Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 1 of 356
Found at i:3026 original size:22 final size:21
Alignment explanation
Indices: 2996--3053 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
2986 AAGAAAACAG
2996 AAGAGAAGGAAAAAACAGTAGTT
1 AAGA-AAGGAAAAAACAGTAG-T
* *
3019 AAGAAAGGAGAAAGACATTAGT
1 AAGAAAGGA-AAAAACAGTAGT
* *
3041 AATAAGGGAAAAA
1 AAGAAAGGAAAAA
3054 CAGGAGAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.10
22 13 0.45
23 13 0.45
ACGTcount: A:0.59, C:0.03, G:0.26, T:0.12
Consensus pattern (21 bp):
AAGAAAGGAAAAAACAGTAGT
Found at i:3498 original size:47 final size:47
Alignment explanation
Indices: 3444--3539 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 47
3434 CTTCAATACA
*
3444 GTTACATACAATATCTTTACCGGATTCAAAC-CACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCGGATTC-AACTCACCTAATCAAGCTTT
* * *
3491 GTTACATACAATATCTCTATCTGATTCAGCTCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCGGATTCAACTCACCTAATCAAGCTTT
3538 GT
1 GT
3540 ACGTTAGGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 2 0.05
47 42 0.95
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCGGATTCAACTCACCTAATCAAGCTTT
Found at i:5468 original size:35 final size:35
Alignment explanation
Indices: 5336--5468 Score: 114
Period size: 35 Copynumber: 3.9 Consensus size: 35
5326 GCATTGTATA
* * *
5336 ACTTAGCTTTCAATGCATACTTCTTCTTCTCAA-AC
1 ACTTAGCCTTCAAGGCATACTTCTACTTCT-AAGAC
* * * * *
5371 ACTTAACCTACGAGACATACTCTCTA-TTCTTAGAC
1 ACTTAGCCTTCAAGGCATACT-TCTACTTCTAAGAC
*
5406 AC--AGCCTTCAAGGCATGCTTCGT-CTTCTAAGAC
1 ACTTAGCCTTCAAGGCATACTTC-TACTTCTAAGAC
*
5439 ACTTAGCCTTCAAGGCATACTTCAACTTCT
1 ACTTAGCCTTCAAGGCATACTTCTACTTCT
5469 CAAACAACTA
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
32 2 0.03
33 23 0.31
34 1 0.01
35 46 0.61
36 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (35 bp):
ACTTAGCCTTCAAGGCATACTTCTACTTCTAAGAC
Found at i:8116 original size:105 final size:105
Alignment explanation
Indices: 7995--8200 Score: 324
Period size: 105 Copynumber: 2.0 Consensus size: 105
7985 CCAGTAACCA
* * * *
7995 AAACCTAAGAAATCCACAGCCCTAAACACTTAA-ACGAAAGCTCAAAAATACCAGCCCAACCGTA
1 AAACCTAAGAAATCCACAGCCCCAAACACTTAAGA-GAAAGCCCAAAAACACCAACCCAACCGTA
* *
8059 AAACTTAAGCCTCAAACCCAAGCCCCAAGCTTCAAACCCTT
65 AAACTTAAGCCTCAAACCCAAGCCCCAAACCTCAAACCCTT
*
8100 AAACCTAAGAAGTCCACAGCCCCAAACACTTAAGAGAAAGCCCAAAAACACCAACCCAACCGTAA
1 AAACCTAAGAAATCCACAGCCCCAAACACTTAAGAGAAAGCCCAAAAACACCAACCCAACCGTAA
*
8165 ACCTTAAGCCTCAAACCCAAGCCCCAAACCTCAAAC
66 AACTTAAGCCTCAAACCCAAGCCCCAAACCTCAAAC
8201 TTTTAGACCC
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 91 0.99
106 1 0.01
ACGTcount: A:0.44, C:0.36, G:0.09, T:0.12
Consensus pattern (105 bp):
AAACCTAAGAAATCCACAGCCCCAAACACTTAAGAGAAAGCCCAAAAACACCAACCCAACCGTAA
AACTTAAGCCTCAAACCCAAGCCCCAAACCTCAAACCCTT
Found at i:13353 original size:35 final size:35
Alignment explanation
Indices: 13307--13463 Score: 196
Period size: 35 Copynumber: 4.5 Consensus size: 35
13297 TCTTAGACAC
* *
13307 AGCCTTCAAGGCATACTTCATCTTCTTCGGCACTT
1 AGCCTTCAAGGCATACTTCGTCTTCTTCGACACTT
* * * *
13342 AGCCTTTAAGGCAAACTTCGTCTTC-TCAAATACTT
1 AGCCTTCAAGGCATACTTCGTCTTCTTC-GACACTT
*
13377 AGCCTTCAAGGCATGCTTCGTCTTCTAT-GACACTT
1 AGCCTTCAAGGCATACTTCGTCTTCT-TCGACACTT
*
13412 AGCCTTCAAGGCATACTTCGTCTTCTTAGACAC--
1 AGCCTTCAAGGCATACTTCGTCTTCTTCGACACTT
13445 AGCCTTCAAGGCATACTTC
1 AGCCTTCAAGGCATACTTC
13464 AACTTCTTAA
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
33 19 0.18
34 3 0.03
35 83 0.78
37 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (35 bp):
AGCCTTCAAGGCATACTTCGTCTTCTTCGACACTT
Found at i:13401 original size:70 final size:68
Alignment explanation
Indices: 13303--13470 Score: 221
Period size: 70 Copynumber: 2.4 Consensus size: 68
13293 CTATTCTTAG
* *
13303 ACACAGCCTTCAAGGCATACTTCATCTTCT-TCGGCACTTAGCCTTTAAGGCAAACTTCGTCTTC
1 ACACAGCCTTCAAGGCATACTTCATCTTCTAT-GACACTTAGCCTTCAAGGCAAACTTCGTCTTC
13367 TCAA
65 TCAA
* * * *
13371 ATACTTAGCCTTCAAGGCATGCTTCGTCTTCTATGACACTTAGCCTTCAAGGCATACTTCGTCTT
1 ACAC--AGCCTTCAAGGCATACTTCATCTTCTATGACACTTAGCCTTCAAGGCAAACTTCGTCTT
* *
13436 CTTAG
64 CTCAA
*
13441 ACACAGCCTTCAAGGCATACTTCAACTTCT
1 ACACAGCCTTCAAGGCATACTTCATCTTCT
13471 TAAACAACTA
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
68 26 0.31
70 58 0.68
71 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (68 bp):
ACACAGCCTTCAAGGCATACTTCATCTTCTATGACACTTAGCCTTCAAGGCAAACTTCGTCTTCT
CAA
Found at i:13436 original size:18 final size:18
Alignment explanation
Indices: 13380--13436 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
13370 AATACTTAGC
*
13380 CTTCAAGGCATGCTTCGT
1 CTTCAAGGCATACTTCGT
* * * * *
13398 CTTCTATG-ACACTTAGC
1 CTTCAAGGCATACTTCGT
13415 CTTCAAGGCATACTTCGT
1 CTTCAAGGCATACTTCGT
13433 CTTC
1 CTTC
13437 TTAGACACAG
Statistics
Matches: 27, Mismatches: 11, Indels: 2
0.68 0.28 0.05
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (18 bp):
CTTCAAGGCATACTTCGT
Found at i:17476 original size:16 final size:16
Alignment explanation
Indices: 17443--17476 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17433 AGCTCATGTT
* *
17443 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
17459 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
17475 AA
1 AA
17477 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:22257 original size:16 final size:16
Alignment explanation
Indices: 22224--22257 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22214 GGAGATTGTT
* *
22224 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
22240 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
22256 AA
1 AA
22258 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:23352 original size:15 final size:15
Alignment explanation
Indices: 23332--23360 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23322 AAGCTTCTAA
23332 CTTTTTAATAAATTT
1 CTTTTTAATAAATTT
23347 CTTTTTAATAAATT
1 CTTTTTAATAAATT
23361 GGACTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
CTTTTTAATAAATTT
Found at i:32349 original size:21 final size:21
Alignment explanation
Indices: 32321--32406 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
32311 CCTGATCAGT
* *
32321 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAAGTGCCTG
* * *
32342 AAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
32363 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
32384 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
32405 AT
1 AT
32407 CGATAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:35031 original size:23 final size:23
Alignment explanation
Indices: 35005--35049 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
34995 TGGGTATGTG
*
35005 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
35028 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
35050 TTGAGTTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:35287 original size:44 final size:44
Alignment explanation
Indices: 35212--35436 Score: 288
Period size: 44 Copynumber: 5.1 Consensus size: 44
35202 TACAATAGCT
* * *
35212 GATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
** *
35256 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* ** * *
35300 GATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
35344 GATTTGGCGTCTCTGTAATTGTCAGAGGGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGT-ATTGGCAGAGAGCAGATCGAAGATAACA
* * *
35389 GATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
35433 GATT
1 GATT
35437 GGTGTTCCCG
Statistics
Matches: 160, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 122 0.76
45 38 0.24
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:35416 original size:89 final size:88
Alignment explanation
Indices: 35206--35436 Score: 293
Period size: 89 Copynumber: 2.6 Consensus size: 88
35196 GGGTATTACA
* *
35206 ATAGCTGATTTGGCATCTCTGTATT-GTCAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCT
1 ATAGCAGATTTGGCATCTCTGTATTGGT-AGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
*
35270 GTAGCGGCGGAGAGCAGATCGAAG
65 GTAGCGGCAGAGAGCAGATCGAAG
* * * ** ** *
35294 ATAACAGATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG
1 ATAGCAGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
** * *
35359 TAATTGTCAGAGGGCAGATCGAAG
66 T-AGCGGCAGAGAGCAGATCGAAG
*
35383 ATAGCAGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAAATAACAGATT
1 ATAGCAGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGATAACAGATT
35437 GGTGTTCCCG
Statistics
Matches: 117, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
88 54 0.46
89 63 0.54
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (88 bp):
ATAGCAGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
TAGCGGCAGAGAGCAGATCGAAG
Found at i:38664 original size:131 final size:130
Alignment explanation
Indices: 38355--38667 Score: 371
Period size: 131 Copynumber: 2.4 Consensus size: 130
38345 GTTTCACAAC
* * * * *
38355 TATTAAAAATTCTTTAAAACGAAGGCAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTATC
1 TATTAAAAA-CCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAACCATGCCCTAAC
* ** **
38420 GTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCGTGT
65 GTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAAGATTCCTTTAGAATTTCACTCACGT
38485 T
130 T
* ** * *
38486 TATTAAAAACCTTCCAAAACGAATACAATACTCGATGTTTGATAATTCGGGAACCGTGCTCTAAC
1 TATTAAAAACCTT-TAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAACCATGCCCTAAC
*
38551 GTGTTGGGTTGTGATTTCTCGTTT-TTCCAAAACAATCGAAGATTCCTTT-GAAATTTCACTCAC
65 GTGCTGGGTTGTGATTTCTCGTTTGTT-CAAAACAATCGAAGATTCCTTTAG-AATTTCACTCAC
38614 GTT
128 GTT
* * **
38617 T-TCTAAAAACCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGGG
1 TAT-TAAAAA-CCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGGG
38668 GAATAGTACC
Statistics
Matches: 154, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
130 7 0.05
131 143 0.93
132 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (130 bp):
TATTAAAAACCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAACCATGCCCTAACG
TGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAAGATTCCTTTAGAATTTCACTCACGTT
Found at i:41304 original size:12 final size:12
Alignment explanation
Indices: 41283--41315 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
41273 AACTTCTCGA
*
41283 CATCATCATGGC
1 CATCACCATGGC
41295 CATCACCATGGC
1 CATCACCATGGC
41307 CATCACCAT
1 CATCACCAT
41316 CATCACCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.21
Consensus pattern (12 bp):
CATCACCATGGC
Found at i:43876 original size:21 final size:21
Alignment explanation
Indices: 43850--43890 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43840 ATCTGCTCAA
* *
43850 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
43871 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
43891 TTGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:48345 original size:16 final size:16
Alignment explanation
Indices: 48326--48376 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
48316 AAACTGTACT
48326 AAAATGCCCCTATAGA
1 AAAATGCCCCTATAGA
**
48342 AAAATGAGCCTACT---
1 AAAATGCCCCTA-TAGA
48356 AAAATGCCCCTATAGA
1 AAAATGCCCCTATAGA
48372 AAAAT
1 AAAAT
48377 CAGCCTAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
13 1 0.04
14 10 0.37
16 15 0.56
17 1 0.04
ACGTcount: A:0.47, C:0.22, G:0.12, T:0.20
Consensus pattern (16 bp):
AAAATGCCCCTATAGA
Found at i:48358 original size:30 final size:30
Alignment explanation
Indices: 48322--48383 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
48312 AACTAAACTG
*
48322 TACTAAAATGCCCCTATAGAAAAATGAGCC
1 TACTAAAATGCCCCTATAGAAAAATCAGCC
48352 TACTAAAATGCCCCTATAGAAAAATCAGCC
1 TACTAAAATGCCCCTATAGAAAAATCAGCC
48382 TA
1 TA
48384 AGTCAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.21
Consensus pattern (30 bp):
TACTAAAATGCCCCTATAGAAAAATCAGCC
Found at i:48619 original size:19 final size:20
Alignment explanation
Indices: 48582--48624 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48572 ATCCATTCAT
*
48582 CAATTTTATTAGGCATAACA
1 CAATTTTATTAGCCATAACA
48602 CAATTTTATTA-CCATAACA
1 CAATTTTATTAGCCATAACA
48621 -AATT
1 CAATT
48625 GCACAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (20 bp):
CAATTTTATTAGCCATAACA
Found at i:48996 original size:22 final size:22
Alignment explanation
Indices: 48968--49014 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
48958 ATAACTTGCG
48968 CTGTATTTAGCATCTCATGAGA
1 CTGTATTTAGCATCTCATGAGA
48990 CTGTATTTAGCATCTCATGAGA
1 CTGTATTTAGCATCTCATGAGA
49012 CTG
1 CTG
49015 ATTCGGCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (22 bp):
CTGTATTTAGCATCTCATGAGA
Found at i:50735 original size:78 final size:77
Alignment explanation
Indices: 50639--50792 Score: 209
Period size: 78 Copynumber: 2.0 Consensus size: 77
50629 GTAGACAAAG
* * * ** *
50639 TCCATGGTGATCGCTATCAACATGATCACCAACTCTCCTAGCTGATGAGATCAAGGGGTCATGGT
1 TCCATAGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAA-GAATCATAGT
50704 TTAATGGTAGAAC
65 TTAATGGTAGAAC
* * * *
50717 TCCATAGTGATCATTATCAACATGATCACCGACTCTCCCAGTTGGTGAGATCAAGAATCATAGTT
1 TCCATAGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGAATCATAGTT
50782 TAATGGTAGAA
66 TAATGGTAGAA
50793 TATGAGATGG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
77 19 0.29
78 47 0.71
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (77 bp):
TCCATAGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGAATCATAGTT
TAATGGTAGAAC
Found at i:55943 original size:26 final size:26
Alignment explanation
Indices: 55882--55945 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
55872 AACAAATAAT
*
55882 AAACCCTAAAAATCTAACGAAACAATA
1 AAACCCT-AAAATCTAACAAAACAATA
** ** *
55909 AAATTCTAAAATCTAGTAAAACAATG
1 AAACCCTAAAATCTAACAAAACAATA
55935 AAACCCTAAAA
1 AAACCCTAAAA
55946 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (26 bp):
AAACCCTAAAATCTAACAAAACAATA
Found at i:56039 original size:28 final size:28
Alignment explanation
Indices: 55985--56113 Score: 93
Period size: 28 Copynumber: 4.6 Consensus size: 28
55975 ATCTTACAAT
* * * *
55985 AATAACAAAACCTTAAAATTC-GATAAG
1 AATAGCAAAGCCTTAAAAATCTGGTAAG
*
56012 AATAGCAAAGCCTTAAAAATATGGTAAG
1 AATAGCAAAGCCTTAAAAATCTGGTAAG
* * **
56040 AATAGCGAAATCC-TAAAAAGCTGAAAAG
1 AATAGC-AAAGCCTTAAAAATCTGGTAAG
* * **
56068 AATAGTGAAA-CCTCAAAAATCCAGTAAG
1 AATAG-CAAAGCCTTAAAAATCTGGTAAG
*
56096 AATAGCAAAGCCCTAAAA
1 AATAGCAAAGCCTTAAAA
56114 TTTCCATAAG
Statistics
Matches: 77, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
27 22 0.29
28 50 0.65
29 5 0.06
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.18
Consensus pattern (28 bp):
AATAGCAAAGCCTTAAAAATCTGGTAAG
Found at i:56419 original size:28 final size:27
Alignment explanation
Indices: 56365--56442 Score: 120
Period size: 28 Copynumber: 2.7 Consensus size: 27
56355 TAATATATAT
56365 ATAGTGAAACCTTAAAAAGTCTGGTAAAA
1 ATAGTGAAACC-TAAAAA-TCTGGTAAAA
56394 ATAGTGAAATCCTAAAAATCTGGTAAAA
1 ATAGTGAAA-CCTAAAAATCTGGTAAAA
56422 ATAGTGAAAACCTAAAAATCT
1 ATAGTG-AAACCTAAAAATCT
56443 AGATTGTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
28 27 0.57
29 18 0.38
30 2 0.04
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (27 bp):
ATAGTGAAACCTAAAAATCTGGTAAAA
Found at i:59240 original size:21 final size:21
Alignment explanation
Indices: 59212--59297 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
59202 CCTGATCAGT
* *
59212 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAAGTGCCTG
* * *
59233 AAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
* * *
59254 ATATGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
59275 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
59296 AT
1 AT
59298 CAGTAAAGCC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.17
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:71784 original size:11 final size:11
Alignment explanation
Indices: 71768--71794 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
71758 ACTATAGGTT
71768 ATAAATAAATA
1 ATAAATAAATA
71779 ATAAATAAATA
1 ATAAATAAATA
71790 ATAAA
1 ATAAA
71795 CCTAGATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:80925 original size:20 final size:20
Alignment explanation
Indices: 80900--80939 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
80890 GTAGTCTCTC
80900 AATTTTACTT-TAATGAAATT
1 AATTTTA-TTATAATGAAATT
80920 AATTTTATTACTAATGAAAT
1 AATTTTATTA-TAATGAAAT
80940 GAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 7 0.39
21 9 0.50
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
AATTTTATTATAATGAAATT
Found at i:92256 original size:13 final size:11
Alignment explanation
Indices: 92231--92269 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 11
92221 TTTTGTTTTT
92231 TAATATTATATA
1 TAATA-TATATA
92243 TAATAATCATATA
1 TAAT-AT-ATATA
92256 TAATATATATA
1 TAATATATATA
92267 TAA
1 TAA
92270 ATTTTCAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.32
12 7 0.28
13 10 0.40
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATATATATA
Found at i:92536 original size:72 final size:74
Alignment explanation
Indices: 92392--92536 Score: 163
Period size: 72 Copynumber: 2.0 Consensus size: 74
92382 ATTATATAGA
* * *
92392 TTATTTAATAAAGATATTTTAACATAATTAGAATTTTTATCTATAAGTATGATAAATATTTTTAT
1 TTATTTAATAAAGATATTTTAACATAATTAGAATTTTTATATATAAATATGATAAATATTTATAT
92457 TAGATAAAT
66 TAGATAAAT
* * * * * *
92466 TTATTTAATCAA-ATATTTTAATA-AGATTA-CATTTTTATATATAAATGTTATAAATCTTTATA
1 TTATTTAATAAAGATATTTTAACATA-ATTAGAATTTTTATATATAAATATGATAAATATTTATA
92528 TATA-ATAAA
65 T-TAGATAAA
92537 AATATATATT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
72 33 0.55
73 16 0.27
74 11 0.18
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (74 bp):
TTATTTAATAAAGATATTTTAACATAATTAGAATTTTTATATATAAATATGATAAATATTTATAT
TAGATAAAT
Found at i:94198 original size:15 final size:15
Alignment explanation
Indices: 94178--94217 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
94168 TTAACGTTTT
* *
94178 TATATATATTATTCA
1 TATATAAATCATTCA
94193 TATATAAATCATTCA
1 TATATAAATCATTCA
94208 TATATAAATC
1 TATATAAATC
94218 TTTTTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATCATTCA
Found at i:94299 original size:32 final size:31
Alignment explanation
Indices: 94262--94333 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
94252 TTTCATGAAT
*
94262 TATATTTTAAACTATT-TATATTTTATTTTAAA
1 TATATTTTAAACT-TTATATA-TTTACTTTAAA
*
94294 TATATTCTTAAACTTTATTTATTTACTTTAAA
1 TATATT-TTAAACTTTATATATTTACTTTAAA
94326 -ATATTTTA
1 TATATTTTA
94334 TTTATTATCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 18 0.50
33 10 0.28
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (31 bp):
TATATTTTAAACTTTATATATTTACTTTAAA
Found at i:94328 original size:33 final size:32
Alignment explanation
Indices: 94262--94329 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
94252 TTTCATGAAT
*
94262 TATATTTTAAACTATTTATATTTTATTTTAAA
1 TATATTTTAAACTATTTATATTTTATTTAAAA
*
94294 TATATTCTTAAAC--TTTATTTATTTACTTTAAAA
1 TATATT-TTAAACTATTTATAT-TTTA-TTTAAAA
94327 TAT
1 TAT
94330 TTTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 6 0.19
32 10 0.32
33 15 0.48
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (32 bp):
TATATTTTAAACTATTTATATTTTATTTAAAA
Found at i:95515 original size:132 final size:130
Alignment explanation
Indices: 95300--95730 Score: 388
Period size: 131 Copynumber: 3.3 Consensus size: 130
95290 TTCGATGCTC
* * ** * * *
95300 GGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTTAAAATAATCGA
1 GGCAATTCGCGGAATCGTGCCCTAATGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
* * * * * *
95365 ATATCTCTTCAAAG-TTTCACTCATGCCTTTTAAAAATTCTTTAAAACGAAGGTAA-AGTTTGAT
66 ATATCCCTT-TAGGTTTTCACTCATG-CTTTTAAAAA-TCTTTAAAACGAAGGCAATA-CTCGAT
95428 ATTT
127 ATTT
* * *
95432 GGCAATTCGCGGAATCGTGCCCTAATGTGCTGGGTTGTGATTCCTCGTTTGCTCAAAACGATTGA
1 GGCAATTCGCGGAATCGTGCCCTAATGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
* * * * * *
95497 ATATCCCTTTAGGTTTTCATTCATGTCTTCTAAAAACCTTTTAAAACAAAGGCAATACTCGGTGT
66 ATATCCCTTTAGGTTTTCACTCATG-CTTTTAAAAATC-TTTAAAACGAAGGCAATACTCGATAT
95562 TT
129 TT
** * *
95564 GATAATTCG-AGAATCATGCCCT-ATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCG
1 GGCAATTCGCGGAATCGTGCCCTAAT-GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCG
* * * * * ** *
95627 AATATTCCTTTAGGTTTTCACTCATGTTTATTAAAAATCTTTCAAAGCGAAGACGATGTTCGATG
65 AATATCCCTTTAGGTTTTCACTCATGCTT-TTAAAAATCTTT-AAAACGAAGGCAATACTCGATA
95692 TTT
128 TTT
* * * *
95695 GGCGATTTG-AGAATCGAGCCCT-ATCGTGCTGGGTTG
1 GGCAATTCGCGGAATCGTGCCCTAAT-GTGCTGGGTTG
95731 CGCTTCTTCA
Statistics
Matches: 245, Mismatches: 48, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
130 7 0.03
131 128 0.52
132 109 0.44
133 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (130 bp):
GGCAATTCGCGGAATCGTGCCCTAATGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
ATATCCCTTTAGGTTTTCACTCATGCTTTTAAAAATCTTTAAAACGAAGGCAATACTCGATATTT
Found at i:107330 original size:44 final size:44
Alignment explanation
Indices: 107267--107773 Score: 613
Period size: 44 Copynumber: 11.5 Consensus size: 44
107257 GGCAAATCCC
* * *
107267 GCAGATTTGGCGTCTCTGTATTGACGGATAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
107311 GCAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCTAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
107355 GCAGATTTGACGTCTCTGTATTGGCGGAGAACAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * ** * *
107399 GCATATTTGGCGTCTTTGTATTATCAGAGGGCAGATCTAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
107443 ACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * ** * *
107487 GCAGATTTGACATCTTTGTATTGTTA-AAAGGCAGATCTAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGA-GCAGATCGAAGATA
*
107531 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * * *
107575 GTAGATTTGGCGTCTCTGTATTGTCAGAGGGTAGATCTAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
107619 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGTTA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
107663 -CAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCTAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
107706 GCAGATTTGGCGTCTCTGCATTGGCGGAGAGCAGATTGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
107750 GCAGATTTGACGTCTCTGTGATTG
1 GCAGATTTGGCGTCTCTGT-ATTG
107774 ACAAAAAGCA
Statistics
Matches: 388, Mismatches: 71, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
43 39 0.10
44 343 0.88
45 6 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (44 bp):
GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:107419 original size:88 final size:88
Alignment explanation
Indices: 107267--107773 Score: 782
Period size: 88 Copynumber: 5.8 Consensus size: 88
107257 GGCAAATCCC
* *
107267 GCAGATTTGGCGTCTCTGTATTGACGGATAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
107332 TGTCAGAGGGCAGATCTAAGATA
66 TGTCAGAGGGCAGATCTAAGATA
* * * * *
107355 GCAGATTTGACGTCTCTGTATTGGCGGAGAACAGATCAAAGATAGCATATTTGGCGTCTTTGTAT
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
*
107420 TATCAGAGGGCAGATCTAAGATA
66 TGTCAGAGGGCAGATCTAAGATA
* * * *
107443 ACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGACATCTTTGTAT
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
* * *
107508 TGTTAAAAGGCAGATCTAAGATA
66 TGTCAGAGGGCAGATCTAAGATA
* * *
107531 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCTGTAT
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
*
107596 TGTCAGAGGGTAGATCTAAGATA
66 TGTCAGAGGGCAGATCTAAGATA
* *
107619 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGTTA-CAGATTTGGCGTCTCTGTAT
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
107683 TGTCAGAGGGCAGATCTAAGATA
66 TGTCAGAGGGCAGATCTAAGATA
* * *
107706 GCAGATTTGGCGTCTCTGCATTGGCGGAGAGCAGATTGAAGATAGCAGATTTGACGTCTCTGTGA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT-A
107771 TTG
65 TTG
107774 ACAAAAAGCA
Statistics
Matches: 376, Mismatches: 41, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
87 81 0.22
88 291 0.77
89 4 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (88 bp):
GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
TGTCAGAGGGCAGATCTAAGATA
Found at i:109511 original size:15 final size:15
Alignment explanation
Indices: 109491--109530 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
109481 TTAACGTTTT
* *
109491 TATATATATTATTCA
1 TATATAAATCATTCA
109506 TATATAAATCATTCA
1 TATATAAATCATTCA
109521 TATATAAATC
1 TATATAAATC
109531 TTTTTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATCATTCA
Found at i:109612 original size:32 final size:31
Alignment explanation
Indices: 109575--109646 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
109565 TTTCATGAAT
*
109575 TATATTTTAAACTATT-TATATTTTATTTTAAA
1 TATATTTTAAACT-TTATATA-TTTACTTTAAA
*
109607 TATATTCTTAAACTTTATTTATTTACTTTAAA
1 TATATT-TTAAACTTTATATATTTACTTTAAA
109639 -ATATTTTA
1 TATATTTTA
109647 TTTTTTATCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 18 0.50
33 10 0.28
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (31 bp):
TATATTTTAAACTTTATATATTTACTTTAAA
Found at i:109641 original size:33 final size:32
Alignment explanation
Indices: 109575--109642 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
109565 TTTCATGAAT
*
109575 TATATTTTAAACTATTTATATTTTATTTTAAA
1 TATATTTTAAACTATTTATATTTTATTTAAAA
*
109607 TATATTCTTAAAC--TTTATTTATTTACTTTAAAA
1 TATATT-TTAAACTATTTATAT-TTTA-TTTAAAA
109640 TAT
1 TAT
109643 TTTATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 6 0.19
32 10 0.32
33 15 0.48
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (32 bp):
TATATTTTAAACTATTTATATTTTATTTAAAA
Found at i:110821 original size:132 final size:130
Alignment explanation
Indices: 110606--111050 Score: 394
Period size: 131 Copynumber: 3.4 Consensus size: 130
110596 TTTGGTGCTC
* ** * * *
110606 GGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTTAAAATAATCGA
1 GGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
* ** * ** * * *
110671 ATATCTCATCAAAG-TTTCACTCATGCCTTTTAAAAATTCTTTAAAATGAAGGTAA-AGTTTGAT
66 ATATC-CCTTTAGGTTTTCACTCATG-CTTTTAAAAA-TCTTTAAAACAAAGGCAATA-CTCGAT
110734 ATTT
127 ATTT
* *
110738 GGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACGATTGA
1 GGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
* * * * *
110803 ATATCCCTTTAGGTTTTCATTCATGTCTTCTAAAAACCTTTTAAAACAAAGGCAATACTCGGTGT
66 ATATCCCTTTAGGTTTTCACTCATG-CTTTTAAAAATC-TTTAAAACAAAGGCAATACTCGATAT
110868 TT
129 TT
** * * *
110870 GATAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
1 GGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
* * * * * ** *
110934 ATATTCCTTTAGGTTTTCACTCATGTTTATTAAAAATCTTTCAAAGCGAAGGCGATGTTCGATGT
66 ATATCCCTTTAGGTTTTCACTCATGCTT-TTAAAAATCTTT-AAAACAAAGGCAATACTCGATAT
110999 TT
129 TT
* * * * * * * * *
111001 GGCGATTTG-AGAATCGAGCCCTATCGTACTGGGTTGCGCTTTTTCGTTTG
1 GGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGTGATTTCTCGTTTG
111051 TCCCAAATAA
Statistics
Matches: 257, Mismatches: 51, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
130 5 0.02
131 144 0.56
132 107 0.42
133 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (130 bp):
GGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGA
ATATCCCTTTAGGTTTTCACTCATGCTTTTAAAAATCTTTAAAACAAAGGCAATACTCGATATTT
Found at i:116830 original size:14 final size:13
Alignment explanation
Indices: 116803--116829 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
116793 ATTTTTTCAC
116803 AGTACTTTTCAAA
1 AGTACTTTTCAAA
116816 AGTACTTTTCAAA
1 AGTACTTTTCAAA
116829 A
1 A
116830 ACATTACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AGTACTTTTCAAA
Found at i:118533 original size:14 final size:14
Alignment explanation
Indices: 118510--118545 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
118500 TATCCTAATC
*
118510 AATTTCAAAAACAT
1 AATTTTAAAAACAT
*
118524 GATTTTAAAAACAT
1 AATTTTAAAAACAT
118538 AATTTTAA
1 AATTTTAA
118546 TAAGGATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (14 bp):
AATTTTAAAAACAT
Found at i:120593 original size:3 final size:3
Alignment explanation
Indices: 120585--120632 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
120575 TAAAGTTTCT
120585 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
120631 TA
1 TA
120633 TTATTATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:121211 original size:15 final size:15
Alignment explanation
Indices: 121155--121223 Score: 63
Period size: 15 Copynumber: 4.6 Consensus size: 15
121145 TTCAACTTCA
121155 TTTTTATTTAC-TTAT
1 TTTTTATTT-CTTTAT
* *
121170 TTATTATTTTTATTAT
1 TTTTTATTTCT-TTAT
*
121186 TTTTTA-CTCTTTAT
1 TTTTTATTTCTTTAT
121200 TTTTTATTTCTTT-T
1 TTTTTATTTCTTTAT
121214 TATTTTATTT
1 T-TTTTATTT
121224 TATTTTCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 12 0.27
15 23 0.52
16 9 0.20
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTCTTTAT
Found at i:121215 original size:17 final size:16
Alignment explanation
Indices: 121176--121229 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
121166 TTATTTATTA
121176 TTTTTATTATTTTTTAC
1 TTTTTATT-TTTTTTAC
* *
121193 TCTTTATTTTTTATTTC
1 TTTTTATTTTTT-TTAC
121210 TTTTTATTTTATTTTA-
1 TTTTTATTTT-TTTTAC
121226 TTTT
1 TTTT
121230 CTTCCATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 8 0.26
17 21 0.68
18 2 0.06
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTTTTTTAC
Found at i:121230 original size:21 final size:21
Alignment explanation
Indices: 121156--121232 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
121146 TCAACTTCAT
* *
121156 TTTTATTTACTTATTTATTAT-
1 TTTTATTTTCTT-TTTATTTTA
*
121177 TTTTATTAT-TTTTTACTCTTTA
1 TTTTATTTTCTTTTTA-T-TTTA
*
121199 TTTTTTATTTCTTTTTATTTTA
1 TTTTAT-TTTCTTTTTATTTTA
121221 TTTTATTTTCTT
1 TTTTATTTTCTT
121233 CCATCATTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 4 0.09
20 3 0.07
21 15 0.33
22 14 0.31
23 3 0.07
24 6 0.13
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTTTCTTTTTATTTTA
Found at i:123804 original size:22 final size:23
Alignment explanation
Indices: 123778--123820 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
123768 CAAAACCCGA
*
123778 AAACA-AAAATCCTTCAAAAGGT
1 AAACACAAAATCCTCCAAAAGGT
*
123800 AAACACAAAATTCTCCAAAAG
1 AAACACAAAATCCTCCAAAAG
123821 TGTTATAAGT
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:0.56, C:0.21, G:0.07, T:0.16
Consensus pattern (23 bp):
AAACACAAAATCCTCCAAAAGGT
Found at i:123900 original size:32 final size:32
Alignment explanation
Indices: 123859--123921 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
123849 TAAAAAAAGT
123859 CTATTTATAGACTAAATTCGTAGGTCAAATAA
1 CTATTTATAGACTAAATTCGTAGGTCAAATAA
* *
123891 CTATTTATAGGCTAAATTCGTAGGTTAAATA
1 CTATTTATAGACTAAATTCGTAGGTCAAATA
123922 GTAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (32 bp):
CTATTTATAGACTAAATTCGTAGGTCAAATAA
Found at i:130180 original size:84 final size:87
Alignment explanation
Indices: 130045--130218 Score: 221
Period size: 84 Copynumber: 2.0 Consensus size: 87
130035 AGGCCTTGTT
* * * **
130045 CTTGGGTAATAATTGCAATGATAAAAGTCAAATGTTTTTTGTCTGTAGAAGACTTGTTTAACTGA
1 CTTGAGTAATAATTGCAATGATAAAAGTCAAATGTTCTTTATAGGTAGAAGACTTGTTTAACTGA
130110 GG-TTAGAA-TGTTAATAAATTG
66 GGTTTA-AACTGTTAATAAATTG
* * * *
130131 CTTGAGTAATAATTGCAATGGT-ATAGT-AAATGTTCTTTATAGGTAGAAGAGTTGTTTAGCTGA
1 CTTGAGTAATAATTGCAATGATAAAAGTCAAATGTTCTTTATAGGTAGAAGACTTGTTTAACTGA
*
130194 GGTTTAAACTGTTAATAGATTG
66 GGTTTAAACTGTTAATAAATTG
130216 CTT
1 CTT
130219 CACAGTTCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
84 34 0.45
85 22 0.29
86 20 0.26
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (87 bp):
CTTGAGTAATAATTGCAATGATAAAAGTCAAATGTTCTTTATAGGTAGAAGACTTGTTTAACTGA
GGTTTAAACTGTTAATAAATTG
Found at i:132888 original size:24 final size:24
Alignment explanation
Indices: 132861--132910 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
132851 TTTTCTACCC
132861 TGTTTACTCTGTTATCTATCAGTA
1 TGTTTACTCTGTTATCTATCAGTA
132885 TGTTTACTCTGTTATCTATCAGTA
1 TGTTTACTCTGTTATCTATCAGTA
132909 TG
1 TG
132911 AGAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (24 bp):
TGTTTACTCTGTTATCTATCAGTA
Found at i:140684 original size:3 final size:3
Alignment explanation
Indices: 140676--140717 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
140666 ATGATCTTCA
140676 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
140718 ATATGACAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:147840 original size:21 final size:21
Alignment explanation
Indices: 147815--147879 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
147805 TAGCCTTCGG
147815 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
147836 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
147854 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
147875 GCTTC
1 GCTTC
147880 AGTTAGCCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:147843 original size:39 final size:39
Alignment explanation
Indices: 147797--147889 Score: 186
Period size: 39 Copynumber: 2.4 Consensus size: 39
147787 GCTCTGATGA
147797 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
147836 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
147875 GCTTCAGTTAGCCTT
1 GCTTCAGTTAGCCTT
147890 TGAGTTTCAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:149374 original size:26 final size:25
Alignment explanation
Indices: 149341--149419 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
149331 TCAAGAAAAG
*
149341 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTTAGC-AA
* *
149367 AATGTGCAAGCTGTAAGATTAGCAA
1 AATGTGCAAGCTGCAAGCTTAGCAA
*
149392 GATGT-CAAAGCTGCAAGCTTAGCGAA
1 AATGTGC-AAGCTGCAAGCTTAGC-AA
149418 AA
1 AA
149420 GTGAGCTGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.02
25 20 0.45
26 23 0.52
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (25 bp):
AATGTGCAAGCTGCAAGCTTAGCAA
Found at i:163767 original size:43 final size:44
Alignment explanation
Indices: 163706--163798 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
163696 TCCTAATTGG
163706 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
163749 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
163793 -AAAATA
1 GAAAATA
163799 TTTCTATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:168064 original size:43 final size:44
Alignment explanation
Indices: 168003--168095 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
167993 TCCTCATTGG
*
168003 GAAAATAGTTCCCTTATTCTAATAAATTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
168046 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
168090 -AAAATA
1 GAAAATA
168096 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:173663 original size:5 final size:5
Alignment explanation
Indices: 173655--173679 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
173645 AAATCATTTT
173655 CTTTC CTTTC CTTTC CTTTC CTTTC
1 CTTTC CTTTC CTTTC CTTTC CTTTC
173680 TATATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTTC
Found at i:176049 original size:42 final size:42
Alignment explanation
Indices: 175990--176078 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
175980 TTAGGAATAT
* *
175990 TTTTATTTTATCTTTTAGTAGTTTATTAAAAGAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAAAAGAAGGGAACTA
* *
176032 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAAAAGAAGGGAACTA
176074 TTTTC
1 TTTTC
176079 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAAAAGAAGGGAACTA
Found at i:182684 original size:33 final size:32
Alignment explanation
Indices: 182625--182688 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
182615 ACATAAATTT
*
182625 TAATTTGGTGCAATTATACACGTGAAACTCTC
1 TAATTTGGTGCAAATATACACGTGAAACTCTC
* * *
182657 TAATTGTGGTTCAAATATATACTTGAAACTCT
1 TAATT-TGGTGCAAATATACACGTGAAACTCT
182689 AATTTTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (32 bp):
TAATTTGGTGCAAATATACACGTGAAACTCTC
Found at i:184125 original size:24 final size:24
Alignment explanation
Indices: 184051--184125 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
184041 CGTTTTTTGT
*
184051 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGTCATGGTATCTTTCAAC
* * * * *
184075 CATGGTCTTAT-TTAT-TTTC-CC
1 CATGTTGTCATGGTATCTTTCAAC
184096 GTCATGTTGTCATGGTATCTTTCAAC
1 --CATGTTGTCATGGTATCTTTCAAC
184122 CATG
1 CATG
184126 GTCTTACTCA
Statistics
Matches: 35, Mismatches: 11, Indels: 10
0.62 0.20 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 11 0.31
24 14 0.40
25 4 0.11
26 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.43
Consensus pattern (24 bp):
CATGTTGTCATGGTATCTTTCAAC
Found at i:184175 original size:46 final size:46
Alignment explanation
Indices: 184017--184330 Score: 403
Period size: 46 Copynumber: 6.8 Consensus size: 46
184007 TGATGTCATA
* * * ** * *
184017 GTATCTTTCAACTATGGTTTTACTCGTTTTTTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *** * *
184063 GTATCTTTCAACCATGGTCTTATTTATTTTCCCGTCATGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
184110 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCGTG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
184156 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
184202 GTATCTTTCAACCATTGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
184248 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
184294 GTATCTTTCAACCATGGTCTTACACGTTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
184331 AGAGCACACT
Statistics
Matches: 240, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 200 0.83
47 40 0.17
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:194239 original size:4 final size:4
Alignment explanation
Indices: 194230--194280 Score: 88
Period size: 4 Copynumber: 13.2 Consensus size: 4
194220 AATGTATGAC
194230 TACA TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
194276 TACA T
1 TACA T
194281 CAAGGAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
4 43 0.96
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:200040 original size:37 final size:37
Alignment explanation
Indices: 199999--200174 Score: 282
Period size: 37 Copynumber: 4.8 Consensus size: 37
199989 TTTGAGTACT
199999 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
* *
200036 TCTGATCAGGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
200073 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
200110 TCTGATCAA-AAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAA-ACAAAGTGATAAGTGGCTACACTTA
** *
200147 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
200175 TAGCTTCAGC
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
36 2 0.02
37 128 0.98
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:200246 original size:45 final size:46
Alignment explanation
Indices: 200137--200260 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
200127 GTGATAAGTG
* *
200137 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
200183 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
200228 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
200261 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:213075 original size:18 final size:19
Alignment explanation
Indices: 213038--213076 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
213028 TTTATTGTTG
213038 TTTTATTATATAATTCTTA
1 TTTTATTATATAATTCTTA
*
213057 TTTTATTAT-TAATTTTTA
1 TTTTATTATATAATTCTTA
213075 TT
1 TT
213077 ATTTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTATATAATTCTTA
Found at i:214736 original size:15 final size:15
Alignment explanation
Indices: 214716--214747 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
214706 AATGGTGAAA
214716 GATAACAGACAACAG
1 GATAACAGACAACAG
214731 GATAACAGACAACAG
1 GATAACAGACAACAG
214746 GA
1 GA
214748 CGCAGGTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.19, G:0.22, T:0.06
Consensus pattern (15 bp):
GATAACAGACAACAG
Found at i:218220 original size:14 final size:16
Alignment explanation
Indices: 218182--218222 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
218172 GTAGGTGAAC
218182 AAAAATATTTTATATT
1 AAAAATATTTTATATT
218198 AAAAATATTTT-TA-T
1 AAAAATATTTTATATT
*
218212 AAAACTATTTT
1 AAAAATATTTT
218223 GGCAAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAAATATTTTATATT
Found at i:220668 original size:3 final size:3
Alignment explanation
Indices: 220660--220694 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
220650 AATGTCATAG
220660 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA T
220695 CCTAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:227318 original size:16 final size:16
Alignment explanation
Indices: 227290--227332 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
227280 TCTCTTTTAA
*
227290 AAAAATA-TTTTATTT
1 AAAAATATTTTTATCT
**
227305 AGTAATATTTTTATCT
1 AAAAATATTTTTATCT
227321 AAAAATATTTTT
1 AAAAATATTTTT
227333 TAGAAGTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
AAAAATATTTTTATCT
Found at i:230864 original size:30 final size:30
Alignment explanation
Indices: 230803--230864 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
230793 ATCAAATCAG
* * *
230803 TCTATCTATTATTAAATGAATCAATTTAATC
1 TCTATCTATTA-TAAAAGAATCAAATAAATC
230834 TCTATACTATTA-AAAAGAATCAAATAAATC
1 TCTAT-CTATTATAAAAGAATCAAATAAATC
230864 T
1 T
230865 AAAAGTTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.59
31 5 0.19
32 6 0.22
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (30 bp):
TCTATCTATTATAAAAGAATCAAATAAATC
Found at i:241264 original size:2 final size:2
Alignment explanation
Indices: 241257--241283 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
241247 ATAACCCAAG
241257 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
241284 AAAGGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:266972 original size:25 final size:25
Alignment explanation
Indices: 266938--266988 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
266928 GTTTAATGCC
266938 CCCAATGCTTGATGGAAGTCCTGAT
1 CCCAATGCTTGATGGAAGTCCTGAT
266963 CCCAATGCTTGATGGAAGTCCTGAT
1 CCCAATGCTTGATGGAAGTCCTGAT
266988 C
1 C
266989 GACTCACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (25 bp):
CCCAATGCTTGATGGAAGTCCTGAT
Found at i:267199 original size:31 final size:31
Alignment explanation
Indices: 267161--267224 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
267151 CACGTTTACT
*
267161 CACTATGATGAGCTAAGGCATAGAGGTATGA
1 CACTATGATGAGCGAAGGCATAGAGGTATGA
267192 CACTATGATGAGCGAAGGCATAGAGGTATGA
1 CACTATGATGAGCGAAGGCATAGAGGTATGA
267223 CA
1 CA
267225 AAGGAAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (31 bp):
CACTATGATGAGCGAAGGCATAGAGGTATGA
Found at i:268246 original size:29 final size:29
Alignment explanation
Indices: 268213--268270 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
268203 TAAAGTCTAC
268213 CAAACTATGAGCTTTGATGGCCACAAAAA
1 CAAACTATGAGCTTTGATGGCCACAAAAA
268242 CAAACTATGAGCTTTGATGGCCACAAAAA
1 CAAACTATGAGCTTTGATGGCCACAAAAA
268271 GGGAGGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (29 bp):
CAAACTATGAGCTTTGATGGCCACAAAAA
Found at i:274135 original size:31 final size:31
Alignment explanation
Indices: 274100--274158 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
274090 AGCCGGTGTT
* * *
274100 TTAAATAAAAACTTTTTAATAGTTTAATAAA
1 TTAAATAAAAACATTTGAATAATTTAATAAA
*
274131 TTAAATGAAAACATTTGAATAATTTAAT
1 TTAAATAAAAACATTTGAATAATTTAAT
274159 GATTATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAAATAAAAACATTTGAATAATTTAATAAA
Found at i:284677 original size:29 final size:30
Alignment explanation
Indices: 284639--284700 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
284629 TAGGGACCTT
* *
284639 ATCAAATTGGTCCCTCTATTATTCAAT-AG
1 ATCAAATTGGTCCCTCTACTATTAAATCAG
* *
284668 ATCAATTTGGTCCCTGTACTATTAAATCAG
1 ATCAAATTGGTCCCTCTACTATTAAATCAG
284698 ATC
1 ATC
284701 TTTTAGTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (30 bp):
ATCAAATTGGTCCCTCTACTATTAAATCAG
Found at i:293474 original size:16 final size:17
Alignment explanation
Indices: 293455--293493 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
293445 TTGTATATAT
*
293455 AATAAAT-ATATTAAAA
1 AATAAATAACATTAAAA
293471 AATAAATAACATTAAAA
1 AATAAATAACATTAAAA
293488 ATATAA
1 A-ATAA
293494 TAGGTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAAATAACATTAAAA
Found at i:294129 original size:18 final size:17
Alignment explanation
Indices: 294106--294139 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
294096 ATAAAAAATA
294106 TTATATTAATTATTTATG
1 TTATATTAA-TATTTATG
*
294124 TTATATTTATATTTAT
1 TTATATTAATATTTAT
294140 ATTAAATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATATTAATATTTATG
Found at i:295869 original size:7 final size:6
Alignment explanation
Indices: 295845--295971 Score: 94
Period size: 6 Copynumber: 19.0 Consensus size: 6
295835 TATTGTTGAT
295845 AATGGG AATGGG AATGGG AAATGGG AATGGG AATGGG AAATGGG AATGGTGG
1 AATGGG AATGGG AATGGG -AATGGG AATGGG AATGGG -AATGGG AAT-G-GG
* **
295897 AAGAGGGG AGATGGG AATGGG AAATGGG AGGA-GGG CACGGTGG AATGGG
1 -A-ATGGG A-ATGGG AATGGG -AATGGG A--ATGGG -AATG-GG AATGGG
295946 AAATGGG AATGGG AAATGGG AATGGG
1 -AATGGG AATGGG -AATGGG AATGGG
295972 TATTGCATGG
Statistics
Matches: 102, Mismatches: 5, Indels: 28
0.76 0.04 0.21
Matches are distributed among these distances:
6 47 0.46
7 44 0.43
8 8 0.08
9 2 0.02
10 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.50, T:0.14
Consensus pattern (6 bp):
AATGGG
Found at i:295869 original size:13 final size:13
Alignment explanation
Indices: 295845--295971 Score: 109
Period size: 13 Copynumber: 9.5 Consensus size: 13
295835 TATTGTTGAT
295845 AATGGG-AATGGG
1 AATGGGAAATGGG
295857 AATGGGAAATGGG
1 AATGGGAAATGGG
295870 AATGGG-AATGGG
1 AATGGGAAATGGG
295882 AAATGGG-AATGGTGG
1 -AATGGGAAAT-G-GG
* *
295897 AAGAGGGGAGATGGG
1 -A-ATGGGAAATGGG
295912 AATGGGAAATGGG
1 AATGGGAAATGGG
* **
295925 AGGA-GGGCACGGTGG
1 A--ATGGGAAATG-GG
295940 AATGGGAAATGGG
1 AATGGGAAATGGG
295953 AATGGGAAATGGG
1 AATGGGAAATGGG
295966 AATGGG
1 AATGGG
295972 TATTGCATGG
Statistics
Matches: 95, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
12 12 0.13
13 54 0.57
14 12 0.13
15 10 0.11
16 5 0.05
17 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.50, T:0.14
Consensus pattern (13 bp):
AATGGGAAATGGG
Found at i:296095 original size:30 final size:30
Alignment explanation
Indices: 296059--296385 Score: 390
Period size: 30 Copynumber: 11.1 Consensus size: 30
296049 TGTATTTAAA
* *
296059 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
296089 ATTTTAAAAATAAAAAAATACT-TGTAGTGT
1 ATTTTAAAAATAAAAAAATA-TATGTAGTGT
296119 ATTTT-AAAAT------ATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
296142 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* * *
296171 ATTCTAGAAATAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* * *
296201 ATTTT-AAAAT--ATATATATATGAAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* * *
296228 ATTTTAAAAGTAAAAAAAAATATATAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
296258 ATTTTAAAAATAAAAAAATATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAA-ATATATGTAGTGT
296290 ATTTTAAAAATAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
* *
296321 ATTTTAAAATTAAAAAAATATACGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
296351 ATTGTAAAAATAAAAAAAATATATGTAGTAT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
296382 ATTT
1 ATTT
296386 GGCATATTCG
Statistics
Matches: 257, Mismatches: 25, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
22 1 0.00
23 16 0.06
24 5 0.02
27 20 0.08
28 4 0.02
29 31 0.12
30 101 0.39
31 50 0.19
32 29 0.11
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:296128 original size:21 final size:23
Alignment explanation
Indices: 296111--296216 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
296101 AAAAAATACT
296111 TGTAGTGTATTTTAAAATATATA
1 TGTAGTGTATTTTAAAATATATA
296134 TGTAGTGTATTTTAAAAATAAAAAATATA
1 TGTAGTGTATTTT-AAAAT-----ATATA
296163 TGTAGTGTATTCTAGAAATAAAAATATATA
1 TGTAGTGTATT-T-----T-AAAATATATA
296193 TGTAGTGTATTTTAAAATATATA
1 TGTAGTGTATTTTAAAATATATA
296216 T
1 T
296217 ATATGAAGTG
Statistics
Matches: 71, Mismatches: 0, Indels: 24
0.75 0.00 0.25
Matches are distributed among these distances:
23 24 0.34
24 6 0.08
29 17 0.24
30 17 0.24
35 7 0.10
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.42
Consensus pattern (23 bp):
TGTAGTGTATTTTAAAATATATA
Found at i:296375 original size:61 final size:60
Alignment explanation
Indices: 296124--296385 Score: 334
Period size: 61 Copynumber: 4.4 Consensus size: 60
296114 AGTGTATTTT
* * * *
296124 AAAATATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTCTAGAAAT-A
1 AAAAAATATATGTAGTGTATTTTAAAATTAAAAAATATATGTAGTGTATTTTAAAAATAA
* * * * *
296183 AAAATATATATGTAGTGTATTTTAAAA-T-ATATATATATGAAGTGTATTTTAAAAGTAA
1 AAAAAATATATGTAGTGTATTTTAAAATTAAAAAATATATGTAGTGTATTTTAAAAATAA
* *
296241 AAAAAA-ATATATAGTGTATTTTAAAAATAAAAAAATATATATGTAGTGTATTTTAAAAATAA
1 AAAAAATATATGTAGTGTATTTT-AAAAT-TAAAAA-ATATATGTAGTGTATTTTAAAAATAA
* *
296303 AAAAAATATATGTAGTGTATTTTAAAATTAAAAAAATATACGTAGTGTATTGTAAAAATAA
1 AAAAAATATATGTAGTGTATTTTAAAATT-AAAAAATATATGTAGTGTATTTTAAAAATAA
*
296364 AAAAAATATATGTAGTATATTT
1 AAAAAATATATGTAGTGTATTT
296386 GGCATATTCG
Statistics
Matches: 177, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
57 37 0.21
58 11 0.06
59 27 0.15
61 47 0.27
62 40 0.23
63 15 0.08
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.37
Consensus pattern (60 bp):
AAAAAATATATGTAGTGTATTTTAAAATTAAAAAATATATGTAGTGTATTTTAAAAATAA
Found at i:296825 original size:21 final size:21
Alignment explanation
Indices: 296792--296844 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
296782 CATTGTTTCT
* * *
296792 AATCTTACAGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
296813 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
296834 AATCTCACCGC
1 AATCTCACCGC
296845 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:301368 original size:13 final size:13
Alignment explanation
Indices: 301350--301384 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
301340 TCTTCATTGC
301350 TTTTGAGAAGTAT
1 TTTTGAGAAGTAT
*
301363 TTTTGAGAAGTGT
1 TTTTGAGAAGTAT
301376 TTTTGAGAA
1 TTTTGAGAA
301385 ATTTAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (13 bp):
TTTTGAGAAGTAT
Found at i:302049 original size:22 final size:23
Alignment explanation
Indices: 302019--302086 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
302009 ATAGCATACT
302019 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
* *
302042 TA-ATTTGATTA--ATAT-AATACT
1 TATATTTGATAAGCATATGAA-A-A
302063 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
302086 T
1 T
302087 GAAAGTCGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 2 0.06
22 16 0.46
23 3 0.09
24 5 0.14
25 2 0.06
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (23 bp):
TATATTTGATAAGCATATGAAAA
Found at i:303071 original size:12 final size:12
Alignment explanation
Indices: 303054--303078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
303044 CTCTATACCT
303054 CAAAAACTAAAG
1 CAAAAACTAAAG
303066 CAAAAACTAAAG
1 CAAAAACTAAAG
303078 C
1 C
303079 TGATATACTT
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:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAAAACTAAAG
Found at i:304350 original size:15 final size:14
Alignment explanation
Indices: 304323--304367 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
304313 TCTTTCAAAA
304323 TTTAAAA-TTTAAT
1 TTTAAAATTTTAAT
* *
304336 TTTCATATTTTTAAT
1 TTT-AAAATTTTAAT
304351 TTTAAAATTTTAAT
1 TTTAAAATTTTAAT
304365 TTT
1 TTT
304368 TTATATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 3 0.12
14 14 0.54
15 9 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAAAATTTTAAT
Found at i:304368 original size:15 final size:15
Alignment explanation
Indices: 304323--304378 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
304313 TCTTTCAAAA
304323 TTTAAAA-TTTAATT
1 TTTAAAATTTTAATT
* * *
304337 TTCATATTTTTAA-T
1 TTTAAAATTTTAATT
304351 TTTAAAATTTTAATT
1 TTTAAAATTTTAATT
* *
304366 TTTTATATTTTAA
1 TTTAAAATTTTAA
304379 AATTTAAATC
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
14 15 0.47
15 17 0.53
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAAAATTTTAATT
Found at i:304376 original size:29 final size:28
Alignment explanation
Indices: 304323--304386 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
304313 TCTTTCAAAA
304323 TTTAAAATTTAATTTTCATATTTTTAAT
1 TTTAAAATTTAATTTTCATATTTTTAAT
* * *
304351 TTTAAAATTTTAATTTTTTATATTTTAAAA
1 TTTAAAA-TTTAA-TTTTCATATTTTTAAT
304381 TTTAAA
1 TTTAAA
304387 TCAAACTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.23
29 5 0.16
30 19 0.61
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTAAAATTTAATTTTCATATTTTTAAT
Found at i:306123 original size:30 final size:32
Alignment explanation
Indices: 306087--306154 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
306077 GGGTTCATTT
* *
306087 CAGTCACCTAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
*
306117 CAGTCA-CTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
306148 CAGTCAC
1 CAGTCAC
306155 TGACTAACAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 13 0.41
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (32 bp):
CAGTCACCTAACGTTATAAAAAAGTAACAAAA
Found at i:306136 original size:29 final size:30
Alignment explanation
Indices: 306087--306155 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
306077 GGGTTCATTT
* *
306087 CAGTCACCTAACTTTTGAAAAA-TAACAAAA
1 CAGTCA-CTAACTTATAAAAAAGTAACAAAA
*
306117 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAAC-TTATAAAAAAGTAACAAAA
306148 CAGTCACT
1 CAGTCACT
306156 GACTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (30 bp):
CAGTCACTAACTTATAAAAAAGTAACAAAA
Found at i:307084 original size:21 final size:20
Alignment explanation
Indices: 307046--307089 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
307036 AACGTGGCAG
*
307046 GTTAACTGGCCACGTCAGCTA
1 GTTAACTGGCCACATCAGC-A
* *
307067 GTTAACTTGTCACATCAGCA
1 GTTAACTGGCCACATCAGCA
307087 GTT
1 GTT
307090 TTGTTAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (20 bp):
GTTAACTGGCCACATCAGCA
Found at i:310594 original size:2 final size:2
Alignment explanation
Indices: 310587--310612 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
310577 TTAAAACTTA
310587 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
310613 GGTTGGTATG
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:315255 original size:81 final size:81
Alignment explanation
Indices: 315113--315323 Score: 370
Period size: 81 Copynumber: 2.6 Consensus size: 81
315103 AAACTCACCC
*
315113 TTGCTTT-TTTTGTATCACATATAAATATGCATACATGTGATACAAAGATTCCATCAATGAAATA
1 TTGCTTTCTTTTGTATCACATATAAATATGCATATATGTGATACAAAGATTCCATCAATGAAATA
315177 ACAATATTGTAGTAAT
66 ACAATATTGTAGTAAT
*
315193 TTGCTTTCTTTTGTATCACATATAAATATGCATATATGTGATACAAAGATTCCATCAATGAAATC
1 TTGCTTTCTTTTGTATCACATATAAATATGCATATATGTGATACAAAGATTCCATCAATGAAATA
*
315258 GCAATATTGTAGTAAT
66 ACAATATTGTAGTAAT
* *
315274 TTGCTTTCTTTTGTATCGCATATAAATATGCATATATGTGATGCAAAGAT
1 TTGCTTTCTTTTGTATCACATATAAATATGCATATATGTGATACAAAGAT
315324 CAATTATACA
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 7 0.06
81 118 0.94
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (81 bp):
TTGCTTTCTTTTGTATCACATATAAATATGCATATATGTGATACAAAGATTCCATCAATGAAATA
ACAATATTGTAGTAAT
Found at i:320289 original size:30 final size:31
Alignment explanation
Indices: 320227--320299 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
320217 AACCAAAATT
320227 AATATTTTTTATGTTTGAATAAATCTATTTAA
1 AATATTTTTT-TGTTTGAATAAATCTATTTAA
* *
320259 AATATTTTTTTGTTTG-TTAAAT-TTTCTTAA
1 AATATTTTTTTGTTTGAATAAATCTAT-TTAA
*
320289 AATAATTTTTT
1 AATATTTTTTT
320300 AGAGGTTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 2 0.05
30 19 0.51
31 6 0.16
32 10 0.27
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (31 bp):
AATATTTTTTTGTTTGAATAAATCTATTTAA
Found at i:338667 original size:143 final size:143
Alignment explanation
Indices: 338410--338691 Score: 503
Period size: 143 Copynumber: 2.0 Consensus size: 143
338400 TGGTTTTGTG
* *
338410 TATTAGGCTTTTCATCTTTATATTCTTGTTTCCAGTTGCTGAGATTGCTCAAAAGTAGGAGATAT
1 TATTAGGATTTTCATATTTATATTCTTGTTTCCAGTTGCTGAGATTGCTCAAAAGTAGGAGATAT
* *
338475 ATTTCTATTTCTATTACCTAGTCATTATATATATTGCTTTGATTTCTCTAAACATTTTCGTCCCA
66 ATTTCTATTTCTATTACCTAGTCATCACATATATTGCTTTGATTTCTCTAAACATTTTCGTCCCA
338540 TT-GTCTTCTGTA
131 TTGGTCTTCTGTA
338552 TATTAGGATTTTCATATTTATATTCTTGTTTCCAGTTGCTGAGATTGCTCAAAAAGTAGGAGATA
1 TATTAGGATTTTCATATTTATATTCTTGTTTCCAGTTGCTGAGATTGCTC-AAAAGTAGGAGATA
*
338617 TATTTCTGTTTCTATTACCTAGTCATCACATATATTGCTTTGATTTCTCTAAACATTTTCGTCCC
65 TATTTCTATTTCTATTACCTAGTCATCACATATATTGCTTTGATTTCTCTAAACATTTTCGTCCC
338682 ATTGGTCTTC
130 ATTGGTCTTC
338692 CCCTTCTACT
Statistics
Matches: 133, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
142 48 0.36
143 79 0.59
144 6 0.05
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (143 bp):
TATTAGGATTTTCATATTTATATTCTTGTTTCCAGTTGCTGAGATTGCTCAAAAGTAGGAGATAT
ATTTCTATTTCTATTACCTAGTCATCACATATATTGCTTTGATTTCTCTAAACATTTTCGTCCCA
TTGGTCTTCTGTA
Found at i:349758 original size:3 final size:3
Alignment explanation
Indices: 349750--349790 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
349740 GGATTGAAAC
*
349750 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TCG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
349791 ATTTTTAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.02, G:0.32, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:354753 original size:23 final size:24
Alignment explanation
Indices: 354722--354772 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
354712 TTTGTGATGT
*
354722 AATTTAAAA-TAAAAATTAAAA-AA
1 AATTAAAAATTAAAAA-TAAAATAA
354745 AATTAAAAATTAAAAATAAAATAA
1 AATTAAAAATTAAAAATAAAATAA
354769 AATT
1 AATT
354773 GGAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
AATTAAAAATTAAAAATAAAATAA
Found at i:354772 original size:17 final size:18
Alignment explanation
Indices: 354726--354770 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
354716 TGATGTAATT
354726 TAAAATAAAAATTAAAAA
1 TAAAATAAAAATTAAAAA
*
354744 -AAATTAAAAATTAAAAA
1 TAAAATAAAAATTAAAAA
354761 TAAAATAAAA
1 TAAAATAAAA
354771 TTGGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAATAAAAATTAAAAA
Found at i:354782 original size:17 final size:16
Alignment explanation
Indices: 354727--354770 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
354717 GATGTAATTT
354727 AAAATAAAAATTAAAA
1 AAAATAAAAATTAAAA
354743 AAAATTAAAAATTAAAAA
1 AAAA-TAAAAATT-AAAA
354761 TAAAATAAAA
1 -AAAATAAAA
354771 TTGGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.16
17 8 0.32
18 9 0.36
19 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAAAATTAAAA
Found at i:362818 original size:5 final size:5
Alignment explanation
Indices: 362808--362868 Score: 77
Period size: 5 Copynumber: 12.2 Consensus size: 5
362798 TGAGATGGGT
* * *
362808 GTATA GTATA GTATA GTATA GTATA GTATA GTATG GTATA GCATA GCATA
1 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTATA
* *
362858 GCATA GCATA G
1 GTATA GTATA G
362869 CATATAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.33
Consensus pattern (5 bp):
GTATA
Found at i:362869 original size:5 final size:5
Alignment explanation
Indices: 362845--362872 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
362835 ATAGTATGGT
362845 ATAGC ATAGC ATAGC ATAGC ATAGC ATA
1 ATAGC ATAGC ATAGC ATAGC ATAGC ATA
362873 TAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (5 bp):
ATAGC
Found at i:365218 original size:16 final size:16
Alignment explanation
Indices: 365171--365218 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
365161 TTAGAGTTTG
*
365171 AATTATTTTGAAATTA
1 AATTATTTTGAATTTA
* **
365187 AATCATTTTTTCATTTA
1 AATTA-TTTTGAATTTA
365204 AATTATTTTGAATTT
1 AATTATTTTGAATTT
365219 GAATACCTTC
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (16 bp):
AATTATTTTGAATTTA
Found at i:374191 original size:25 final size:23
Alignment explanation
Indices: 374162--374207 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
374152 AATAAAAAAC
374162 TTTAAAATATAATAAATCAAATACA
1 TTTAAAATATAA-AAA-CAAATACA
374187 TTTAAAATATAAAAACAAATA
1 TTTAAAATATAAAAACAAATA
374208 TTCAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 3 0.14
25 12 0.57
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
TTTAAAATATAAAAACAAATACA
Found at i:374776 original size:23 final size:23
Alignment explanation
Indices: 374746--374801 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
374736 TATTTGTTTT
374746 CTATTTTATCGAGGAGTTGCTTC
1 CTATTTTATCGAGGAGTTGCTTC
374769 CTATTTTATCGAGGAGTTGCTTC
1 CTATTTTATCGAGGAGTTGCTTC
374792 CTATTTTATC
1 CTATTTTATC
374802 CAAAGAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (23 bp):
CTATTTTATCGAGGAGTTGCTTC
Found at i:375939 original size:47 final size:49
Alignment explanation
Indices: 375886--375986 Score: 127
Period size: 47 Copynumber: 2.1 Consensus size: 49
375876 AATAAGCTCA
* **
375886 ATTTATA-TTAAATATTATAATTATTCAA-GTT-TTTTTACTTAATTATT
1 ATTTATACTTAAAT-TTATAATTATTAAACGTTATTTTTACCAAATTATT
* *
375933 ATTTATACTTAAATTTGTAATTATTAAACTTTATTTTTACCAAATTATT
1 ATTTATACTTAAATTTATAATTATTAAACGTTATTTTTACCAAATTATT
375982 ATTTA
1 ATTTA
375987 AATACTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 19 0.41
48 8 0.17
49 19 0.41
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (49 bp):
ATTTATACTTAAATTTATAATTATTAAACGTTATTTTTACCAAATTATT
Found at i:378207 original size:15 final size:15
Alignment explanation
Indices: 378187--378217 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
378177 CCATCAACAA
*
378187 AAACATACATGAAAC
1 AAACATACATCAAAC
378202 AAACATACATCAAAC
1 AAACATACATCAAAC
378217 A
1 A
378218 TACGAGGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.23, G:0.03, T:0.13
Consensus pattern (15 bp):
AAACATACATCAAAC
Found at i:378829 original size:30 final size:30
Alignment explanation
Indices: 378789--378849 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
378779 AGCTGTTATG
*
378789 AACTTATCCATCTAACTCTCTGCACAAACA
1 AACTTATCCATCAAACTCTCTGCACAAACA
* *
378819 AACTTCTCCATCAAACTCTCTGCCCAAACA
1 AACTTATCCATCAAACTCTCTGCACAAACA
378849 A
1 A
378850 CACATGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.36, G:0.03, T:0.25
Consensus pattern (30 bp):
AACTTATCCATCAAACTCTCTGCACAAACA
Found at i:379016 original size:92 final size:92
Alignment explanation
Indices: 378859--379036 Score: 347
Period size: 92 Copynumber: 1.9 Consensus size: 92
378849 ACACATGAAA
*
378859 ATAGAATGAGATAATGAAATTTTAAAATAAACATAAACAAAGAAAGAAAGTGGAAAGCTCTCTGC
1 ATAGAAGGAGATAATGAAATTTTAAAATAAACATAAACAAAGAAAGAAAGTGGAAAGCTCTCTGC
378924 CCAAACAACACATGAAAATAGAAGGAG
66 CCAAACAACACATGAAAATAGAAGGAG
378951 ATAGAAGGAGATAATGAAATTTTAAAATAAACATAAACAAAGAAAGAAAGTGGAAAGCTCTCTGC
1 ATAGAAGGAGATAATGAAATTTTAAAATAAACATAAACAAAGAAAGAAAGTGGAAAGCTCTCTGC
379016 CCAAACAACACATGAAAATAG
66 CCAAACAACACATGAAAATAG
379037 GAGATAATGA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.53, C:0.12, G:0.17, T:0.17
Consensus pattern (92 bp):
ATAGAAGGAGATAATGAAATTTTAAAATAAACATAAACAAAGAAAGAAAGTGGAAAGCTCTCTGC
CCAAACAACACATGAAAATAGAAGGAG
Found at i:383242 original size:132 final size:132
Alignment explanation
Indices: 383005--383244 Score: 363
Period size: 132 Copynumber: 1.8 Consensus size: 132
382995 TCTCGCTTTG
* * * * * *
383005 GAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* *
383070 GCACGATAGGGCACGATTCCCCAAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAAAAGTTTT
66 GCACGATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAAGTTTT
383135 TA
131 TA
* **
383137 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* *
383202 GCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
66 GCACGATAGGGCACGATTCCCCAAATTGCCAAACATCGAACAT
383245 CGTCTCCGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 95 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (132 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAAGTTTT
TA
Found at i:383560 original size:3 final size:3
Alignment explanation
Indices: 383547--383597 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
383537 ACAAACAATG
* *
383547 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
383593 ATA AT
1 ATA AT
383598 GCAACGTAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:383823 original size:21 final size:21
Alignment explanation
Indices: 383799--383838 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
383789 ATTAAAAATA
383799 TATACATAAAAATATAATAAC
1 TATACATAAAAATATAATAAC
* * *
383820 TATATATACATATATAATA
1 TATACATAAAAATATAATA
383839 TAATATATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
TATACATAAAAATATAATAAC
Found at i:383951 original size:12 final size:12
Alignment explanation
Indices: 383931--383963 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
383921 AATAATACTT
*
383931 CATAAATATATA
1 CATATATATATA
383943 CATATATATATA
1 CATATATATATA
383955 CATATATAT
1 CATATATAT
383964 GTTAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (12 bp):
CATATATATATA
Found at i:384139 original size:24 final size:24
Alignment explanation
Indices: 384072--384128 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
384062 TAGTAATTAT
* * * *
384072 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
384096 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
384120 AATAATAAT
1 AATAATAAT
384129 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:386734 original size:18 final size:18
Alignment explanation
Indices: 386707--386763 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
386697 TACGACCGTT
386707 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
386725 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
386743 TATGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
386761 TAC
1 TAC
386764 AGTAGTTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:388896 original size:14 final size:14
Alignment explanation
Indices: 388879--388912 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
388869 TTATACATTG
388879 ATATTTATATACAT
1 ATATTTATATACAT
*
388893 ATATATATATACAT
1 ATATTTATATACAT
388907 A-ATTTA
1 ATATTTA
388913 ATTGAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTTATATACAT
Found at i:391332 original size:72 final size:72
Alignment explanation
Indices: 391240--391384 Score: 195
Period size: 72 Copynumber: 2.0 Consensus size: 72
391230 CCGAAAAAGC
* * *
391240 ATCATTAATTCACAAGTTGAAGACAGACAAAAGTGA-ATGGTAATTAATTAATATA-AAAGGGGG
1 ATCATTAATTCACAAGTTGAAGAAAGAC-AAAGT-ATACGGTAATTAATTAATATAGAAAGGAGG
*
391303 TTAAGGCGA
64 TTAAGACGA
* * *
391312 ATCATTAATTCATAGGTTGAAGAAAGACAAAGTATACGGTATTTAATTAATATAGAAAGGAGGTT
1 ATCATTAATTCACAAGTTGAAGAAAGACAAAGTATACGGTAATTAATTAATATAGAAAGGAGGTT
391377 AAGACGA
66 AAGACGA
391384 A
1 A
391385 GATGAAGATT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
70 1 0.02
71 22 0.34
72 41 0.64
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (72 bp):
ATCATTAATTCACAAGTTGAAGAAAGACAAAGTATACGGTAATTAATTAATATAGAAAGGAGGTT
AAGACGA
Found at i:397497 original size:86 final size:86
Alignment explanation
Indices: 397352--397524 Score: 328
Period size: 86 Copynumber: 2.0 Consensus size: 86
397342 GATAAATAGA
*
397352 TTGCCTACAAAAGTTCTTGAATCTCAAAGTCCTATGCAAGTTCTAGCAAAATTCTTTCCTGATTT
1 TTGCCTACAAAAGTCCTTGAATCTCAAAGTCCTATGCAAGTTCTAGCAAAATTCTTTCCTGATTT
*
397417 TAGTGCTTCAAGTAACCTTCC
66 TAGTACTTCAAGTAACCTTCC
397438 TTGCCTACAAAAGTCCTTGAATCTCAAAGTCCTATGCAAGTTCTAGCAAAATTCTTTCCTGATTT
1 TTGCCTACAAAAGTCCTTGAATCTCAAAGTCCTATGCAAGTTCTAGCAAAATTCTTTCCTGATTT
397503 TAGTACTTCAAGTAACCTTCC
66 TAGTACTTCAAGTAACCTTCC
397524 T
1 T
397525 CCCAAAATAT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (86 bp):
TTGCCTACAAAAGTCCTTGAATCTCAAAGTCCTATGCAAGTTCTAGCAAAATTCTTTCCTGATTT
TAGTACTTCAAGTAACCTTCC
Found at i:397826 original size:33 final size:33
Alignment explanation
Indices: 397784--397874 Score: 173
Period size: 33 Copynumber: 2.8 Consensus size: 33
397774 TTTCTTCTTG
*
397784 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
397817 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
397850 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
397875 TGAAACAGAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.30, C:0.42, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Done.