final size:30
Alignment explanation
Indices: 11450867--11450931 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
11450857 CAACTTAACA
11450867 AACAAATACCTTTAAAATAATAACAAAATT
1 AACAAATACCTTTAAAATAATAACAAAATT
*
11450897 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATACCTTTAAAATAATAACAAAATT
11450927 AACAA
1 AACAA
11450932 TAAAATAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
AACAAATACCTTTAAAATAATAACAAAATT
Found at i:11450985 original size:22 final size:22
Alignment explanation
Indices: 11450960--11451007 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11450950 ATATCCAAAC
*
11450960 AATAATAACAAAATAGTAGTAA
1 AATAATAACAAAATAGTAGCAA
** *
11450982 AATAATAATGAAATGGTAGCAA
1 AATAATAACAAAATAGTAGCAA
11451004 AATA
1 AATA
11451008 GGGAGAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.23
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:11451153 original size:42 final size:43
Alignment explanation
Indices: 11451068--11451156 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
11451058 TGTCATTTAC
11451068 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
1 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
**
11451111 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAATTTTTTT
1 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
11451154 TTT
1 TTT
11451157 CAAGCCCATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (43 bp):
TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
Found at i:11454244 original size:19 final size:18
Alignment explanation
Indices: 11454220--11454255 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
11454210 AAGGAGAGGG
11454220 AAAGGAGAAGAAAGAAAAA
1 AAAGGAGAAG-AAGAAAAA
11454239 AAAGGAGAAGAAGAAAA
1 AAAGGAGAAGAAGAAAA
11454256 GGGAATGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGGAGAAGAAGAAAAA
Found at i:11454792 original size:153 final size:151
Alignment explanation
Indices: 11454619--11455692 Score: 1280
Period size: 153 Copynumber: 7.0 Consensus size: 151
11454609 AAATTGCATA
*
11454619 TTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
1 TTTAAAAAACAAACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* * * *
11454684 ATTAGAAAATATGATA-TTTTTTAAAGTAATAAAATGCGGAGAAAAAAATGCGAACAAATGACCG
66 ATTAGAAAATAT-ATATTTTTTTAAAGTAATAAAATTCGG-GAAAAAAATACGAACAAAGGGCCG
*
11454748 AAGTAAGGGTTTTTTACTAAATTT
129 AAATAAGGGTTTTTTA-TAAATTT
* *
11454772 TTTAAAAAACAGAAAT-AATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 TTTAAAAAACA-AACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* * * *
11454836 AA-TACGAAAATAATATATTTTTATTGAAATTAATAAAATTTGGG--AAAAATACGAGCAAAGAG
65 AATTA-GAAAAT-ATATATTTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGG
*
11454898 CCGAAATAAGGGTTTTTTTAAAAATTT
126 CCGAAATAAGGG-TTTTTTATAAATTT
* * *
11454925 ATTTAAAAAACAAACTAAATTTATTTAAATTTCAAACATAATATACTAAAATAATGTAAAATAGT
1 -TTTAAAAAACAAACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * *
11454990 AAAATTAGAAAATA-GTATTTTTTTAAAGTAATACAATTCAGGAAAAAAATACGAACAAAGGGCC
63 AAAATTAGAAAATATATATTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCC
* *
11455054 GAAATAAGGTTTTTTTACTAAAATT
128 GAAATAAGGGTTTTTTA-TAAATTT
*** * * * *
11455079 AAAAAAAAACAGAA-TTAATTAATACATTTTAAACATAATGTACTAAAATAAAGTAAAATAATAA
1 TTTAAAAAACA-AACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* * *
11455143 AATAAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGAAAAAAAATACGAGCAAAGGGC
65 AATTAGAAAAT-ATATATTTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGC
** *
11455208 AAAAATAATGGTTTTTT-TAAAATTT
127 CGAAATAAGGGTTTTTTAT-AAATTT
* *
11455233 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAGAATAATAA
1 -TTTAAAAAACAAACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
*
11455298 AATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGGCCG
65 AATTAGAAAATA-TATATTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCG
11455363 AAATAAGGGTTTTTTATTAAA---
129 AAATAAGGGTTTTTTA-TAAATTT
* * * * **
11455384 -TTAAAGAACAGAA-TTAATTAATACATTTTAAACATAATGTACTAAAATAAAATAAAATAATAA
1 TTTAAAAAACA-AACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* * *
11455447 AA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCAGGAAAAAAATACGAGCAAAGGG
65 AATTA-GAAAAT-ATATATTTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGG
** *
11455511 CAAAAATAAGAGTTTTTT-TAAAATTT
126 CCGAAATAAGGGTTTTTTAT-AAATTT
*
11455537 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 -TTTAAAAAACAAACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* * * *
11455602 AATTATAAAATA-ATATTTTTTTAAAGTAATACAATTCGGGAAAAAGAATACAAACAAAGGACCG
65 AATTAGAAAATATATATTTTTTTAAAGTAATAAAATTCGGGAAAAA-AATACGAACAAAGGGCCG
11455666 AAATAAGGGTTTTTTACTAAATTT
129 AAATAAGGGTTTTTTA-TAAATTT
11455690 TTT
1 TTT
11455693 TTGAAGTTGC
Statistics
Matches: 783, Mismatches: 96, Indels: 85
0.81 0.10 0.09
Matches are distributed among these distances:
148 2 0.00
149 70 0.09
150 7 0.01
151 118 0.15
152 52 0.07
153 194 0.25
154 86 0.11
155 189 0.24
156 63 0.08
157 2 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (151 bp):
TTTAAAAAACAAACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
ATTAGAAAATATATATTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAA
ATAAGGGTTTTTTATAAATTT
Found at i:11455223 original size:155 final size:152
Alignment explanation
Indices: 11454620--11455686 Score: 1245
Period size: 155 Copynumber: 7.0 Consensus size: 152
11454610 AATTGCATAT
* * *
11454620 TTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
1 TTAAAAAACAGAATTAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* * * *
11454685 TTAGAAAAT-ATGATA-TTTTTTAAAGTAATAAAATGCGGAGAAAAAAATGCGAACAAATGACCG
66 TTAGAAAATAAT-ATATTTTTTTAAAGTAATAAAATTC-G-GAAAAAAATACGAACAAAGGGCCG
* *
11454748 AAGTAAGGGTTTTTTACT-AAATTTT
128 AAATAAGGGTTTTTTA-TAAAATTTA
* *
11454773 TTAAAAAACAGAAATAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
1 TTAAAAAACAGAATTAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* * * * *
11454838 -TACGAAAATAATATATTTTTATTGAAATTAATAAAATTTGG-GAAAAATACGAGCAAAGAGCCG
66 TTA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGGAAAAAAATACGAACAAAGGGCCG
11454901 AAATAAGGGTTTTTT-TAAAAATTTA
128 AAATAAGGGTTTTTTAT-AAAATTTA
* * * *
11454926 TTTAAAAAACA-AACTAAATTTATTTAAATTTCAAACATAATATACTAAAATAATGTAAAATAGT
1 -TTAAAAAACAGAA-TTAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* *
11454990 AAAATTAGAAAAT-A-GTATTTTTTTAAAGTAATACAATTCAGGAAAAAAATACGAACAAAGGGC
62 AAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATTC-GGAAAAAAATACGAACAAAGGGC
*
11455053 CGAAATAAGGTTTTTTTACTAAAA-TTA
126 CGAAATAAGGGTTTTTTA-TAAAATTTA
** * * *
11455080 AAAAAAAACAGAATTAATTAATACATTTTAAACATAATGTACTAAAATAAAGTAAAATAATAAAA
1 TTAAAAAACAGAATTAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* * **
11455145 TAAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGAAAAAAAATACGAGCAAAGGGCAA
66 TTAGAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGG-AAAAAAATACGAACAAAGGGCCG
*
11455210 AAATAATGGTTTTTT-TAAAATTTA
128 AAATAAGGGTTTTTTATAAAATTTA
* * * *
11455234 TTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAGAATAATAAA
1 -TTAAAAAACAGAATTAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
11455299 ATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGGCCGA
65 ATTAGAAAATAATATATTTTTTTAAAGTAATAAAATTC-GGAAAAAAATACGAACAAAGGGCCGA
*
11455364 AATAAGGGTTTTTTAT-TAA---A
129 AATAAGGGTTTTTTATAAAATTTA
* * * **
11455384 TTAAAGAACAGAATTAATTAATACATTTTAAACATAATGTACTAAAATAAAATAAAATAATAAAA
1 TTAAAAAACAGAATTAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* * *
11455449 -TACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCAGGAAAAAAATACGAGCAAAGGGCA
66 TTA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATTC-GGAAAAAAATACGAACAAAGGGCC
* *
11455513 AAAATAAGAGTTTTTT-TAAAATTTA
127 GAAATAAGGGTTTTTTATAAAATTTA
* * *
11455538 TTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
1 -TTAAAAAACAGAATTAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* * * *
11455603 ATTATAAAAT-A-ATATTTTTTTAAAGTAATACAATTCGGGAAAAAGAATACAAACAAAGGACCG
65 ATTAGAAAATAATATATTTTTTTAAAGTAATAAAATTC-GGAAAAA-AATACGAACAAAGGGCCG
11455666 AAATAAGGGTTTTTTACTAAA
128 AAATAAGGGTTTTTTA-TAAA
11455687 TTTTTTTTGA
Statistics
Matches: 777, Mismatches: 99, Indels: 75
0.82 0.10 0.08
Matches are distributed among these distances:
148 2 0.00
149 71 0.09
150 4 0.01
151 121 0.16
152 47 0.06
153 192 0.25
154 82 0.11
155 194 0.25
156 62 0.08
157 2 0.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (152 bp):
TTAAAAAACAGAATTAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
TTAGAAAATAATATATTTTTTTAAAGTAATAAAATTCGGAAAAAAATACGAACAAAGGGCCGAAA
TAAGGGTTTTTTATAAAATTTA
Found at i:11455445 original size:13 final size:13
Alignment explanation
Indices: 11455427--11455459 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11455417 ATAATGTACT
11455427 AAAATAAAATA-A
1 AAAATAAAATACA
11455439 AATAATAAAATACA
1 AA-AATAAAATACA
11455453 AAAATAA
1 AAAATAA
11455460 TATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAAATACA
Found at i:11455497 original size:304 final size:300
Alignment explanation
Indices: 11454617--11455688 Score: 1646
Period size: 304 Copynumber: 3.5 Consensus size: 300
11454607 AAAAATTGCA
11454617 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * * *
11454682 AAATTAGAAAAT-ATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATGCGAACAAATGAC
66 AAATTAGAAAATAAT-AT-TTTTTTAAAGTAATACAATTCGG-GAAAAAAATACGAACAAAGGAC
* * *
11454746 CGAAGTAAGGGTTTTTTACTAAATTTTTTAAAAAACAGAAATAATTAATACATTTCAAACATAAT
128 CGAAATAAGGGTTTTTTACTAAA----TTAAAAAACAGAATTAATTAATACATTTTAAACATAAT
* * *
11454811 GTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAATTAATAAAATT
189 GTACTAAAATAAAGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATT
* * * **
11454876 TGG-GAAAAATACGAGCAAAGAGCCGAAATAAGGGTTTTTTTAAAAATT
254 CGGAAAAAAATACGAGCAAAGGGCAAAAATAA-GGTTTTTTT-AAAATT
* * * *
11454924 TATTTAAAAAACAAACTAAATTTATTTAAATTTCAAACATAATATACTAAAATAATGTAAAATAG
1 TATTTAAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * *
11454989 TAAAATTAGAAAATAGTATTTTTTTAAAGTAATACAATTCAGGAAAAAAATACGAACAAAGGGCC
64 TAAAATTAGAAAATAATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGACC
*
11455054 GAAATAAGGTTTTTTTACTAAAATTAAAAAAAAACAGAATTAATTAATACATTTTAAACATAATG
129 GAAATAAGGGTTTTTTACT-AAATT---AAAAAACAGAATTAATTAATACATTTTAAACATAATG
11455119 TACTAAAATAAAGTAAAATAATAAAATA-AGAAAATAATATATTTTTATTGAAAGTAATAAAATT
190 TACTAAAATAAAGTAAAATAATAAAATACA-AAAATAATATATTTTTATTGAAAGTAATAAAATT
11455183 CGGAAAAAAAATACGAGCAAAGGGCAAAAATAATGGTTTTTTTAAAATT
254 CGG-AAAAAAATACGAGCAAAGGGCAAAAATAA-GGTTTTTTTAAAATT
*
11455232 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAGAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
11455297 AAATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGGCC
66 AAATTAGAAAATA--ATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGACC
* *
11455362 GAAATAAGGGTTTTTTATTAAATTAAAGAACAGAATTAATTAATACATTTTAAACATAATGTACT
129 GAAATAAGGGTTTTTTACTAAATTAAAAAACAGAATTAATTAATACATTTTAAACATAATGTACT
*
11455427 AAAATAAAATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCAGGA
194 AAAATAAAGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTC-GGA
11455492 AAAAAATACGAGCAAAGGGCAAAAATAAGAGTTTTTTTAAAATT
258 AAAAAATACGAGCAAAGGGCAAAAATAAG-GTTTTTTTAAAATT
11455536 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
11455601 AAATTATAAAATAATATTTTTTTAAAGTAATACAATTCGGGAAAAAGAATACAAACAAAGGACCG
66 AAATTAGAAAATAATATTTTTTTAAAGTAATACAATTCGGGAAAAA-AATACGAACAAAGGACCG
11455666 AAATAAGGGTTTTTTACTAAATT
130 AAATAAGGGTTTTTTACTAAATT
11455689 TTTTTTGAAG
Statistics
Matches: 709, Mismatches: 40, Indels: 36
0.90 0.05 0.05
Matches are distributed among these distances:
302 33 0.05
303 39 0.06
304 219 0.31
305 3 0.00
306 51 0.07
307 161 0.23
308 116 0.16
309 86 0.12
310 1 0.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (300 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATAATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGACCGA
AATAAGGGTTTTTTACTAAATTAAAAAACAGAATTAATTAATACATTTTAAACATAATGTACTAA
AATAAAGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGAAAA
AAATACGAGCAAAGGGCAAAAATAAGGTTTTTTTAAAATT
Found at i:11458060 original size:124 final size:124
Alignment explanation
Indices: 11457755--11458129 Score: 689
Period size: 124 Copynumber: 3.0 Consensus size: 124
11457745 ATATAATGTT
11457755 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
1 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
11457820 CTGAATTTAAGTTAATGGGTGTT-AAACAACATTGCAACATCCGAACATTACACATAAC
66 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
11457878 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
1 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
*
11457943 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACAGAAC
66 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
* *
11458002 AATTATTCCGAATGAATTATACTTTTTATAACTTAATTTGGATTCAATTTAAGCATAAGCATAAG
1 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
* **
11458067 CTGAATTTACGTTAATGGGTGTTAAAACAACATTGCAACATTTGAACATTACACATAAC
66 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
11458126 AATT
1 AATT
11458130 TGACAGCATT
Statistics
Matches: 244, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
123 88 0.36
124 156 0.64
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (124 bp):
AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
Found at i:11461086 original size:37 final size:38
Alignment explanation
Indices: 11461002--11461088 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 38
11460992 ACTAACACAA
* *
11461002 TAACAATAATAATAGTTTTATACTCAAAATTATACTAAC
1 TAACAATAATAATAGGTTTATACTCAAAA-TATAATAAC
11461041 TAACAATAATAATTAGGGTTT-TACT-AAAA-ATAATAAC
1 TAACAATAATAA-TA-GGTTTATACTCAAAATATAATAAC
11461078 TAACAATAATA
1 TAACAATAATA
11461089 TAATGTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 18 0.41
39 16 0.36
40 6 0.14
41 4 0.09
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (38 bp):
TAACAATAATAATAGGTTTATACTCAAAATATAATAAC
Found at i:11461197 original size:41 final size:41
Alignment explanation
Indices: 11461099--11461197 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 41
11461089 TAATGTAAAA
* *
11461099 ACTAACAATCATACT-AGCTAAAATAATAATTAGGGTTTTT
1 ACTAACAATAATACTAACCTAAAATAATAATTAGGGTTTTT
* *
11461139 ACTAATC-CTAATAACTAACCATAATAATAAT-ATTA-GTTTTTT
1 ACTAA-CAATAAT-ACTAACC-TAA-AATAATAATTAGGGTTTTT
11461181 ACTAACAATAATACTAA
1 ACTAACAATAATACTAA
11461198 GTAACAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
40 8 0.17
41 10 0.21
42 17 0.35
43 7 0.15
44 6 0.12
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.35
Consensus pattern (41 bp):
ACTAACAATAATACTAACCTAAAATAATAATTAGGGTTTTT
Found at i:11469542 original size:41 final size:41
Alignment explanation
Indices: 11469484--11469588 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
11469474 TCTGATTCAA
* * * *
11469484 TTCACCGGCAATTAGCCTGCTAGACTTAAAGTCCGAATTAT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATAAC
11469525 TTCACCGGCACA-AAGCCTGCTAGACATAAAGTCCGAATAAC
1 TTCACCGGCA-ATAAGCCTGCTAGACATAAAGTCCGAATAAC
** *
11469566 TTCACCGGCCTTAAGCCTACTAG
1 TTCACCGGCAATAAGCCTGCTAG
11469589 GTTTTAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 54 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (41 bp):
TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATAAC
Found at i:11471281 original size:13 final size:13
Alignment explanation
Indices: 11471263--11471287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11471253 TCAAACTATC
11471263 AAATTTTCACACG
1 AAATTTTCACACG
11471276 AAATTTTCACAC
1 AAATTTTCACAC
11471288 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:11473610 original size:56 final size:55
Alignment explanation
Indices: 11473523--11473631 Score: 164
Period size: 56 Copynumber: 2.0 Consensus size: 55
11473513 AAGAACTAAG
* * * *
11473523 GATGATACTGGATCGAACCAGAATCTGGGGGCTGAAACTGTAAATAAATAAGAAT
1 GATGATACCGGATCGAACCAAAATCTAGGGGCTGAAACTATAAATAAATAAGAAT
*
11473578 GATGATACCGGAATCGAACCAAAATTTAGGGGCTGAAACTATAAATAAATAAGA
1 GATGATACCGG-ATCGAACCAAAATCTAGGGGCTGAAACTATAAATAAATAAGA
11473632 GTCATTAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 10 0.21
56 38 0.79
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (55 bp):
GATGATACCGGATCGAACCAAAATCTAGGGGCTGAAACTATAAATAAATAAGAAT
Found at i:11474493 original size:20 final size:21
Alignment explanation
Indices: 11474460--11474507 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
11474450 GTCGTTATTC
11474460 TTTTTTGTCTTTTTCATTTGTT
1 TTTTTTGTCTTTTT-ATTTGTT
*
11474482 TTTTTTG-C-TTTTGTTTGTT
1 TTTTTTGTCTTTTTATTTGTT
11474501 TATTTTT
1 T-TTTTT
11474508 TTCTCTACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 9 0.38
21 1 0.04
22 7 0.29
ACGTcount: A:0.04, C:0.06, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTTTTGTCTTTTTATTTGTT
Found at i:11474715 original size:17 final size:19
Alignment explanation
Indices: 11474687--11474724 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
11474677 TGAATTTTTT
11474687 TTTAGTTTTGGGCT-AGGG
1 TTTAGTTTTGGGCTGAGGG
11474705 TTTAG-TTTGGGCTGAGGG
1 TTTAGTTTTGGGCTGAGGG
11474723 TT
1 TT
11474725 AATTTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.11, C:0.05, G:0.39, T:0.45
Consensus pattern (19 bp):
TTTAGTTTTGGGCTGAGGG
Found at i:11474730 original size:17 final size:17
Alignment explanation
Indices: 11474693--11474730 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11474683 TTTTTTTAGT
*
11474693 TTTGGGCTAGGGTTTAG
1 TTTGGGCTAGGGTTTAA
11474710 TTTGGGCTGAGGG-TTAA
1 TTTGGGCT-AGGGTTTAA
11474727 TTTG
1 TTTG
11474731 TATTTGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.13, C:0.05, G:0.39, T:0.42
Consensus pattern (17 bp):
TTTGGGCTAGGGTTTAA
Found at i:11475694 original size:27 final size:28
Alignment explanation
Indices: 11475646--11475702 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
11475636 TTTATTTTTT
* *
11475646 ATTTTTTATTTTTATTCAATATATAATTA
1 ATTTTTAATTTTTATT-AATATAAAATTA
11475675 ATTTTTAATTTTTATT-ATATAAAATTA
1 ATTTTTAATTTTTATTAATATAAAATTA
11475702 A
1 A
11475703 ATATTGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 11 0.42
29 15 0.58
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTTTTAATTTTTATTAATATAAAATTA
Found at i:11484754 original size:18 final size:18
Alignment explanation
Indices: 11484702--11484760 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
11484692 CATTATCATC
*
11484702 ATCTTCATC-TCTATCTCT
1 ATCTTCATCTTC-ATCTTT
* *
11484720 ATCTCCAATGTT-ATCTTT
1 ATCTTC-ATCTTCATCTTT
*
11484738 ATCTTCATCTTCATCTTC
1 ATCTTCATCTTCATCTTT
11484756 ATCTT
1 ATCTT
11484761 GTTTTTCCGT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 4 0.12
18 25 0.78
19 2 0.06
20 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.02, T:0.51
Consensus pattern (18 bp):
ATCTTCATCTTCATCTTT
Found at i:11488608 original size:27 final size:27
Alignment explanation
Indices: 11488565--11488629 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
11488555 AGCCGAGCTG
*
11488565 CCAGT-ACAGTATATGTGGCATAGCCA
1 CCAGTAACAGTATATGTGGCAGAGCCA
11488591 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGAGCCA
* *
11488618 CAAGAAACAGTA
1 CCAGTAACAGTA
11488630 CTTCCTCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.18
27 26 0.76
28 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGAGCCA
Found at i:11488852 original size:26 final size:26
Alignment explanation
Indices: 11488798--11489125 Score: 310
Period size: 26 Copynumber: 12.6 Consensus size: 26
11488788 CCCTTCTGGA
*
11488798 GGTATTTCAATAATTTTACCC-TAC-AGG
1 GGTATTTCGATAA-TTTACCCAT-CGA-G
*
11488825 GGTATTTCGATAATTTACCCATCGGG
1 GGTATTTCGATAATTTACCCATCGAG
* * *
11488851 GGTATTT-TAGTAATTTACCTATTGAG
1 GGTATTTCGA-TAATTTACCCATCGAG
* * *
11488877 AGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* **
11488903 GGTATTTTGGCAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
11488929 GGT-TTCCGATAATTTACCCATTGAG
1 GGTATTTCGATAATTTACCCATCGAG
*
11488954 GGTATTTCTG-TGATTTACCCATCGAG
1 GGTATTTC-GATAATTTACCCATCGAG
*
11488980 GGTATTTCGATAATTTACCCATCGAT
1 GGTATTTCGATAATTTACCCATCGAG
* *
11489006 GGTATTTC-AGTAATTTACCTATTGAG
1 GGTATTTCGA-TAATTTACCCATCGAG
*
11489032 GGTATTTCTG-TAATTTACCCATTGAG
1 GGTATTTC-GATAATTTACCCATCGAG
* * * *
11489058 GGTATTTTGGTAATTTACACATTGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
11489084 GGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
11489110 GGTATTTTGGTAATTT
1 GGTATTTCGATAATTT
11489126 TTATTCGTGT
Statistics
Matches: 259, Mismatches: 31, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.09
26 221 0.85
27 14 0.05
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (26 bp):
GGTATTTCGATAATTTACCCATCGAG
Found at i:11488891 original size:52 final size:52
Alignment explanation
Indices: 11488824--11489125 Score: 385
Period size: 52 Copynumber: 5.8 Consensus size: 52
11488814 TACCCTACAG
* * *
11488824 GGGTATTTCGATAATTTACCCATCGGGGGTATTTTAGTAATTTACCTATTGA
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATTGA
* * * * *
11488876 GAGTATTTTGGTAATTTACCCATCGAGGGTATTTTGGCAATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATTGA
* * * *
11488928 GGGT-TTCCGATAATTTACCCATTGAGGGTATTTCT-GTGATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTT-TGGTAATTTACCCATTGA
* ** *
11488979 GGGTATTTCGATAATTTACCCATCGATGGTATTTCAGTAATTTACCTATTGA
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATTGA
* *
11489031 GGGTATTTCTG-TAATTTACCCATTGAGGGTATTTTGGTAATTTACACATTGA
1 GGGTATTTC-GATAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATTGA
* *
11489083 GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTGGTAATTT
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATTT
11489126 TTATTCGTGT
Statistics
Matches: 215, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
51 44 0.20
52 170 0.79
53 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (52 bp):
GGGTATTTCGATAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATTGA
Found at i:11488907 original size:78 final size:78
Alignment explanation
Indices: 11488824--11489125 Score: 378
Period size: 78 Copynumber: 3.9 Consensus size: 78
11488814 TACCCTACAG
* * * *
11488824 GGGTATTTCGATAATTTACCCATCGGGGGTATTTTAGTAATTTACCTATTGAGAGTATTT-TGGT
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTCAGTAATTTACCCATTGAGGGTATTTCT-GT
11488888 AATTTACCCATCGA
65 AATTTACCCATCGA
* ** *
11488902 GGGTATTTTGGCAATTTACCCATCGAGGG--TTTCCGATAATTTACCCATTGAGGGTATTTCTGT
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTCAG-TAATTTACCCATTGAGGGTATTTCTGT
*
11488965 GATTTACCCATCGA
65 AATTTACCCATCGA
* *
11488979 GGGTATTTCGATAATTTACCCATCGATGGTATTTCAGTAATTTACCTATTGAGGGTATTTCTGTA
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTCAGTAATTTACCCATTGAGGGTATTTCTGTA
*
11489044 ATTTACCCATTGA
66 ATTTACCCATCGA
* * * * ** *
11489057 GGGTATTTTGGTAATTTACACATTGAGGGTATTTTGGTAATTTACCCATCGAGGGTATTT-TGGT
1 GGGTATTTCGATAATTTACCCATCGAGGGTATTTCAGTAATTTACCCATTGAGGGTATTTCT-GT
11489121 AATTT
65 AATTT
11489126 TTATTCGTGT
Statistics
Matches: 193, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
76 4 0.02
77 62 0.32
78 122 0.63
79 5 0.03
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (78 bp):
GGGTATTTCGATAATTTACCCATCGAGGGTATTTCAGTAATTTACCCATTGAGGGTATTTCTGTA
ATTTACCCATCGA
Found at i:11491014 original size:25 final size:26
Alignment explanation
Indices: 11490986--11491065 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 26
11490976 GAAAGAGCCT
*
11490986 TTAATCGGGAAGCTCCGGAGAGCT-A
1 TTAATCGGGAAGCTCCGAAGAGCTAA
* **
11491011 TTAATCAGGAAGCTCATAAGAGCTAA
1 TTAATCGGGAAGCTCCGAAGAGCTAA
*
11491037 TT-ATCGGGAAGCTCCGAAGAGCCAA
1 TTAATCGGGAAGCTCCGAAGAGCTAA
11491062 TTAA
1 TTAA
11491066 CAGGACACTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
25 41 0.91
26 4 0.09
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
TTAATCGGGAAGCTCCGAAGAGCTAA
Found at i:11491051 original size:50 final size:50
Alignment explanation
Indices: 11490989--11491085 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 50
11490979 AGAGCCTTTA
* *
11490989 ATCGGGAAGCTCCGGAGAG-CTATTAATCAGGA-AGCTCATAAGAGCTAATT
1 ATCGGGAAGCTCCGAAGAGCCAATTAA-CAGGACA-CTCATAAGAGCTAATT
11491039 ATCGGGAAGCTCCGAAGAGCCAATTAACAGGACACTCATAAGAGCTA
1 ATCGGGAAGCTCCGAAGAGCCAATTAACAGGACACTCATAAGAGCTA
11491086 CGGTGTGTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 36 0.84
51 7 0.16
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (50 bp):
ATCGGGAAGCTCCGAAGAGCCAATTAACAGGACACTCATAAGAGCTAATT
Found at i:11491081 original size:25 final size:25
Alignment explanation
Indices: 11491010--11491083 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
11491000 CCGGAGAGCT
*
11491010 ATTAATCAGGAAGCTCATAAGAGCTA
1 ATTAA-CAGGAAGCTCATAAGAGCCA
* * **
11491036 ATTATCGGGAAGCTCCGAAGAGCCA
1 ATTAACAGGAAGCTCATAAGAGCCA
11491061 ATTAACAGGACA-CTCATAAGAGC
1 ATTAACAGGA-AGCTCATAAGAGC
11491084 TACGGTGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 33 0.87
26 5 0.13
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (25 bp):
ATTAACAGGAAGCTCATAAGAGCCA
Found at i:11495720 original size:12 final size:12
Alignment explanation
Indices: 11495700--11495733 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11495690 ATGGAAGATA
11495700 TTCACAATTTCT
1 TTCACAATTTCT
*
11495712 TTCATAA-TTCT
1 TTCACAATTTCT
11495723 TTCACAATTTC
1 TTCACAATTTC
11495734 GATATAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (12 bp):
TTCACAATTTCT
Found at i:11498683 original size:20 final size:20
Alignment explanation
Indices: 11498641--11498683 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
11498631 AATTCGGCCA
*
11498641 TCACATATTCATTTCACATT
1 TCACATATTCATTTCAAATT
*
11498661 TCACAT-TTCGTTTCAAATAT
1 TCACATATTCATTTCAAAT-T
11498681 TCA
1 TCA
11498684 TATCAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.44
Consensus pattern (20 bp):
TCACATATTCATTTCAAATT
Found at i:11511560 original size:36 final size:36
Alignment explanation
Indices: 11511520--11511598 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
11511510 CGAGCCATTA
*
11511520 GTGTGTTATCAGGTAGATT-GCTCTTATGAGCATCTG
1 GTGTGTT-TCAGATAGATTAGCTCTTATGAGCATCTG
* *
11511556 GTGTGTTTCAGATGGATTAGCTCTTATGATCATCTG
1 GTGTGTTTCAGATAGATTAGCTCTTATGAGCATCTG
11511592 GTGTGTT
1 GTGTGTT
11511599 CCAGTTGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 9 0.23
36 30 0.77
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.42
Consensus pattern (36 bp):
GTGTGTTTCAGATAGATTAGCTCTTATGAGCATCTG
Found at i:11513867 original size:17 final size:19
Alignment explanation
Indices: 11513845--11513883 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11513835 TTTACAAAAC
11513845 TATAAT-TC-GTCAAATCA
1 TATAATATCTGTCAAATCA
*
11513862 TATAATATCTGTCAATTCA
1 TATAATATCTGTCAAATCA
11513881 TAT
1 TAT
11513884 TCAAGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (19 bp):
TATAATATCTGTCAAATCA
Found at i:11513953 original size:25 final size:25
Alignment explanation
Indices: 11513892--11513997 Score: 92
Period size: 25 Copynumber: 4.3 Consensus size: 25
11513882 ATTCAAGAAT
*
11513892 GCTCATGTGAG-CATATAAACGGGTA
1 GCTCATGTGAGCCATAT-AACGGGAA
* *
11513917 TCTC-TTTCGAGCCATATAACGGGAA
1 GCTCATGT-GAGCCATATAACGGGAA
* *
11513942 GCTCATGTGAGCCATGTAACGAGAA
1 GCTCATGTGAGCCATATAACGGGAA
*** *
11513967 GCTCAAAAGAGCCATAT-TCGGGAA
1 GCTCATGTGAGCCATATAACGGGAA
11513991 GCTCATG
1 GCTCATG
11513998 AAAGAGCCTT
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
24 12 0.19
25 44 0.70
26 7 0.11
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (25 bp):
GCTCATGTGAGCCATATAACGGGAA
Found at i:11514245 original size:22 final size:22
Alignment explanation
Indices: 11514202--11514245 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11514192 TACACCAAAA
* **
11514202 TAGGTTTTTAGCGGCGTTTTTT
1 TAGGCTTTTAGCGGCGCCTTTT
*
11514224 TAGGCTTTTAGTGGCGCCTTTT
1 TAGGCTTTTAGCGGCGCCTTTT
11514246 AGCGCCACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.50
Consensus pattern (22 bp):
TAGGCTTTTAGCGGCGCCTTTT
Found at i:11514457 original size:86 final size:86
Alignment explanation
Indices: 11514309--11514468 Score: 230
Period size: 86 Copynumber: 1.9 Consensus size: 86
11514299 TAAGGTCTAT
* ** * * *
11514309 AAATGCCGCTAAAGGTCTTGTTCTTTAGCGGCGCTTTCCCCACAAACGCTGCTAAAGGTCATGAC
1 AAATGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGAC
11514374 TTTTAGCGGCTCTTTTCCCGC
66 TTTTAGCGGCTCTTTTCCCGC
* * * *
11514395 AAATGCCGCTATAGGTCATGACCTTTAGCGACGCTTTTCCCACAAATGCCGCTATAGATCATGAC
1 AAATGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGAC
11514460 TTTTAGCGG
66 TTTTAGCGG
11514469 TGCTTTCCCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 64 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (86 bp):
AAATGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGAC
TTTTAGCGGCTCTTTTCCCGC
Found at i:11514491 original size:42 final size:43
Alignment explanation
Indices: 11514332--11514491 Score: 205
Period size: 43 Copynumber: 3.7 Consensus size: 43
11514322 GGTCTTGTTC
* * *
11514332 TTTAGCGGCGCTTTCCCCACAAACGCTGCTAAAGGTCATGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
* * * *
11514375 TTTAGCGGCTCTTTTCCCGCAAATGCCGCTATAGGTCATGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
* * *
11514418 TTTAGCGACGCTTTTCCCACAAATGCCGCTATAGATCATGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
* *
11514461 TTTAGCGGTGC-TTTCCCACAAACGCTGCTAT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAT
11514492 TGTTTGGTGA
Statistics
Matches: 101, Mismatches: 16, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
42 18 0.18
43 83 0.82
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
Found at i:11514509 original size:86 final size:86
Alignment explanation
Indices: 11514313--11514491 Score: 218
Period size: 86 Copynumber: 2.1 Consensus size: 86
11514303 GTCTATAAAT
* * ** * * *
11514313 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGCTTTCCCCACAAACGCTGCTAAAGGTCATGACTTTT
1 GCCGCTATAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGACTTTT
* *
11514378 AGCGGCTCTTTTCCCGCAAAT
66 AGCGGCTCTTTTCCCACAAAC
* * *
11514399 GCCGCTATAGGTCATGACCTTTAGCGACGCTTTTCCCACAAATGCCGCTATAGATCATGACTTTT
1 GCCGCTATAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGACTTTT
11514464 AGCGG-TGC-TTTCCCACAAAC
66 AGCGGCT-CTTTTCCCACAAAC
*
11514484 GCTGCTAT
1 GCCGCTAT
11514492 TGTTTGGTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
85 18 0.23
86 61 0.77
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (86 bp):
GCCGCTATAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGACTTTT
AGCGGCTCTTTTCCCACAAAC
Found at i:11515230 original size:21 final size:21
Alignment explanation
Indices: 11515206--11515249 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11515196 AGTTTATATA
11515206 TAAGTT-TCTATATAAGTTATG
1 TAAGTTAT-TATATAAGTTATG
*
11515227 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
11515248 TA
1 TA
11515250 TTATGTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTATTATATAAGTTATG
Found at i:11515237 original size:12 final size:12
Alignment explanation
Indices: 11515222--11515246 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11515212 TCTATATAAG
11515222 TTATGTAAGTTA
1 TTATGTAAGTTA
11515234 TTATGTAAGTTA
1 TTATGTAAGTTA
11515246 T
1 T
11515247 GTATTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:11515380 original size:19 final size:19
Alignment explanation
Indices: 11515358--11515398 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11515348 GATATGATTG
*
11515358 ATAAGTTTTGAAA-AAATAT
1 ATAAATTTT-AAATAAATAT
11515377 ATAAATTTTAAATAAATAT
1 ATAAATTTTAAATAAATAT
11515396 ATA
1 ATA
11515399 TATTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATAAATTTTAAATAAATAT
Found at i:11515408 original size:19 final size:19
Alignment explanation
Indices: 11515371--11515423 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
11515361 AGTTTTGAAA
* **
11515371 AAATATATAAATTTTAAAT
1 AAATATATATATTAAAAAT
11515390 AAATATATATATTAAAAAT
1 AAATATATATATTAAAAAT
** *
11515409 GTATATAAATATTAA
1 AAATATATATATTAA
11515424 TAAGTAATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATATATATATTAAAAAT
Found at i:11515927 original size:14 final size:14
Alignment explanation
Indices: 11515908--11515937 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11515898 ATCGAAGAGC
*
11515908 AAGATGATTAACTA
1 AAGATGATCAACTA
11515922 AAGATGATCAACTA
1 AAGATGATCAACTA
11515936 AA
1 AA
11515938 AAACCTTTTA
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:0.53, C:0.10, G:0.13, T:0.23
Consensus pattern (14 bp):
AAGATGATCAACTA
Found at i:11516934 original size:16 final size:16
Alignment explanation
Indices: 11516915--11516965 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
11516905 CTCCGACGAC
11516915 AGAGGAGTGCGACGGT
1 AGAGGAGTGCGACGGT
**
11516931 AGAGGACAGCGACGGT
1 AGAGGAGTGCGACGGT
* *
11516947 TGACGAGTGCGACGGT
1 AGAGGAGTGCGACGGT
11516963 AGA
1 AGA
11516966 TGAGCAACGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.27, C:0.16, G:0.45, T:0.12
Consensus pattern (16 bp):
AGAGGAGTGCGACGGT
Found at i:11517311 original size:40 final size:42
Alignment explanation
Indices: 11517263--11517372 Score: 122
Period size: 40 Copynumber: 2.7 Consensus size: 42
11517253 TTTTGACAAC
11517263 AAACGCCGCTAAAAATTGAGCATTAGCGGCGCA-CTACAT-A
1 AAACGCCGCTAAAAATTGAGCATTAGCGGCGCATCTACATGA
* ** * * *
11517303 AAACGCCGCTAAAGATCAAGCATTAGC-G-GCATTTTCCTGA
1 AAACGCCGCTAAAAATTGAGCATTAGCGGCGCATCTACATGA
*
11517343 AAGCGCCGCTAAAAA-TGAGCATTAGCGGCG
1 AAACGCCGCTAAAAATTGAGCATTAGCGGCG
11517373 TTTTTGCAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
38 3 0.05
39 13 0.23
40 39 0.70
41 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (42 bp):
AAACGCCGCTAAAAATTGAGCATTAGCGGCGCATCTACATGA
Done.