Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 1 of 106
Found at i:1664 original size:22 final size:22
Alignment explanation
Indices: 1637--1691 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1627 TTACCTGAAA
1637 GTCTTAAAAATTATGT-CAGAAG
1 GTCTTAAAAATTATGTCCA-AAG
*
1659 GTCTTAAAGATTATGTCCAAAG
1 GTCTTAAAAATTATGTCCAAAG
*
1681 GTCTTACAAAT
1 GTCTTAAAAAT
1692 CTTAAAATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (22 bp):
GTCTTAAAAATTATGTCCAAAG
Found at i:1790 original size:22 final size:22
Alignment explanation
Indices: 1763--1817 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
1753 TTACCTAGAG
*
1763 GTCTTAAAAATTGTGCTCGAAA
1 GTCTTAAAAATTATGCTCGAAA
* * * *
1785 GTCTTAGAGATTATGCTTGGAA
1 GTCTTAAAAATTATGCTCGAAA
*
1807 GTCTTACAAAT
1 GTCTTAAAAAT
1818 CTCAAAATCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (22 bp):
GTCTTAAAAATTATGCTCGAAA
Found at i:1798 original size:126 final size:126
Alignment explanation
Indices: 1572--2009 Score: 473
Period size: 126 Copynumber: 3.5 Consensus size: 126
1562 AGACTATGGG
* * * *
1572 TCTTTGAATGCTCCTTCAATCAGAGGCTATGAAACTTTTAAAAAATTAAAATATTTTACCTGAAA
1 TCTTTGAATGCTCATTCAATCAAAGGCTATGAAACTTTTAAAAATTTAAAATATTTTACCTG-AG
* * * *
1637 GTCTTAAAAATTATG-TCAGAAGGTCTTAAAGATTATGTCCAAAGGTCTTACAAATCTTAAAA
65 GTCTTAAAAATTATGCTC-GAAAGTCTTAGAGATTATGTCCGAAGGTCTTACAAATCTCAAAA
*
1699 TCTTTGAATGCTCATCCAATCAAAGG-TCATGAAA-TTTTAAAAATTTAAAATATTTTACCTAGA
1 TCTTTGAATGCTCATTCAATCAAAGGCT-ATGAAACTTTTAAAAATTTAAAATATTTTACCT-GA
* **
1762 GGTCTTAAAAATTGTGCTCGAAAGTCTTAGAGATTATGCTTGGAA-GTCTTACAAATCTCAAAA
64 GGTCTTAAAAATTATGCTCGAAAGTCTTAGAGATTATG-TCCGAAGGTCTTACAAATCTCAAAA
* * * *
1825 TCTTTAAATGCTCCA-TCAAT-AAGAGGCCATGAAA-TTTTAAAAATTTAAAATATTTTGCTTGG
1 TCTTTGAATGCT-CATTCAATCAA-AGGCTATGAAACTTTTAAAAATTTAAAATATTTTACCT-G
* * * * *
1887 AGGTCTTAAAATTTATGCT-TAAATGTCTTAGAGATTATG-CTCGGAGGTCTTATAAATATCAAA
63 AGGTCTTAAAAATTATGCTCGAAA-GTCTTAGAGATTATGTC-CGAAGGTCTTACAAATCTCAAA
1950 A
126 A
* * * * *
1951 TCGTTGAATGCTCATTTAATTAGAGGCTATGAAACTTTTTAAAAA-TTAAAATGTTTTAC
1 TCTTTGAATGCTCATTCAATCAAAGGCTATGAAAC-TTTTAAAAATTTAAAATATTTTAC
2010 AAATGGTTTT
Statistics
Matches: 264, Mismatches: 33, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
125 9 0.03
126 196 0.74
127 50 0.19
128 9 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (126 bp):
TCTTTGAATGCTCATTCAATCAAAGGCTATGAAACTTTTAAAAATTTAAAATATTTTACCTGAGG
TCTTAAAAATTATGCTCGAAAGTCTTAGAGATTATGTCCGAAGGTCTTACAAATCTCAAAA
Found at i:2843 original size:42 final size:43
Alignment explanation
Indices: 2779--2885 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 43
2769 AAATGTAAGT
* * *
2779 GATGCAAATGCGAATATTTTTTTTC-T-TGATGTAGATACAAGA
1 GATGCAAATGCAAATATCTTTTTCCTTATGATGT-GATACAAGA
* * *
2821 GATGCAAATGCAAATGTCTTTTTCCTTATGATGTGATGCAAGT
1 GATGCAAATGCAAATATCTTTTTCCTTATGATGTGATACAAGA
*
2864 GATACAAATGCAAAT-T-TTTTTC
1 GATGCAAATGCAAATATCTTTTTC
2886 ATGATACAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
41 6 0.11
42 22 0.39
43 22 0.39
44 6 0.11
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (43 bp):
GATGCAAATGCAAATATCTTTTTCCTTATGATGTGATACAAGA
Found at i:2873 original size:43 final size:40
Alignment explanation
Indices: 2775--2885 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 40
2765 GTGCAAATGT
*
2775 AAGTGATGCAAATGCGAATATTTTTTTTCTTGATGTAGATAC
1 AAGTGATGCAAATGC-AA-ATTTTTTTCCTTGATGTAGATAC
* *
2817 AAGAGATGCAAATGCAAATGTCTTTTTCCTTATGATGT-GATGC
1 AAGTGATGCAAATGCAAAT-T-TTTTTCC-T-TGATGTAGATAC
*
2860 AAGTGATACAAATGCAAATTTTTTTC
1 AAGTGATGCAAATGCAAATTTTTTTC
2886 ATGATACAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
40 2 0.03
41 9 0.15
42 21 0.35
43 22 0.37
44 6 0.10
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (40 bp):
AAGTGATGCAAATGCAAATTTTTTTCCTTGATGTAGATAC
Found at i:2955 original size:38 final size:38
Alignment explanation
Indices: 2856--2987 Score: 131
Period size: 38 Copynumber: 3.4 Consensus size: 38
2846 TTATGATGTG
* **
2856 ATGCAAGTGATACAAATGCAAATTTTTTTCATGATACAA
1 ATGCAAGTGATGCAAATATAAA-TTTTTTCATGATACAA
* * * * * *
2895 ATACAAGTGACGTAAATTTAAATTTTCTT-GTGATGCAA
1 ATGCAAGTGATGCAAATATAAATTTT-TTCATGATACAA
*
2933 ATGCAAGTGATGCAAATATAAATTTTTTCTTGATACAA
1 ATGCAAGTGATGCAAATATAAATTTTTTCATGATACAA
* *
2971 GTGCTAGTGATGCAAAT
1 ATGCAAGTGATGCAAAT
2988 GCAAATATCT
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
37 2 0.03
38 55 0.73
39 18 0.24
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (38 bp):
ATGCAAGTGATGCAAATATAAATTTTTTCATGATACAA
Found at i:3340 original size:38 final size:36
Alignment explanation
Indices: 3270--3376 Score: 114
Period size: 38 Copynumber: 3.0 Consensus size: 36
3260 GTTGTGATGC
* *
3270 AGATGCGAATGATGCAAATGCAAAT-ATTTTTTTTATAT
1 AGATGCTAATGATGCAAATGCAAATGA-CTTTTTT-T-T
* *
3308 AGATGCTAATGATGCAAATACGAATGACTTTTTTTT
1 AGATGCTAATGATGCAAATGCAAATGACTTTTTTTT
*
3344 -TATGCT-A-GATGCAAATGCAAATGACTTTTTTTT
1 AGATGCTAATGATGCAAATGCAAATGACTTTTTTTT
3377 TATGCCAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
33 24 0.39
34 1 0.02
35 5 0.08
36 1 0.02
37 1 0.02
38 28 0.46
39 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (36 bp):
AGATGCTAATGATGCAAATGCAAATGACTTTTTTTT
Found at i:3355 original size:42 final size:42
Alignment explanation
Indices: 3238--3360 Score: 121
Period size: 38 Copynumber: 3.0 Consensus size: 42
3228 GAAAATATGA
* * * *
3238 ATGCAAATGTGAATGTCTTTTTGTTGTGATGC-AGATGCGAATG
1 ATGCAAATGCGAATGACTTTTT-TT-TTATGCTAGATGCAAATG
* * *
3281 ATGCAAATGCAAAT-A--TTTTTTTTAT-ATAGATGCTAATG
1 ATGCAAATGCGAATGACTTTTTTTTTATGCTAGATGCAAATG
*
3319 ATGCAAATACGAATGACTTTTTTTTTATGCTAGATGCAAATG
1 ATGCAAATGCGAATGACTTTTTTTTTATGCTAGATGCAAATG
3361 CAAATGACTT
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
38 25 0.38
39 3 0.05
40 4 0.06
41 10 0.15
42 11 0.17
43 12 0.18
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (42 bp):
ATGCAAATGCGAATGACTTTTTTTTTATGCTAGATGCAAATG
Found at i:3359 original size:33 final size:33
Alignment explanation
Indices: 3318--3381 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
3308 AGATGCTAAT
*
3318 GATGCAAATACGAATGACTTTTTTTTTATGCTA
1 GATGCAAATACAAATGACTTTTTTTTTATGCTA
*
3351 GATGCAAATGCAAATGACTTTTTTTTTATGC
1 GATGCAAATACAAATGACTTTTTTTTTATGC
3382 CAAATAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (33 bp):
GATGCAAATACAAATGACTTTTTTTTTATGCTA
Found at i:3455 original size:33 final size:33
Alignment explanation
Indices: 3413--3500 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
3403 CTTCATCAGA
*
3413 GGCTAGATAAACTAGGCTTAAATTTTTAGTAAG
1 GGCTAGATAAACTAGGCTTAAATTTTCAGTAAG
*
3446 GGCTAGATAAACT-GAGCTTAAATTTTCATTAAG
1 GGCTAGATAAACTAG-GCTTAAATTTTCAGTAAG
* * * *
3479 CGCCAGCTAAGCTAGGCTTAAA
1 GGCTAGATAAACTAGGCTTAAA
3501 AATTTTTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 1 0.02
33 45 0.96
34 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (33 bp):
GGCTAGATAAACTAGGCTTAAATTTTCAGTAAG
Found at i:4422 original size:17 final size:17
Alignment explanation
Indices: 4400--4442 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
4390 CACCCATTCA
4400 TTTCTTTTTCTTT-CATT
1 TTTCTTTTTCTTTAC-TT
4417 TTTCTTTTTTCTTTACTT
1 TTTC-TTTTTCTTTACTT
4435 TTT-TTTTT
1 TTTCTTTTT
4443 ACCTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 14 0.58
19 1 0.04
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTTTCTTTACTT
Found at i:4425 original size:18 final size:17
Alignment explanation
Indices: 4400--4442 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4390 CACCCATTCA
*
4400 TTTC-TTTTTCTTTCATT
1 TTTCTTTTTTCTTT-ACT
4417 TTTCTTTTTTCTTTACT
1 TTTCTTTTTTCTTTACT
4434 TTT-TTTTTT
1 TTTCTTTTTT
4443 ACCTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTTTTCTTTACT
Found at i:4439 original size:13 final size:13
Alignment explanation
Indices: 4420--4455 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
4410 TTTCATTTTT
*
4420 CTTTTTTCTTTA-
1 CTTTTTTTTTTAC
4432 CTTTTTTTTTTAC
1 CTTTTTTTTTTAC
4445 CTTTTTTTTTT
1 CTTTTTTTTTT
4456 TTTTGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
CTTTTTTTTTTAC
Found at i:4465 original size:12 final size:11
Alignment explanation
Indices: 4404--4459 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
4394 CATTCATTTC
**
4404 TTTTTCTTTCA
1 TTTTTCTTTTT
4415 TTTTTCTTTTT
1 TTTTTCTTTTT
*
4426 TCTTTACTTTTT
1 T-TTTTCTTTTT
*
4438 TTTTTACCTTTT
1 TTTTT-CTTTTT
4450 TTTTT-TTTTT
1 TTTTTCTTTTT
4460 GCTTTTGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
10 4 0.11
11 13 0.35
12 20 0.54
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:5493 original size:21 final size:22
Alignment explanation
Indices: 5356--5559 Score: 94
Period size: 22 Copynumber: 9.2 Consensus size: 22
5346 AAATTAGTAA
* *
5356 TAAATCATAAATAACTTAATAG
1 TAAATCATGAATAATTTAATAG
*** *
5378 TAAATCAACTATAATTTAGTAG
1 TAAATCATGAATAATTTAATAG
* * * ** * *
5400 TTAATAATTAGCAACTTAAAAG
1 TAAATCATGAATAATTTAATAG
5422 TAAATCA--ATATAATTTAATAATAG
1 TAAATCATGA-ATAA-TT--TAATAG
*
5446 TTAATCATGAATAATTTAATAG
1 TAAATCATGAATAATTTAATAG
5468 TAAATCATGAATAATTTAAT-G
1 TAAATCATGAATAATTTAATAG
* * *
5489 TAAATTAGTG-ATAATTTGATAA
1 TAAATCA-TGAATAATTTAATAG
* ** * *
5511 TGAATCATGGTTAATTTAGTAA
1 TAAATCATGAATAATTTAATAG
* * *
5533 TAAAT-TTGTGATAATTTTATAG
1 TAAATCATG-AATAATTTAATAG
5555 TAAAT
1 TAAAT
5560 AATTGAAAAC
Statistics
Matches: 135, Mismatches: 37, Indels: 20
0.70 0.19 0.10
Matches are distributed among these distances:
20 1 0.01
21 22 0.16
22 94 0.70
24 13 0.10
25 4 0.03
26 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAATCATGAATAATTTAATAG
Found at i:5517 original size:43 final size:44
Alignment explanation
Indices: 5456--5587 Score: 115
Period size: 44 Copynumber: 3.0 Consensus size: 44
5446 TTAATCATGA
* *
5456 ATAATTTAATAGTAAATCATGAATAATTTAAT-GTAAATTAGTG
1 ATAATTTAATAATAAATCATGAATAATTTAATAATAAATTAGTG
* * ** * *
5499 ATAATTTGATAATGAATCATGGTTAATTTAGTAATAAATTTGTG
1 ATAATTTAATAATAAATCATGAATAATTTAATAATAAATTAGTG
* * * * * *
5543 ATAATTTTATAGTAAATAATTGAA-AACTAAATAATAAATCAGTG
1 ATAATTTAATAATAAATCA-TGAATAATTTAATAATAAATTAGTG
5587 A
1 A
5588 CAATAGAATA
Statistics
Matches: 68, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
43 26 0.38
44 40 0.59
45 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (44 bp):
ATAATTTAATAATAAATCATGAATAATTTAATAATAAATTAGTG
Found at i:6829 original size:290 final size:292
Alignment explanation
Indices: 6360--6944 Score: 919
Period size: 290 Copynumber: 2.0 Consensus size: 292
6350 GACTTTAGAC
* *
6360 TCCTGTAAAAGAACAGTTTTTTCTAATTTTTCCATTAACATTTTTGCATCATCATCATCTTGCTC
1 TCCTGTAAAAGAACAGTCTTTTCGAATTTTTCCATTAACATTTTTGCATCATCATCATCTTGCTC
* *
6425 AATGCTCAGGGCCCAGGGTTGGTGAGGATCAATGCAATCAAATCCCAAATCCCGAATCCCACTAA
66 AATGCTCAGGGCCCAGGGTAGGTGAGGATCAATGCAATCAAAT-CC--A-CCCGAATCCCACAAA
6490 TCAAAACGTCTTCCCACTTGTATTAAACTATCACCATTTCTTGTTTTGTTTAGAGATCATAAAAG
127 TCAAAACGTCTTCCCACTTGTATTAAACTATCACCATTTCTTGTTTTGTTTAGAGATCATAAAAG
* *
6555 AAAGAGATTTCTTTTATAATTTGTGTTTGATTTGTAATAAAAAAGAGATGGACAAGAAAAGGATT
192 AAAGAGATTACTTTTATAATTGGTGTTTGATTTG---TAAAAAAGAGATGGACAAGAAAAGGATT
* *
6620 GCGGTCGCACTTGTATGCCATGGCCACTCACGCCCCGTA
254 GCGGTCCCACTTGTATGCCATGACCACTCACGCCCCGTA
*
6659 TCCTGTAAAAGAATAGTCTTTTCGAA-TTTTCCA-TAACATTTTTGCATCATCATCATCTTGCTC
1 TCCTGTAAAAGAACAGTCTTTTCGAATTTTTCCATTAACATTTTTGCATCATCATCATCTTGCTC
*
6722 AATGCTCAGGGCCCAGGGTAGGTGAGGATTAATGCAATCAAAT-C-CCC-AATCCCACAAATCAA
66 AATGCTCAGGGCCCAGGGTAGGTGAGGATCAATGCAATCAAATCCACCCGAATCCCACAAATCAA
** * **
6784 AACGTCTTCCTTCTTGTATTAAACTATCACCATTTCTTGTTTTGTTTGGTTATCATAAAAGAAAG
131 AACGTCTTCCCACTTGTATTAAACTATCACCATTTCTTGTTTTGTTTAGAGATCATAAAAGAAAG
*
6849 AGATTACTTTTATAATTGGTGTTTGATTTGTAAAAAAGAGATGGATAAGAAAAGGATTGCGGTCC
196 AGATTACTTTTATAATTGGTGTTTGATTTGTAAAAAAGAGATGGACAAGAAAAGGATTGCGGTCC
*
6914 CACTTGTATGCCATGATCACTCACGCCCCGT
261 CACTTGTATGCCATGACCACTCACGCCCCGT
6945 CGTGAACCTC
Statistics
Matches: 269, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
287 62 0.23
290 102 0.38
291 3 0.01
295 1 0.00
297 71 0.26
298 7 0.03
299 23 0.09
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (292 bp):
TCCTGTAAAAGAACAGTCTTTTCGAATTTTTCCATTAACATTTTTGCATCATCATCATCTTGCTC
AATGCTCAGGGCCCAGGGTAGGTGAGGATCAATGCAATCAAATCCACCCGAATCCCACAAATCAA
AACGTCTTCCCACTTGTATTAAACTATCACCATTTCTTGTTTTGTTTAGAGATCATAAAAGAAAG
AGATTACTTTTATAATTGGTGTTTGATTTGTAAAAAAGAGATGGACAAGAAAAGGATTGCGGTCC
CACTTGTATGCCATGACCACTCACGCCCCGTA
Found at i:8128 original size:22 final size:21
Alignment explanation
Indices: 8100--8279 Score: 119
Period size: 22 Copynumber: 8.2 Consensus size: 21
8090 TAGATTATCA
8100 ATAATTTAATAATAAATAATGT
1 ATAATTTAATAATAAATAAT-T
* * *
8122 ATAATTTAGTAGTAAATCATTT
1 ATAATTTAATAATAAAT-AATT
* *
8144 ATAAATTAATAACAAATCAA-T
1 ATAATTTAATAATAAAT-AATT
* *
8165 ACTAATTTAATAGTAAATCATT
1 A-TAATTTAATAATAAATAATT
* * *
8187 AATAATTTAATAATATATCATAG
1 -ATAATTTAATAATAAATAAT-T
*
8210 ATAATTTAATAATAAATAACTG
1 ATAATTTAATAATAAATAA-TT
** * *
8232 ATAAAATAATAGTAAATTAATA
1 ATAATTTAATAATAAA-TAATT
* *
8254 ATAATTTAATTATCAATAATT
1 ATAATTTAATAATAAATAATT
8275 GATAA
1 -ATAA
8280 ATTTTTTATA
Statistics
Matches: 123, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
21 7 0.06
22 109 0.89
23 7 0.06
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
ATAATTTAATAATAAATAATT
Found at i:8146 original size:88 final size:88
Alignment explanation
Indices: 8034--8201 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
8024 AATAATTTTG
* * * * * * * *
8034 ATAAATTAATAGTAAATTAGTTATAACTTTATAAGAAATC-GTCACTAACTTATTAGTAGATTAT
1 ATAAATTAATAGTAAATCAGTTATAAATTAATAACAAATCAAT-ACTAACTTAATAGTAAATCAT
8098 CAATAATTTAATAATAAATAATGT
65 CAATAATTTAATAATAAATAATGT
* * * * *
8122 ATAATTTAGTAGTAAATCATTTATAAATTAATAACAAATCAATACTAATTTAATAGTAAATCATT
1 ATAAATTAATAGTAAATCAGTTATAAATTAATAACAAATCAATACTAACTTAATAGTAAATCATC
8187 AATAATTTAATAATA
66 AATAATTTAATAATA
8202 TATCATAGAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
88 65 0.98
89 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.39
Consensus pattern (88 bp):
ATAAATTAATAGTAAATCAGTTATAAATTAATAACAAATCAATACTAACTTAATAGTAAATCATC
AATAATTTAATAATAAATAATGT
Found at i:8153 original size:44 final size:44
Alignment explanation
Indices: 8039--8263 Score: 147
Period size: 44 Copynumber: 5.1 Consensus size: 44
8029 TTTTGATAAA
* * * *
8039 TTAATAGTAAATTAGTT-ATAACTTT-ATAAGAAATC-GTCACTAAC
1 TTAATAGTAAATCA-TTAATAA-TTTAATAATAAATCAAT-ACTAAT
* * * *
8083 TTATTAGTAGATTATCAATAATTTAATAATAAAT-AATGTA-TAAT
1 TTAATAGTAAATCATTAATAATTTAATAATAAATCAA--TACTAAT
* * * *
8127 TTAGTAGTAAATCATTTATAAATTAATAACAAATCAATACTAAT
1 TTAATAGTAAATCATTAATAATTTAATAATAAATCAATACTAAT
* *
8171 TTAATAGTAAATCATTAATAATTTAATAATATATC-ATAGATAAT
1 TTAATAGTAAATCATTAATAATTTAATAATAAATCAATA-CTAAT
* * * * ** * * *
8215 TTAATAATAAATAACTGATAAAATAATAGTAAATTAATAATAAT
1 TTAATAGTAAATCATTAATAATTTAATAATAAATCAATACTAAT
8259 TTAAT
1 TTAAT
8264 TATCAATAAT
Statistics
Matches: 144, Mismatches: 28, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
43 9 0.06
44 128 0.89
45 6 0.04
46 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (44 bp):
TTAATAGTAAATCATTAATAATTTAATAATAAATCAATACTAAT
Found at i:8207 original size:66 final size:66
Alignment explanation
Indices: 8100--8282 Score: 167
Period size: 66 Copynumber: 2.8 Consensus size: 66
8090 TAGATTATCA
* * * **
8100 ATAATTTAATAATAAATAATGT-ATAATTTAGTAGTAAATCATTTATAAATTAATAACAAATCAA
1 ATAATTTAATAGTAAATAAT-TAATAATTTAATAATAAATCATAGATAAATTAATAACAAAT-AA
8164 -T-
64 CTG
* * * *
8165 ACTAATTTAATAGTAAATCATTAATAATTTAATAATATATCATAGATAATTTAATAATAAATAAC
1 A-TAATTTAATAGTAAATAATTAATAATTTAATAATAAATCATAGATAAATTAATAACAAATAAC
8230 TG
65 TG
** * * * *
8232 ATAAAATAATAGTAAATTAA-TAATAATTTAATTATCAATAATTGATAAATT
1 ATAATTTAATAGTAAA-TAATTAATAATTTAATAATAAATCATAGATAAATT
8283 TTTTATATTT
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
65 4 0.04
66 88 0.93
67 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (66 bp):
ATAATTTAATAGTAAATAATTAATAATTTAATAATAAATCATAGATAAATTAATAACAAATAACT
G
Found at i:13473 original size:15 final size:16
Alignment explanation
Indices: 13443--13476 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
13433 TCCTTTTGTT
13443 TTTCAATTATTTTAAA
1 TTTCAATTATTTTAAA
13459 TTTCAATTA-TTTAAA
1 TTTCAATTATTTTAAA
13474 TTT
1 TTT
13477 AGATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCAATTATTTTAAA
Found at i:14631 original size:10 final size:10
Alignment explanation
Indices: 14616--14641 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14606 TAATAAAATC
14616 TTAAAATTTA
1 TTAAAATTTA
14626 TTAAAATTTA
1 TTAAAATTTA
14636 TTAAAA
1 TTAAAA
14642 GGATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:16721 original size:3 final size:3
Alignment explanation
Indices: 16715--16758 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
16705 AAATTAAATA
16715 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16759 ATGATGTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17226 original size:141 final size:139
Alignment explanation
Indices: 16949--18245 Score: 1286
Period size: 141 Copynumber: 9.0 Consensus size: 139
16939 TTGAAAGTTT
* * * * *
16949 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAATTTTTTTTTTGAAAAAAGCT-CTTTCAA
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAA--ATTCTCTTG--AAAAGCTCCTCTCAG
* * * * *
17013 CAGAGGTTCAACAACTTTTAAA-TCTCATATCATGAAAAGGGTTCCTCTCAACAGAGGCTCAACA
61 CAGAGGCTCAACAACTTTAAAATTCTC-T-T-A--AAAA-AGCTCCTCTCAGCAGAGGCTCAACA
*
17077 ACTTTAAAATTCTTATCTTG
120 ACTTTAAAATTCTCATCTTG
* *
17097 AAAAGGGTTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGCTCCTCTCAGCAG
1 AAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGCTCCTCTCAGCAG
* *
17162 AGGCTCAACAACTTTAAAATTCTCTTAAAAAAACTCCTCTCAGTAGAGGCTCAACAACTTTAAAA
64 AGGCTCAACAACTTTAAAATTCTCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
*
17227 -TCTCATCTGG
129 TTCTCATCTTG
* * * *
17237 AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTTAAAA-TCTCATCTGAAAAAGCTCTTATCAGC
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAATTCTC-T-TG-AAAAGCTCCTCTCAGC
* * *
17301 AGAGACTCAATAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
62 AGAGGCTCAACAACTTTAAAATTCTCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
* *
17366 AAATCTCATCTGG
127 AATTCTCATCTTG
* * * * *
17379 AAAAGCTCCTCTCAGCAGAAGCTCAATAACTTTAAAAATTTTTTTGGAAAGGGCTCCTCTCAGCA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTCTCTT-GAAA-AGCTCCTCTCAGCA
* ** *
17444 GAGGCTCAACAACTTTAAAAATCTCTTGGAAATGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
63 GAGGCTCAACAACTTTAAAATTCTCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
17509 A-T-TC-TCTTG
128 ATTCTCATCTTG
*
17518 AAAAAGCTCCTCTCAGCAGTGGCTCAACAACTTTAAAAATCTCATCTGGAAATCTCATCTGGAAA
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAA----A--T-----TCTC-T-T-GAAA
* * **
17583 AGCACATCTCAATAGAGGCTCAACAACTTTAAAATTCTCTTAAAAAAGCTCCTCTCAGCAGAGGC
49 AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTAAAAAAGCTCCTCTCAGCAGAGGC
*
17648 TTAACAACTTTAAAA-TCTCATC-TG
114 TCAACAACTTTAAAATTCTCATCTTG
* * *
17672 AAAAAGCTCCTTTCAGCAGAGGCTCAACGACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGTAG
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTG-AAAAGCTCCTCTCAGCAG
* * *
17737 AGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAA
64 AGGCTCAACAACTTTAAAATTCTC-T-TAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
*
17802 AA-TCTCATCTGG
127 AATTCTCATCTTG
* *
17814 AAAAGCTCCTCTCAGGAGAGGCTCAACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTATCAGC
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-T-TC-TCTT-GAAAAGCTCCTCTCAGC
* ***
17879 AGAGGCTCAACAACTTTAGAATTCTTATCTTGAAAGGGGCTCCTCTCAGCAGAGGCTCAACAACT
62 AGAGGCTCAACAACTTTAAAATTC---TCTT-AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
*
17944 TTAAAAATCTCATCTTG
123 TTAAAATTCTCATCTTG
* * * ** *
17961 AAAAAGCTCCTCTCAGTAAAGACTCAACAACTTTAAAA-TCT-TAAAAAAGCTCCTCTCAGTAGA
1 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGCTCCTCTCAGCAGA
* *
18024 GGCTCAACAACTTTAAAATTCTTATCTTAGAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAA
65 GGCTCAACAACTTTAAAATTC---TCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
* *
18089 AATTTTTATCTTGG
127 AATTCTCATCTT-G
* * * *
18103 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTTAAAATCTTATCTTGAAAAGGGCTTCTCTTAG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAA--TTCTCTTGAAAA--GCTCCTCTCAG
* ** *
18168 CAGAGGCTCAACAACTTTAAAAATCTTATATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAATAA
61 CAGAGGCTCAACAACTTT-AAAA---T-TCTCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
18233 CTTTAAAATTCTC
121 CTTTAAAATTCTC
18246 TTATGTTTTC
Statistics
Matches: 984, Mismatches: 109, Indels: 110
0.82 0.09 0.09
Matches are distributed among these distances:
138 27 0.03
139 51 0.05
140 48 0.05
141 268 0.27
142 174 0.18
143 5 0.01
144 42 0.04
145 15 0.02
146 67 0.07
147 22 0.02
148 65 0.07
149 35 0.04
150 43 0.04
152 6 0.01
153 73 0.07
154 41 0.04
155 2 0.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (139 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGCTCCTCTCAGCAGAG
GCTCAACAACTTTAAAATTCTCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT
CTCATCTTG
Found at i:17291 original size:48 final size:48
Alignment explanation
Indices: 16949--18241 Score: 1368
Period size: 46 Copynumber: 26.8 Consensus size: 48
16939 TTGAAAGTTT
* * * ** *
16949 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAATTTTTTTTTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * *
16997 AAAAAAGCT-CTTTCAACAGAGGTTCAACAACTTTTAAATCTCATATCATG
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC--ATCTTG
* * * *
17047 AAAAGGGTTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTATCTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTG
* * *
17097 AAAAGGGTTCCTCTTAGCAGAGGCTCAACAACTTTAAAAT-TC-TCTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
17144 -AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TC-TCTTA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
17189 AAAAAACTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATC-TG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * *
17236 GAAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTTAAAATCTCATC-TG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAATCTCATCTTG
* * * *
17284 AAAAAGCTCTTATCAGCAGAGACTCAATAACTTTAAAAT-TC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
17330 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* * * * *
17378 GAAAAGCTCCTCTCAGCAGAAGCTCAATAACTTTAAAAAT-T-TTTTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTT-G
** *
17426 AAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-ATC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
17472 GAAATGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
17518 AAAAAGCTCCTCTCAGCAGTGGCTCAACAACTTTAAAAATCTCATCTGGAAATCTCATCTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA--TC-TC-----A--TC-T-TG
* * * ** *
17579 GAAAAGCACATCTCAATAGAGGCTCAACAACTTTAAAAT-TC-TCTTA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
17625 AAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAATCTCATC-TG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
17672 AAAAAGCTCCTTTCAGCAGAGGCTCAACGACTTTAAAAT-TC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
17718 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATC-TG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
*
17766 AAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTCATC-TG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
17813 GAAAAGCTCCTCTCAGGAGAGGCTCAACAACTTTAAAATTCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTG
* * * *
17862 GAAAAGCTCCTATCAGCAGAGGCTCAACAACTTTAGAATTCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA-AAATCTCATCTTG
**
17911 AAAGGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
1 AAA-AAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* * * *
17961 AAAAAGCTCCTCTCAGTAAAGACTCAACAACTTT-AAA----ATCTTA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
18004 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTTATCTT-
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTG
* * *
18052 AGAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTTATCTTG
1 A-AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTG
* * *
18102 GAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTTAAAATCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAATCTCATCTTG
* * * *
18151 AAAAGGGCTTCTCTTAGCAGAGGCTCAACAACTTTAAAAATCTTATATCTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATC-T-CATCTTG
* *
18203 GAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
18242 TCTCTTATGT
Statistics
Matches: 1070, Mismatches: 117, Indels: 113
0.82 0.09 0.09
Matches are distributed among these distances:
43 37 0.03
44 3 0.00
45 42 0.04
46 217 0.20
47 159 0.15
48 190 0.18
49 181 0.17
50 132 0.12
51 56 0.05
52 13 0.01
56 2 0.00
58 1 0.00
59 2 0.00
60 5 0.00
61 30 0.03
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:17572 original size:13 final size:13
Alignment explanation
Indices: 17554--17582 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17544 ACAACTTTAA
17554 AAATCTCATCTGG
1 AAATCTCATCTGG
17567 AAATCTCATCTGG
1 AAATCTCATCTGG
17580 AAA
1 AAA
17583 AGCACATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (13 bp):
AAATCTCATCTGG
Found at i:17883 original size:49 final size:48
Alignment explanation
Indices: 17567--18241 Score: 786
Period size: 49 Copynumber: 14.1 Consensus size: 48
17557 TCTCATCTGG
* * **
17567 AAATCTCATC-TGGAAAAGCACATCTCAATAGAGGCTCAACAACTTTA
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
** *
17614 AAAT-TC-TCTTAAAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTA
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
* * *
17660 AAATCTCATC-TGAAAAAGCTCCTTTCAGCAGAGGCTCAACGACTTTA
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
* *
17707 AAAT-TC-TCTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAA
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-A
* *
17754 AAATCTCATC-TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTA
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
*
17801 AAATCTCATC-TGGAAAAGCTCCTCTCAGGAGAGGCTCAACAACTTTA
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
*
17848 AAATTCTCATCTTGGAAAAGCTCCTATCAGCAGAGGCTCAACAACTTTA
1 AAA-TCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
* * *
17897 GAATTCTTATCTT-GAAAGGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
1 -AAATCTCATCTTGGAAA--AGCTCCTCTCAGCAGAGGCTCAACAACTTT-A
* * * *
17948 AAATCTCATCTTGAAAAAGCTCCTCTCAGTAAAGACTCAACAACTTT-
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
** *
17995 AAA----ATCTTAAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTA
1 AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
* * *
18039 AAATTCTTATCTTAGAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTA
1 AAA-TCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
* * *
18088 AAATTTTTATCTTGGAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTTA
1 AAA-TCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTA
* * *
18138 AAATCTTATCTT-GAAAAGGGCTTCTCTTAGCAGAGGCTCAACAACTTTAA
1 AAATCTCATCTTGGAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTT-A
* *
18188 AAATCTTATATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTA
1 AAATC-T-CATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
18238 AAAT
1 AAAT
18242 TCTCTTATGT
Statistics
Matches: 552, Mismatches: 49, Indels: 51
0.85 0.08 0.08
Matches are distributed among these distances:
43 37 0.07
44 3 0.01
45 4 0.01
46 71 0.13
47 99 0.18
48 54 0.10
49 161 0.29
50 81 0.15
51 31 0.06
52 6 0.01
53 5 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (48 bp):
AAATCTCATCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTA
Found at i:18133 original size:98 final size:100
Alignment explanation
Indices: 18005--18244 Score: 373
Period size: 101 Copynumber: 2.4 Consensus size: 100
17995 AAAATCTTAA
18005 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTTATCTTAGAAAA-GC-TCATCTCA
1 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTTATCTT-GAAAAGGCTTC-TCTCA
*
18068 GCAGAGGCTCAACAACTTT-AAAAT-TTTTATCTTGG
64 GCAGAGGCTCAACAACTTTAAAAATCTTATATCTTGG
*
18103 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTTAAAA-TCTTATCTTGAAAAGGGCTTCTCTTA
1 AAAAGCTCCTCTCAGTAGAGGCTCAACAAC-TTTAAAATTCTTATCTTGAAAA-GGCTTCTCTCA
18167 GCAGAGGCTCAACAACTTTAAAAATCTTATATCTTGG
64 GCAGAGGCTCAACAACTTTAAAAATCTTATATCTTGG
* *
18204 AAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAATTCT
1 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTCT
18245 CTTATGTTTT
Statistics
Matches: 131, Mismatches: 4, Indels: 11
0.90 0.03 0.08
Matches are distributed among these distances:
97 5 0.04
98 39 0.30
99 32 0.24
100 14 0.11
101 41 0.31
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (100 bp):
AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAGGCTTCTCTCAGC
AGAGGCTCAACAACTTTAAAAATCTTATATCTTGG
Found at i:30714 original size:13 final size:13
Alignment explanation
Indices: 30694--30729 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
30684 CGATCAATGC
30694 ACGGTTCGGTTCG
1 ACGGTTCGGTTCG
*
30707 ATGGTTCGGTTCG
1 ACGGTTCGGTTCG
30720 ACGGTTCGGT
1 ACGGTTCGGT
30730 CCGGTCTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.08, C:0.19, G:0.39, T:0.33
Consensus pattern (13 bp):
ACGGTTCGGTTCG
Found at i:31717 original size:3 final size:3
Alignment explanation
Indices: 31711--31740 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
31701 AAATTAAATA
31711 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31741 TAAAAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34741 original size:33 final size:31
Alignment explanation
Indices: 34703--34773 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
34693 TTTATTTTTC
** * *
34703 AAAATTATGTATTTTAATATTTTTATATAATAA
1 AAAATTATGTATAATAAAAATTTT-TA-AATAA
34736 AAAATTATGTATAATAAAAATTTTTAAATAA
1 AAAATTATGTATAATAAAAATTTTTAAATAA
34767 AAAATTA
1 AAAATTA
34774 AGCTTTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 12 0.35
32 2 0.06
33 20 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (31 bp):
AAAATTATGTATAATAAAAATTTTTAAATAA
Found at i:34750 original size:17 final size:17
Alignment explanation
Indices: 34728--34773 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 17
34718 AATATTTTTA
34728 TATAATAAAAAATTATG
1 TATAATAAAAAATTATG
*
34745 TATAAT-AAAAATT-TT
1 TATAATAAAAAATTATG
34760 TA-AATAAAAAATTA
1 TATAATAAAAAATTA
34774 AGCTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 10 0.38
16 7 0.27
17 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TATAATAAAAAATTATG
Found at i:35228 original size:21 final size:20
Alignment explanation
Indices: 35186--35254 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
35176 CTTAAAAGAG
*
35186 ATTTAATCTAAATCATGCATA
1 ATTTAATCTAAATCAT-AATA
35207 ATTTAATCTAAATCAGTAATA
1 ATTTAATCTAAATCA-TAATA
* * *
35228 ACTTAGTTATAAATCATAGATA
1 ATTTA-ATCTAAATCATA-ATA
35250 ATTTA
1 ATTTA
35255 GCACTAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 24 0.60
22 16 0.40
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (20 bp):
ATTTAATCTAAATCATAATA
Found at i:35307 original size:22 final size:23
Alignment explanation
Indices: 35279--35340 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
35269 ATAATTTTGC
*
35279 AGTAAATAATAAAATAGTA-AAT
1 AGTAAATAATAAAATAATACAAT
**
35301 AGTAAATAA-ATGATAATACAAT
1 AGTAAATAATAAAATAATACAAT
*
35323 AGTAAAT-ATATAATAATA
1 AGTAAATAATAAAATAATA
35341 TAATGGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.21
22 27 0.79
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (23 bp):
AGTAAATAATAAAATAATACAAT
Found at i:35603 original size:21 final size:21
Alignment explanation
Indices: 35532--35612 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
35522 CTTATTGGTA
*
35532 AATCA-TCAATAATTTAATAGA-
1 AATCATTC-ATAACTTAAT-GAC
* *
35553 AATCATTAATAACTTAATGAT
1 AATCATTCATAACTTAATGAC
* *
35574 AATTCATTCATAACTTAGTGGC
1 AA-TCATTCATAACTTAATGAC
*
35596 AATCATTCATAAATTAA
1 AATCATTCATAACTTAA
35613 AAATAAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 2 0.04
21 29 0.59
22 18 0.37
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (21 bp):
AATCATTCATAACTTAATGAC
Found at i:36059 original size:21 final size:21
Alignment explanation
Indices: 36033--36083 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
36023 GCAATCATGT
* *
36033 AAATATCATAAATATTATATC
1 AAATATCATAAATATCATACC
36054 AAATATCATAAATATCATACC
1 AAATATCATAAATATCATACC
36075 AAATATCAT
1 AAATATCAT
36084 GCCAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATATCATAAATATCATACC
Found at i:36122 original size:36 final size:35
Alignment explanation
Indices: 36079--36151 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 35
36069 CATACCAAAT
36079 ATCATGCCAAAAATATCAAATCATA-CTATGCAATAA
1 ATCATGCCAAAAATATCAAATC-TAGC-ATGCAATAA
* *
36115 ATCATGCCATAAATATTAAATCTAGCATGCAATAA
1 ATCATGCCAAAAATATCAAATCTAGCATGCAATAA
36150 AT
1 AT
36152 ATAAAATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (35 bp):
ATCATGCCAAAAATATCAAATCTAGCATGCAATAA
Found at i:36285 original size:20 final size:20
Alignment explanation
Indices: 36239--36299 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
36229 AATATAAAAA
*
36239 CATACAATTA-AATATTAAT
1 CATACAAATATAATATTAAT
*
36258 CATGCAAATATAATATTAAT
1 CATACAAATATAATATTAAT
36278 CCA-ACAAATAATAA-A-TAAT
1 -CATACAAAT-ATAATATTAAT
36297 CAT
1 CAT
36300 GCACATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 15 0.43
21 6 0.17
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (20 bp):
CATACAAATATAATATTAAT
Found at i:36395 original size:5 final size:6
Alignment explanation
Indices: 36380--36405 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36370 ATAAACTATT
36380 TTTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
36406 CATCTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:38203 original size:43 final size:43
Alignment explanation
Indices: 38113--38213 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
38103 CAATTGAAGC
* * ** * *
38113 TTGAAACTTTTGAAAAATAAAATGTTTTTTCATAACTAAGGTA
1 TTGAAACTTTTGAATAATAAAATGTTCTCCCACAACTAAGATA
* *
38156 TTGAAACTTTTGAATAATAAAATGTTCTCCCACAATTAAGATT
1 TTGAAACTTTTGAATAATAAAATGTTCTCCCACAACTAAGATA
38199 TTGAAACTTTTGAAT
1 TTGAAACTTTTGAAT
38214 TCCTTTTTCA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (43 bp):
TTGAAACTTTTGAATAATAAAATGTTCTCCCACAACTAAGATA
Found at i:42378 original size:144 final size:143
Alignment explanation
Indices: 41931--42434 Score: 466
Period size: 144 Copynumber: 3.5 Consensus size: 143
41921 TATAATATAA
*
41931 AAAGTTTCGTGAAATTTCGAGCTCA-AAAAGGCTAAATTACAAAAATACCCCTATAAGGGTATTT
1 AAAGTTTCGTGAAATTTCGAGCT-AGAAAAGGCCAAATTACAAAAATACCCCTATAAGGGTATTT
* * * *
41995 TGGTAATTTCACA-TTTCTCGGGGTACTGTTATAATTTGAAATGCATAAAAAATCATGAATTATT
65 TGGTAATTTCACACTTT-TCGGGGTACTGTTATGATTTCAAAT-CATCAAAAATCATGAAATATT
* *
42059 ATAAAACTAGGATATGG
128 AT-AAACTAAGATCTGG
* * * * *
42076 AAAGTTTCATGAAATTTTGA-TTCGAAAAGGCCAAATTACAAAAATACCCCTCA-AATGGTATTT
1 AAAGTTTCGTGAAATTTCGAGCTAGAAAAGGCCAAATTACAAAAATACCCCT-ATAAGGGTATTT
* * ** * * * * *
42139 TGGTAATTTCACACTTTCCGGGATACTACTATGATTCCAAACTCACCAAAAATTATGAGATGTTA
65 TGGTAATTTCACACTTTTCGGGGTACTGTTATGATTTCAAA-TCATCAAAAATCATGAAATATTA
* * * *
42204 CAAAAGTGAGATCTGA
129 -TAAACTAAGATCTGG
*** * *
42220 AAAGTTTCACAAAATTTCGAGCTTG-GAAGGCCAAATTACAAAAATACCCCTATAAGGGTATTTT
1 AAAGTTTCGTGAAATTTCGAGCTAGAAAAGGCCAAATTACAAAAATACCCCTATAAGGGTATTTT
* * * * * *
42284 GGTAATGTCATACTTTTTGGGGTGCCGTTATGATTTTAAATACATCAAAAATCATGAAATATTAT
66 GGTAATTTCACACTTTTCGGGGTACTGTTATGATTTCAAAT-CATCAAAAATCATGAAATATTAT
* *
42349 AGATTAA-AGTCTGG
130 AAACTAAGA-TCTGG
** * * * *
42363 AGGGTTTCGTGAAAATTT-GAACTAGAAAAAGTCAAATTA-TAAAATACCCCTATAAGGGTATTT
1 AAAGTTTCGTG-AAATTTCGAGCTAGAAAAGGCCAAATTACAAAAATACCCCTATAAGGGTATTT
42426 TGGTAATTT
65 TGGTAATTT
42435 GCTTTTCCTA
Statistics
Matches: 284, Mismatches: 64, Indels: 24
0.76 0.17 0.06
Matches are distributed among these distances:
142 1 0.00
143 52 0.18
144 206 0.73
145 25 0.09
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (143 bp):
AAAGTTTCGTGAAATTTCGAGCTAGAAAAGGCCAAATTACAAAAATACCCCTATAAGGGTATTTT
GGTAATTTCACACTTTTCGGGGTACTGTTATGATTTCAAATCATCAAAAATCATGAAATATTATA
AACTAAGATCTGG
Found at i:43006 original size:22 final size:22
Alignment explanation
Indices: 42961--43015 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
42951 TTGCCTGAAA
*
42961 GTCTTAAAAATTATGTCAGGAG
1 GTCTTAAAAATTATGTCAGAAG
*
42983 GTCTTAAAGATTATGTCCA-AAG
1 GTCTTAAAAATTATGT-CAGAAG
*
43005 GTCTTACAAAT
1 GTCTTAAAAAT
43016 CTTAAAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (22 bp):
GTCTTAAAAATTATGTCAGAAG
Found at i:43121 original size:22 final size:22
Alignment explanation
Indices: 43087--43141 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
43077 TTACCCAAAG
43087 GTCTTAAAAATTATGCTCGAAA
1 GTCTTAAAAATTATGCTCGAAA
* * * *
43109 GTCTTAGAGATTATGCTTGGAA
1 GTCTTAAAAATTATGCTCGAAA
*
43131 GTCTTACAAAT
1 GTCTTAAAAAT
43142 CTCAAAATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (22 bp):
GTCTTAAAAATTATGCTCGAAA
Found at i:43122 original size:126 final size:127
Alignment explanation
Indices: 42896--43333 Score: 464
Period size: 126 Copynumber: 3.5 Consensus size: 127
42886 AGACTATGGG
* * * * *
42896 TCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTTAAAAAATTAAAATATTTTGCCTGAAA
1 TCTTTGAATGCTCATTCAATCAAAGGCCATGAAACTTTTAAAAATTTAAAATATTTTACC-CAAA
* * * * *
42961 -GTCTTAAAAATTATG-TCAGGAGGTCTTAAAGATTATGTCCAAAGGTCTTACAAATCTTAAAA
65 GGTCTTAAAAATTATGCTC-GAAAGTCTTAGAGATTATGTCCGAAGGTCTTACAAATCTCAAAA
* *
43023 TCTTTGAATGCTCATCCAATCAAAGGTCATGAAA-TTTTAAAAATTTAAAATATTTTACCCAAAG
1 TCTTTGAATGCTCATTCAATCAAAGGCCATGAAACTTTTAAAAATTTAAAATATTTTACCCAAAG
**
43087 GTCTTAAAAATTATGCTCGAAAGTCTTAGAGATTATGCTTGGAA-GTCTTACAAATCTCAAAA
66 GTCTTAAAAATTATGCTCGAAAGTCTTAGAGATTATG-TCCGAAGGTCTTACAAATCTCAAAA
* * ****
43149 TCTTTAAATGCTCCA-TCAAT-AAGAGGCCATGAAA-TTTTAAAAATTTAAAATATTTTGCTTGG
1 TCTTTGAATGCT-CATTCAATCAA-AGGCCATGAAACTTTTAAAAATTTAAAATATTTTACCCAA
* * * * *
43211 AGGTCTTAAAATTTATGCT-TAAATGTCTTAGAGATTATG-CTCGGAGGTCTTATAAATATCAAA
64 AGGTCTTAAAAATTATGCTCGAAA-GTCTTAGAGATTATGTC-CGAAGGTCTTACAAATCTCAAA
43274 A
127 A
* * * * *
43275 TCTTTGAATGCTCATTTAATTAGAGGCTATGAAACTTTTTAAAAA-TTAAAATGTTTTAC
1 TCTTTGAATGCTCATTCAATCAAAGGCCATGAAAC-TTTTAAAAATTTAAAATATTTTAC
43334 AAATGGTTTT
Statistics
Matches: 264, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
125 12 0.05
126 193 0.73
127 50 0.19
128 9 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (127 bp):
TCTTTGAATGCTCATTCAATCAAAGGCCATGAAACTTTTAAAAATTTAAAATATTTTACCCAAAG
GTCTTAAAAATTATGCTCGAAAGTCTTAGAGATTATGTCCGAAGGTCTTACAAATCTCAAAA
Found at i:44163 original size:42 final size:43
Alignment explanation
Indices: 44095--44205 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 43
44085 GTGCAAATGT
* * *
44095 AAGTGATGCAAATGCGAATATTTTTTTTC-T-TGATGTAGATAC
1 AAGTGATGCAAATGCAAATATCTTTTTCCTTATGATGT-GATAC
* *
44137 AAGAT-ATGCAAATGCAAATGTCTTTTTCCTTATGATGTGATGC
1 AAG-TGATGCAAATGCAAATATCTTTTTCCTTATGATGTGATAC
*
44180 AAGTGATACAAATGCAAAT-T-TTTTTC
1 AAGTGATGCAAATGCAAATATCTTTTTC
44206 ATGATACAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
41 6 0.10
42 25 0.42
43 22 0.37
44 6 0.10
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (43 bp):
AAGTGATGCAAATGCAAATATCTTTTTCCTTATGATGTGATAC
Found at i:44275 original size:38 final size:39
Alignment explanation
Indices: 44176--44306 Score: 124
Period size: 38 Copynumber: 3.4 Consensus size: 39
44166 TTATGATGTG
* ** *
44176 ATGCAAGTGATACAAATGCAAATTTTTTTCATGATACAA
1 ATGCAAGTGATGCAAATATAAATTTTCTTCATGATACAA
* * * * * *
44215 ATACAAGTGACGTAAATTTAAATTTTCTT-GTGATGCAA
1 ATGCAAGTGATGCAAATATAAATTTTCTTCATGATACAA
*
44253 ATGCAAGTGATGCAAATATAAATTTT-TTCTTG-TACAA
1 ATGCAAGTGATGCAAATATAAATTTTCTTCATGATACAA
* *
44290 GTGCTAGTGATGCAAAT
1 ATGCAAGTGATGCAAAT
44307 GCAAATATCT
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
37 21 0.28
38 31 0.42
39 22 0.30
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (39 bp):
ATGCAAGTGATGCAAATATAAATTTTCTTCATGATACAA
Found at i:44673 original size:41 final size:41
Alignment explanation
Indices: 44558--44679 Score: 126
Period size: 38 Copynumber: 3.0 Consensus size: 41
44548 GAAAATATGA
* * *
44558 ATGCAAATGTGAATGTCTTTTTGTTGTGATGC-AGATGCGAATG
1 ATGCAAATGCGAATGACTTTTT-TT-T-ATGCTAGATGCAAATG
* * *
44601 ATGCAAATGCAAAT-A-TTTTTTTTAT-ATAGATGCTAATG
1 ATGCAAATGCGAATGACTTTTTTTTATGCTAGATGCAAATG
*
44639 ATGCAAATACGAATGACTTTTTTTTATGCTAGATGCAAATG
1 ATGCAAATGCGAATGACTTTTTTTTATGCTAGATGCAAATG
44680 CAAATGACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
38 24 0.36
39 2 0.03
40 12 0.18
41 16 0.24
43 12 0.18
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (41 bp):
ATGCAAATGCGAATGACTTTTTTTTATGCTAGATGCAAATG
Found at i:44674 original size:32 final size:33
Alignment explanation
Indices: 44638--44700 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
44628 AGATGCTAAT
*
44638 GATGCAAATACGAATGAC-TTTTTTTTATGCTA
1 GATGCAAATACAAATGACTTTTTTTTTATGCTA
*
44670 GATGCAAATGCAAATGACTTTTTTTTTATGC
1 GATGCAAATACAAATGACTTTTTTTTTATGC
44701 CAAATAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (33 bp):
GATGCAAATACAAATGACTTTTTTTTTATGCTA
Found at i:44774 original size:33 final size:33
Alignment explanation
Indices: 44732--44819 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
44722 CTTCATCAGA
*
44732 GGCTAGATAAACTAGGCTTAAATTTTTAGTAAG
1 GGCTAGATAAACTAGGCTTAAATTTTCAGTAAG
*
44765 GGCTAGATAAACT-GAGCTTAAATTTTCATTAAG
1 GGCTAGATAAACTAG-GCTTAAATTTTCAGTAAG
* * * *
44798 CGCCAGCTAAGCTAGGCTTAAA
1 GGCTAGATAAACTAGGCTTAAA
44820 AATTTTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 1 0.02
33 45 0.96
34 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (33 bp):
GGCTAGATAAACTAGGCTTAAATTTTCAGTAAG
Found at i:45763 original size:11 final size:11
Alignment explanation
Indices: 45742--45795 Score: 69
Period size: 12 Copynumber: 5.0 Consensus size: 11
45732 TTTTCTTTCA
45742 TTTTT-CTTTT
1 TTTTTGCTTTT
45752 TTCTTTGCTTTT
1 TT-TTTGCTTTT
45764 TTTTTGCCTTTT
1 TTTTTG-CTTTT
45776 TTTTT--TTTT
1 TTTTTGCTTTT
45785 TTTTTGCTTTT
1 TTTTTGCTTTT
45796 GGATCCTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
9 9 0.23
10 2 0.05
11 11 0.28
12 17 0.44
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (11 bp):
TTTTTGCTTTT
Found at i:47154 original size:20 final size:19
Alignment explanation
Indices: 47126--47168 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
47116 ATTTTTTTCT
*
47126 TTTTTTTTTTTGCTTTGTCC
1 TTTTCTTTTTTGCTTTG-CC
*
47146 TTTTCTTTTTTTCTTTGCC
1 TTTTCTTTTTTGCTTTGCC
47165 TTTT
1 TTTT
47169 TTAACTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTCTTTTTTGCTTTGCC
Found at i:47170 original size:21 final size:21
Alignment explanation
Indices: 47124--47170 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
47114 AAATTTTTTT
47124 CTTTTTTTTTTTTGCTTTGTC
1 CTTTTTTTTTTTTGCTTTGTC
*
47145 CTTTTCTTTTTTT-CTTTG-C
1 CTTTTTTTTTTTTGCTTTGTC
47164 CTTTTTT
1 CTTTTTT
47171 AACTTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 5 0.21
21 12 0.50
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (21 bp):
CTTTTTTTTTTTTGCTTTGTC
Found at i:51857 original size:22 final size:22
Alignment explanation
Indices: 51829--51966 Score: 84
Period size: 22 Copynumber: 6.2 Consensus size: 22
51819 AAATTAGTAA
*
51829 TAAATCATAAATAACTTAATAG
1 TAAATCATAAATAATTTAATAG
* *
51851 TAAATCA-ACTATAATTTAGTAG
1 TAAATCATA-AATAATTTAATAG
* * * ** * * *
51873 TTAATAATTAGCAACTTAAAAC
1 TAAATCATAAATAATTTAATAG
*
51895 TAAATCA-ATATAATTTAATAATAG
1 TAAATCATAAATAA-TT--TAATAG
* *
51919 TTAATCATGAATAATTTAATAG
1 TAAATCATAAATAATTTAATAG
*
51941 TAAATCATGAATAATTTAAT-G
1 TAAATCATAAATAATTTAATAG
51962 TAAAT
1 TAAAT
51967 TAGTGATAAT
Statistics
Matches: 84, Mismatches: 26, Indels: 13
0.68 0.21 0.11
Matches are distributed among these distances:
21 9 0.11
22 59 0.70
24 12 0.14
25 4 0.05
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAATCATAAATAATTTAATAG
Found at i:51990 original size:43 final size:44
Alignment explanation
Indices: 51929--52060 Score: 115
Period size: 44 Copynumber: 3.0 Consensus size: 44
51919 TTAATCATGA
* *
51929 ATAATTTAATAGTAAATCATGAATAATTTAAT-GTAAATTAGTG
1 ATAATTTAATAATAAATCATGAATAATTTAATAATAAATTAGTG
* * ** * *
51972 ATAATTTGATAATGAATCATGGTTAATTTAGTAATAAATTTGTG
1 ATAATTTAATAATAAATCATGAATAATTTAATAATAAATTAGTG
* * * * * *
52016 ATAATTTTATAGTAAATAATTGAA-AACTAAATAATAAATCAGTG
1 ATAATTTAATAATAAATCA-TGAATAATTTAATAATAAATTAGTG
52060 A
1 A
52061 CAATAGAATA
Statistics
Matches: 68, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
43 26 0.38
44 40 0.59
45 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (44 bp):
ATAATTTAATAATAAATCATGAATAATTTAATAATAAATTAGTG
Found at i:52031 original size:22 final size:22
Alignment explanation
Indices: 51913--52032 Score: 93
Period size: 22 Copynumber: 5.5 Consensus size: 22
51903 TATAATTTAA
* *
51913 TAATAGTTAATCATGAATAATT
1 TAATAGTAAATCATGGATAATT
*
51935 TAATAGTAAATCATGAATAATT
1 TAATAGTAAATCATGGATAATT
*
51957 TAAT-GTAAATTA-GTGATAATT
1 TAATAGTAAATCATG-GATAATT
* * * *
51978 TGATAATGAATCATGGTTAATT
1 TAATAGTAAATCATGGATAATT
* * *
52000 TAGTAATAAAT-TTGTGATAATT
1 TAATAGTAAATCATG-GATAATT
*
52022 TTATAGTAAAT
1 TAATAGTAAAT
52033 AATTGAAAAC
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.01
21 18 0.23
22 58 0.74
23 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (22 bp):
TAATAGTAAATCATGGATAATT
Found at i:52107 original size:22 final size:22
Alignment explanation
Indices: 52082--52129 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
52072 TAAATGTATA
52082 ATAACATA-ATAGGAAATTATTG
1 ATAACATAGATA-GAAATTATTG
** *
52104 ATAATTTAGATATAAATTATTG
1 ATAACATAGATAGAAATTATTG
52126 ATAA
1 ATAA
52130 ACTTTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAACATAGATAGAAATTATTG
Found at i:56466 original size:2 final size:2
Alignment explanation
Indices: 56459--56487 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56449 TACTTTTATC
56459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56488 ACAAACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56732 original size:24 final size:24
Alignment explanation
Indices: 56705--56752 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
56695 TTTTTGAAGA
*
56705 ATATCTTAGAAATATTTACTTAAT
1 ATATATTAGAAATATTTACTTAAT
* * *
56729 ATATATTATATATATTTATTTAAT
1 ATATATTAGAAATATTTACTTAAT
56753 TTAGTTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATATTAGAAATATTTACTTAAT
Found at i:57415 original size:22 final size:22
Alignment explanation
Indices: 57367--57415 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
57357 TAAAATCATA
* *
57367 AATAATTTAGTAGTAAGTTAAT
1 AATAAATTAGTAGTAAGATAAT
*
57389 GATAAATTAGTAGTAA-ATAATT
1 AATAAATTAGTAGTAAGATAA-T
57411 AATAA
1 AATAA
57416 TTTAACAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (22 bp):
AATAAATTAGTAGTAAGATAAT
Found at i:57487 original size:15 final size:15
Alignment explanation
Indices: 57469--57512 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
57459 TTTAAGAGTA
57469 AATAATTAATAATAT
1 AATAATTAATAATAT
*
57484 AATAGTTAATAA-AT
1 AATAATTAATAATAT
*
57498 GATAACTTAATAATA
1 AATAA-TTAATAATA
57513 AATCACGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.21
15 18 0.75
16 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (15 bp):
AATAATTAATAATAT
Found at i:57536 original size:65 final size:65
Alignment explanation
Indices: 57400--57529 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 65
57390 ATAAATTAGT
* * * *
57400 AGTAAATAATTAATAATTTAACAGTTAATCATTGAAAACTTAAAAATAAATCAATATAATTTAAG
1 AGTAAATAATTAATAATATAACAGTTAATAAATGAAAACTTAAAAATAAATCAACATAATTTAAG
* * * *
57465 AGTAAATAATTAATAATATAATAGTTAATAAATGATAACTTAATAATAAATCACGCATAATTTAA
1 AGTAAATAATTAATAATATAACAGTTAATAAATGAAAACTTAAAAATAAATCA-ACATAATTTAA
57530 TATAAATTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
65 47 0.84
66 9 0.16
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (65 bp):
AGTAAATAATTAATAATATAACAGTTAATAAATGAAAACTTAAAAATAAATCAACATAATTTAAG
Found at i:57544 original size:65 final size:65
Alignment explanation
Indices: 57400--57545 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 65
57390 ATAAATTAGT
* * * * *
57400 AGTAAATAATTAATAATTTAACAGTTAATCATTGAAAACTTAAAAATAAATCAATATAATTTAAG
1 AGTAAATAAGTAATAATATAACAGTTAATAAATGAAAACTTAAAAATAAATCAACATAATTTAAG
* * * * *
57465 AGTAAATAATTAATAATATAATAGTTAATAAATGATAACTTAATAATAAATCACGCATAATTTAA
1 AGTAAATAAGTAATAATATAACAGTTAATAAATGAAAACTTAAAAATAAATCA-ACATAATTTAA
*
57530 T
65 G
*
57531 A-TAAATTAGTAATAA
1 AGTAAATAAGTAATAA
57546 CTTGGTAGCA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
65 59 0.86
66 10 0.14
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.34
Consensus pattern (65 bp):
AGTAAATAAGTAATAATATAACAGTTAATAAATGAAAACTTAAAAATAAATCAACATAATTTAAG
Found at i:57633 original size:11 final size:10
Alignment explanation
Indices: 57595--57647 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 10
57585 GATAATTTGG
57595 TAATAAATAA
1 TAATAAATAA
*
57605 TAAAAAATTAA
1 TAATAAA-TAA
57616 GTAATAAATCAA
1 -TAATAAAT-AA
57628 TAATAACATAA
1 TAATAA-ATAA
*
57639 TAGTAAATA
1 TAATAAATA
57648 TGTAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
11 17 0.47
12 10 0.28
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (10 bp):
TAATAAATAA
Found at i:57645 original size:22 final size:21
Alignment explanation
Indices: 57620--57731 Score: 68
Period size: 22 Copynumber: 5.2 Consensus size: 21
57610 AATTAAGTAA
*
57620 TAAATCAATAATAACATAATAG
1 TAAATC-ATAATAATATAATAG
* *
57642 TAAAT-ATGTAAAAATATAATTG
1 TAAATCA--TAATAATATAATAG
* * *
57664 TAAATCATTGATAATTTAATAA
1 TAAATCA-TAATAATATAATAG
* * *
57686 TAAAT--TAATAATTTAGTTG
1 TAAATCATAATAATATAATAG
*
57705 TAAATCACTAATAACATAATAG
1 TAAATCA-TAATAATATAATAG
57727 TAAAT
1 TAAAT
57732 TACAATGATA
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 15 0.22
20 1 0.01
22 50 0.75
23 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (21 bp):
TAAATCATAATAATATAATAG
Found at i:57725 original size:41 final size:41
Alignment explanation
Indices: 57620--57733 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 41
57610 AATTAAGTAA
57620 TAAATCAATAATAACATAATAGTAAATATGTAAAAATATAATTG
1 TAAATCAATAATAACATAATAGT-AA-AT-TAAAAATATAATTG
* * ** * * * *
57664 TAAATCATTGATAATTTAATAATAAATTAATAATTTAGTTG
1 TAAATCAATAATAACATAATAGTAAATTAAAAATATAATTG
*
57705 TAAATCACTAATAACATAATAGTAAATTA
1 TAAATCAATAATAACATAATAGTAAATTA
57734 CAATGATAAT
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 35 0.61
42 2 0.04
43 2 0.04
44 18 0.32
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (41 bp):
TAAATCAATAATAACATAATAGTAAATTAAAAATATAATTG
Found at i:57901 original size:22 final size:22
Alignment explanation
Indices: 57867--57908 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
57857 AATTTAATAA
*
57867 AAATAATTAATAAGTTAATGAT
1 AAATAATTAATAACTTAATGAT
* *
57889 AAATCATTTATAACTTAATG
1 AAATAATTAATAACTTAATG
57909 GCAATCATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATAATTAATAACTTAATGAT
Found at i:57944 original size:22 final size:22
Alignment explanation
Indices: 57919--57966 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
57909 GCAATCATTC
*
57919 ATAAATTAGA-AATAAATTATTG
1 ATAAATTA-ATAATAAATAATTG
* *
57941 ATAACTTAATAGTAAATAATTG
1 ATAAATTAATAATAAATAATTG
57963 ATAA
1 ATAA
57967 CATAACTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (22 bp):
ATAAATTAATAATAAATAATTG
Found at i:58280 original size:22 final size:22
Alignment explanation
Indices: 58255--58451 Score: 73
Period size: 22 Copynumber: 9.0 Consensus size: 22
58245 GGTTAATAAA
*
58255 TAATAAATGATAACTTAGTAGT
1 TAATAAATGATAACTTAATAGT
* *
58277 TAATCATTGATAACTTAATAGT
1 TAATAAATGATAACTTAATAGT
* * * *
58299 AAATTAGTGATAATTTAATAGT
1 TAATAAATGATAACTTAATAGT
* * * * * *
58321 AAATCAGTG-TCAATTTAGTA-A
1 TAATAAATGAT-AACTTAATAGT
* * *
58342 TAATTAATTGATAAATTTATTAG-
1 TAA-TAAATGAT-AACTTAATAGT
*
58365 TAATTATAA--ATAACTTAATAAT
1 TAA-TA-AATGATAACTTAATAGT
* * * *
58387 AAATCAATGATAATTTAATAAT
1 TAATAAATGATAACTTAATAGT
* * *
58409 TAATAATTGAAAACTTAAAAGT
1 TAATAAATGATAACTTAATAGT
* *
58431 AAATCAAT-ATAACTTAATAGT
1 TAATAAATGATAACTTAATAGT
58452 AGTTAATCAC
Statistics
Matches: 133, Mismatches: 34, Indels: 17
0.72 0.18 0.09
Matches are distributed among these distances:
20 2 0.02
21 22 0.17
22 93 0.70
23 15 0.11
24 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
TAATAAATGATAACTTAATAGT
Found at i:58310 original size:44 final size:44
Alignment explanation
Indices: 58234--58715 Score: 162
Period size: 44 Copynumber: 11.0 Consensus size: 44
58224 TATATTAATA
** * * * *
58234 AATCATTGATAGGTTAATA-AATAATAAATGATAACTTAGTAGTT
1 AATCATTGATAACTTAATAGTA-AATCAATGATAATTTAATAGTT
* * *
58278 AATCATTGATAACTTAATAGTAAATTAGTGATAATTTAATAGTA
1 AATCATTGATAACTTAATAGTAAATCAATGATAATTTAATAGTT
* * * * * *
58322 AATCAGTG-TCAATTTAGTAAT-AATTAATTGATAAATTTATTAG-T
1 AATCATTGAT-AACTTAATAGTAAATCAA-TGAT-AATTTAATAGTT
* ** * *
58366 AATTATAAATAACTTAATAATAAATCAATGATAATTTAATAATT
1 AATCATTGATAACTTAATAGTAAATCAATGATAATTTAATAGTT
* * * *
58410 AATAATTGAAAACTTAAAAGTAAATCAAT-ATAACTTAATAGTAGTT
1 AATCATTGATAACTTAATAGTAAATCAATGATAA-TT--TAATAGTT
*** * *
58456 AATCACCAATAACTTAAGAGTAAATC-ATGAATAATTTAAT-GTA
1 AATCATTGATAACTTAATAGTAAATCAATG-ATAATTTAATAGTT
* * * * * * * * * *
58499 AATTAGTGATAATTTGATAATGAATC-ATGGTTAATTTAGTAATA
1 AATCATTGATAACTTAATAGTAAATCAAT-GATAATTTAATAGTT
* * ** * * * *
58543 AAT-TTATGATAATTTTGTAGTAAAT-AATCGA-AAGCTAAATAATA
1 AATCAT-TGATAACTTAATAGTAAATCAAT-GATAA-TTTAATAGTT
* * * * ** * ** **
58587 AATCAATAACAAC-AAATAGTAAATGTATAATAACATAATAGGA
1 AATCATTGATAACTTAATAGTAAATCAATGATAATTTAATAGTT
* * * * * *
58630 AATTATTGATAATTTAATA-TAAATTATTGATAACTTAATAGTA
1 AATCATTGATAACTTAATAGTAAATCAATGATAATTTAATAGTT
* * *
58673 AATCATTAATAATTTAATTGTAAATCAATGATAATTTAATAGT
1 AATCATTGATAACTTAATAGTAAATCAATGATAATTTAATAGT
58716 AAATTAGTTA
Statistics
Matches: 321, Mismatches: 95, Indels: 44
0.70 0.21 0.10
Matches are distributed among these distances:
43 106 0.33
44 165 0.51
45 18 0.06
46 28 0.09
47 4 0.01
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (44 bp):
AATCATTGATAACTTAATAGTAAATCAATGATAATTTAATAGTT
Found at i:58339 original size:66 final size:63
Alignment explanation
Indices: 58260--58452 Score: 174
Period size: 66 Copynumber: 2.9 Consensus size: 63
58250 ATAAATAATA
* * *
58260 AATGATAACTTAGTAGTTAATCATTGATAACTTAATAGTAAATTAGTGATAATTTAATAGTAAAT
1 AATGATAATTTAGTA-TTAATAATTGATAACTTAATAGTAAATTA-T-ATAACTTAATAGTAAAT
58325 C
63 C
* * * * *
58326 AGTG-TCAATTTAGTAATAATTAATTGATAAATTTATTAGT-AATTATAAATAACTTAATAATAA
1 AATGAT-AATTTAGTATTAA-TAATTGAT-AACTTAATAGTAAATTAT--ATAACTTAATAGTAA
58389 ATC
61 ATC
* * * *
58392 AATGATAATTTAATAATTAATAATTGAAAACTTAAAAGTAAATCAATATAACTTAATAGTA
1 AATGATAATTTAGT-ATTAATAATTGATAACTTAATAGTAAAT-TATATAACTTAATAGTA
58453 GTTAATCACC
Statistics
Matches: 101, Mismatches: 18, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
65 26 0.26
66 59 0.58
67 16 0.16
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (63 bp):
AATGATAATTTAGTATTAATAATTGATAACTTAATAGTAAATTATATAACTTAATAGTAAATC
Found at i:58488 original size:22 final size:22
Alignment explanation
Indices: 58416--58494 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 22
58406 AATTAATAAT
*
58416 TGAA-AACTTAAAAGTAAATCA
1 TGAATAACTTAAGAGTAAATCA
*
58437 --ATATAACTTAATAGTAGTTAATCA
1 TGA-ATAACTT-A-AG-AGTAAATCA
**
58461 CCAATAACTTAAGAGTAAATCA
1 TGAATAACTTAAGAGTAAATCA
*
58483 TGAATAATTTAA
1 TGAATAACTTAA
58495 TGTAAATTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 5 0.11
22 18 0.40
23 3 0.07
24 9 0.20
25 7 0.16
26 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (22 bp):
TGAATAACTTAAGAGTAAATCA
Found at i:58632 original size:22 final size:21
Alignment explanation
Indices: 58592--58632 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
58582 TAATAAATCA
*
58592 ATAACAACAAATAGTAAATGT
1 ATAACAACAAATAGGAAATGT
*
58613 ATAATAACATAATAGGAAAT
1 ATAACAACA-AATAGGAAAT
58633 TATTGATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (21 bp):
ATAACAACAAATAGGAAATGT
Found at i:58641 original size:22 final size:22
Alignment explanation
Indices: 58601--58721 Score: 120
Period size: 22 Copynumber: 5.5 Consensus size: 22
58591 AATAACAACA
* *
58601 AATAGTAAATGTA-TAATAACAT
1 AATAGTAAAT-TATTGATAACTT
* *
58623 AATAGGAAATTATTGATAATTT
1 AATAGTAAATTATTGATAACTT
58645 AATA-TAAATTATTGATAACTT
1 AATAGTAAATTATTGATAACTT
* * *
58666 AATAGTAAATCATTAATAATTT
1 AATAGTAAATTATTGATAACTT
* * * *
58688 AATTGTAAATCAATGATAATTT
1 AATAGTAAATTATTGATAACTT
58710 AATAGTAAATTA
1 AATAGTAAATTA
58722 GTTAATTATT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
21 21 0.25
22 62 0.75
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (22 bp):
AATAGTAAATTATTGATAACTT
Found at i:62291 original size:22 final size:21
Alignment explanation
Indices: 62209--62379 Score: 108
Period size: 22 Copynumber: 7.8 Consensus size: 21
62199 AAAAACTCTT
* * *
62209 ATAAATTAATAATAAATAAGTT
1 ATAATTTAATAATAAATCA-TA
* *
62231 ATAATTTTAGAATAAATCATCA
1 ATAATTTAATAATAAATCAT-A
* * * * *
62253 GTAACTTATTAAAAAATTATCA
1 ATAATTTAATAATAAATCAT-A
*
62275 ATAATTTAATAATAAATCATTC
1 ATAATTTAATAATAAATCA-TA
* *
62297 ATAAATTAATAACAAATCAATA
1 ATAATTTAATAATAAATC-ATA
* * *
62319 CTAATTTAATAGTAAATCATTG
1 ATAATTTAATAATAAATCA-TA
* *
62341 ATAATTTAGTAATATATCATAA
1 ATAATTTAATAATAAATCAT-A
*
62363 ATAGTTTAATAATAAAT
1 ATAATTTAATAATAAAT
62380 TGTTAATAAA
Statistics
Matches: 110, Mismatches: 34, Indels: 10
0.71 0.22 0.06
Matches are distributed among these distances:
21 3 0.03
22 105 0.95
23 2 0.02
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAATTTAATAATAAATCATA
Found at i:62324 original size:44 final size:44
Alignment explanation
Indices: 62209--62379 Score: 132
Period size: 44 Copynumber: 3.9 Consensus size: 44
62199 AAAAACTCTT
* * * * *
62209 ATAAATTAATAATAAATAAGT-TATAATTTTAGAATAAATCA-TC
1 ATAAATTAATAACAAATCA-TAAATAATTTAATAATAAATCATTC
* * * * *
62252 AGTAACTTATTAAAAAATTATCAATAATTTAATAATAAATCATTC
1 A-TAAATTAATAACAAATCATAAATAATTTAATAATAAATCATTC
* * *
62297 ATAAATTAATAACAAATCA-ATACTAATTTAATAGTAAATCATTG
1 ATAAATTAATAACAAATCATA-AATAATTTAATAATAAATCATTC
* * * * *
62341 ATAATTTAGTAATATATCATAAATAGTTTAATAATAAAT
1 ATAAATTAATAACAAATCATAAATAATTTAATAATAAAT
62380 TGTTAATAAA
Statistics
Matches: 101, Mismatches: 22, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
43 2 0.02
44 95 0.94
45 4 0.04
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.37
Consensus pattern (44 bp):
ATAAATTAATAACAAATCATAAATAATTTAATAATAAATCATTC
Found at i:62628 original size:15 final size:15
Alignment explanation
Indices: 62608--62641 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
62598 AAAATTACAA
62608 AAAAAACTAATTACT
1 AAAAAACTAATTACT
* *
62623 AAAAAATTAATTATT
1 AAAAAACTAATTACT
62638 AAAA
1 AAAA
62642 TTATATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAAACTAATTACT
Found at i:64528 original size:14 final size:13
Alignment explanation
Indices: 64493--64538 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
64483 TTTGAAAAAG
64493 ATTTATTTATCTTTT
1 ATTT-TTTAT-TTTT
*
64508 ATCTTTTATTTTT
1 ATTTTTTATTTTT
64521 CATTTTTTATTTTT
1 -ATTTTTTATTTTT
64535 ATTT
1 ATTT
64539 CAAGAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 17 0.61
15 3 0.11
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTTATTTTT
Found at i:69083 original size:19 final size:20
Alignment explanation
Indices: 69047--69084 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
69037 TGAAATTAAA
69047 AAAAACTATCTTATTATATT
1 AAAAACTATCTTATTATATT
69067 AAAAACTATCTTA-TATAT
1 AAAAACTATCTTATTATAT
69085 CATTTAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAACTATCTTATTATATT
Found at i:70215 original size:113 final size:115
Alignment explanation
Indices: 69985--70355 Score: 324
Period size: 113 Copynumber: 3.2 Consensus size: 115
69975 GCTTTTATTC
* * *
69985 AAGAAAAATTGATACTTTCAACTTTTCTTCAAAAAGCATCTTCGAATTTTTATTTTCGAGAAAAA
1 AAGAAAAATTGATACTTTCAACTTCTCTT-AAAAAGCATCTTCGAATTTTTATTTTCAAAAAAAA
70050 TTGATATTTTCAACTTTTCTTCAAAAAATATTTTTTAAAAATTTCATCTTT
65 TTGATATTTTCAACTTTTCTTCAAAAAATATTTTTTAAAAATTTCATCTTT
* * *
70101 AAGAAAAATTGGTACTTTCAACTTCTCTT-TAAAGCAT-TTTGAAATTTTTA-TTT-AAAAAAAA
1 AAGAAAAATTGATACTTTCAACTTCTCTTAAAAAGCATCTTCG-AATTTTTATTTTCAAAAAAAA
* * * *
70162 TTGATACTTTT-AA-TTTTTTCTCAAAAATATATTTTTTGAAAATTTTATTTTT
65 TTGATA-TTTTCAACTTTTCT-TCAAAAA-ATATTTTTTAAAAATTTCATCTTT
* * * * *** * **
70214 AAGAGAAATTGATAGTTTCAACTTTTTGTTAAAACATTTTTTTTTAGATTTTTACTTTTC-AAAA
1 AAGAAAAATTGATACTTTCAAC-TTCTCTTAAAA-AGCATCTTCGA-ATTTTTA-TTTTCAAAAA
** * *** * ** *
70278 AAATTGATACATTCAACTTTTCTTTAAATTTTTTTTTTTTGAAATTTGATCTTT
62 AAATTGATATTTTCAACTTTTCTTCAAAAAATATTTTTTAAAAATTTCATCTTT
* *
70332 AAAAAAAATTGATAATTTCAACTT
1 AAGAAAAATTGATACTTTCAACTT
70356 TACCTTAAAC
Statistics
Matches: 206, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
111 5 0.02
112 21 0.10
113 50 0.24
114 20 0.10
115 2 0.01
116 30 0.15
117 12 0.06
118 39 0.19
119 22 0.11
120 5 0.02
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (115 bp):
AAGAAAAATTGATACTTTCAACTTCTCTTAAAAAGCATCTTCGAATTTTTATTTTCAAAAAAAAT
TGATATTTTCAACTTTTCTTCAAAAAATATTTTTTAAAAATTTCATCTTT
Found at i:70285 original size:59 final size:59
Alignment explanation
Indices: 70045--70372 Score: 207
Period size: 59 Copynumber: 5.6 Consensus size: 59
70035 TATTTTCGAG
* * * * * * * *
70045 AAAAATTGATATTTTCAACTTTTCTTCAAAAAATATTTTTTAAAAATTTCATCTTTAAG
1 AAAAATTGATAATTTCAACTTTTCTTTAAACATTTTTTTTTAGAAATTTGATCTTTAAA
* * * * *
70104 AAAAATTGGTACTTTCAACTTCTCTTTAAAGCA-----TTTT-GAAATTT-TTATTTAAA
1 AAAAATTGATAATTTCAACTTTTCTTTAAA-CATTTTTTTTTAGAAATTTGATCTTTAAA
* * * * * * *
70157 AAAAATTGATACTTTTAA-TTTT-TTCTCAAAAATATATTTTTT-GAAAATTTTATTTTTAAG
1 AAAAATTGATAATTTCAACTTTTCTT-T-AAACAT-TTTTTTTTAG-AAATTTGATCTTTAAA
* * * * *
70217 AGAAATTGATAGTTTCAACTTTT-TGTTAAAACATTTTTTTTTAG-ATTTTTA-CTTTTCAA
1 AAAAATTGATAATTTCAACTTTTCT-TT-AAACATTTTTTTTTAGAAATTTGATC-TTTAAA
** *
70276 AAAAATTGATACA-TTCAACTTTTCTTTAAATTTTTTTTTTTTGAAATTTGATCTTTAAA
1 AAAAATTGATA-ATTTCAACTTTTCTTTAAACATTTTTTTTTAGAAATTTGATCTTTAAA
* *
70335 AAAAATTGATAATTTCAACTTTACCTTAAACATTTTTT
1 AAAAATTGATAATTTCAACTTTTCTTTAAACATTTTTT
70373 GAAATATTTT
Statistics
Matches: 211, Mismatches: 38, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
51 2 0.01
52 5 0.02
53 25 0.12
54 6 0.03
55 4 0.02
58 19 0.09
59 106 0.50
60 31 0.15
61 12 0.06
62 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (59 bp):
AAAAATTGATAATTTCAACTTTTCTTTAAACATTTTTTTTTAGAAATTTGATCTTTAAA
Found at i:73200 original size:32 final size:32
Alignment explanation
Indices: 73159--73225 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
73149 CTGAATTGAA
*
73159 AAAAAGATCTGGCATAG-GCCAAAATCTAAAAT
1 AAAAAGATCTGG-ATAGAACCAAAATCTAAAAT
* * *
73191 AAAATGATCTGGATAGAACCGAAGTCTAAAAT
1 AAAAAGATCTGGATAGAACCAAAATCTAAAAT
73223 AAA
1 AAA
73226 TAACTTGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.19
Consensus pattern (32 bp):
AAAAAGATCTGGATAGAACCAAAATCTAAAAT
Found at i:73272 original size:85 final size:85
Alignment explanation
Indices: 73137--73636 Score: 374
Period size: 85 Copynumber: 6.0 Consensus size: 85
73127 CTTTAGTCTA
* * * * *
73137 AAATAACTTGAACTGAATTGAAAAAAAGATCTGGCATAGGCCAAAATCTAAAATAAAATGATCTG
1 AAATAACTTGAACTGAACT-CAAAAAGGATCTGGCATAGGCCAAAATCTAAAACAAAATGACCTG
73202 GATAGAACCGAAGTCTAAAAT
65 GATAGAACCGAAGTCTAAAAT
** * * *
73223 AAATAACTTGAACTGAACTGTAAAAGGATCTGGCATAAGTCAAAATCTAAAACAAAATGACCTGA
1 AAATAACTTGAACTGAACTCAAAAAGGATCTGGCATAGGCCAAAATCTAAAACAAAATGACCTGG
* * *
73288 ATGGAACTGAAGTATAAAAT
66 ATAGAACCGAAGTCTAAAAT
* * * * *
73308 AACTAATTTGGACTGAAC-CAAAGAAGGAT-TCGGCATAGGCCGAAAT-TCAAAACAAAATGACT
1 AAATAACTTGAACTGAACTCAAA-AAGGATCT-GGCATAGGCCAAAATCT-AAAACAAAATGACC
* * * *
73370 TGGATAGAATCAAAGTTTGAAAT
63 TGGATAGAACCGAAGTCTAAAAT
* * * * *
73393 -AAT---TTGGAA-TGAA-TCAAAAGAGGATCTAGCATAGGTCGAAATCCAAAATAAAATGACCT
1 AAATAACTT-GAACTGAACTCAAAA-AGGATCTGGCATAGGCCAAAATCTAAAACAAAATGACCT
* * *
73452 AGATTGAACCAAAGTCTGAAAA-
64 GGATAGAACCGAAGTCT-AAAAT
* * ** * *
73474 GAATAACTT-AGACT-AAGC-CAAAAAAAGATCTGGCATAAACCGAAATCTAAAATAAAATGACC
1 AAATAACTTGA-ACTGAA-CTC-AAAAAGGATCTGGCATAGGCCAAAATCTAAAACAAAATGACC
*
73536 TGGATTA-AACCGAAGTCTGAAAT
63 TGGA-TAGAACCGAAGTCTAAAAT
* * * *
73559 -AAT---TTGAACTTAAC-CAAAGAAGGATCTAGCATAGGCCAAAATCCAAAACAAAATGACTTG
1 AAATAACTTGAACTGAACTCAAA-AAGGATCTGGCATAGGCCAAAATCTAAAACAAAATGACCTG
73619 GAT-GAAACCGAAGTCTAA
65 GATAG-AACCGAAGTCTAA
73637 CTTTACAATA
Statistics
Matches: 330, Mismatches: 59, Indels: 55
0.74 0.13 0.12
Matches are distributed among these distances:
80 5 0.02
81 108 0.33
82 12 0.04
83 1 0.00
84 15 0.05
85 166 0.50
86 23 0.07
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (85 bp):
AAATAACTTGAACTGAACTCAAAAAGGATCTGGCATAGGCCAAAATCTAAAACAAAATGACCTGG
ATAGAACCGAAGTCTAAAAT
Found at i:73433 original size:81 final size:78
Alignment explanation
Indices: 73340--73634 Score: 243
Period size: 81 Copynumber: 3.6 Consensus size: 78
73330 GAAGGATTCG
* * * *
73340 GCATAGGCCGAAATTCAAAACAAAATGACTTGGATAGAATCAAAGTTTGAAATAATTTGGAATGA
1 GCATAGGCCGAAATCCAAAACAAAATGACCTGGATAGAACCAAAGTCTGAAATAATTT-GAAT-A
73405 ATCAAAAGAGGATCTA
64 A-CAAAAGAGGATCTA
* * * * *
73421 GCATAGGTCGAAATCCAAAATAAAATGACCTAGATTGAACCAAAGTCTGAAAAGAATAACTTAGA
1 GCATAGGCCGAAATCCAAAACAAAATGACCTGGATAGAACCAAAGTCTG---A-AATAA-TTTGA
* * * *
73486 CTAAGCCAAAAAAAGATCTG
61 ATAA--CAAAAGAGGATCTA
** * * *
73506 GCATAAACCGAAATCTAAAATAAAATGACCTGGATTA-AACCGAAGTCTGAAATAATTTGAACTT
1 GCATAGGCCGAAATCCAAAACAAAATGACCTGGA-TAGAACCAAAGTCTGAAATAATTTGAA--T
*
73570 AACCAAAGAAGGATCTA
63 AACAAAAG-AGGATCTA
* * *
73587 GCATAGGCCAAAATCCAAAACAAAATGACTTGGAT-GAAACCGAAGTCT
1 GCATAGGCCGAAATCCAAAACAAAATGACCTGGATAG-AACCAAAGTCT
73635 AACTTTACAA
Statistics
Matches: 169, Mismatches: 33, Indels: 24
0.75 0.15 0.11
Matches are distributed among these distances:
80 9 0.05
81 91 0.54
82 4 0.02
84 3 0.02
85 59 0.35
86 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (78 bp):
GCATAGGCCGAAATCCAAAACAAAATGACCTGGATAGAACCAAAGTCTGAAATAATTTGAATAAC
AAAAGAGGATCTA
Found at i:73841 original size:17 final size:17
Alignment explanation
Indices: 73819--73945 Score: 101
Period size: 17 Copynumber: 7.5 Consensus size: 17
73809 AAAAAATTCA
*
73819 CAAGAATTTCATATTTG
1 CAAGAATTTCAGATTTG
** *
73836 CAAGAATTGAAGATTTA
1 CAAGAATTTCAGATTTG
* * *
73853 TAAAAATTTAAGATTTG
1 CAAGAATTTCAGATTTG
**
73870 CAAGAATTGGAGATTTG
1 CAAGAATTTCAGATTTG
* * *
73887 TAAGATTTTCAGATTCG
1 CAAGAATTTCAGATTTG
** **
73904 CAAGAATTAGAGATTCA
1 CAAGAATTTCAGATTTG
*
73921 CAAGACTTTCAGATTTG
1 CAAGAATTTCAGATTTG
73938 CAAGAATT
1 CAAGAATT
73946 AGAGATTCAT
Statistics
Matches: 82, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 82 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (17 bp):
CAAGAATTTCAGATTTG
Found at i:73918 original size:68 final size:67
Alignment explanation
Indices: 73814--73987 Score: 186
Period size: 68 Copynumber: 2.6 Consensus size: 67
73804 ATATTAAAAA
* * * * * * *
73814 ATTCACAAGAATTTCATATTTGCAAGAATTGAAGATTTATAAAAATTTAAGATTTGCAAGAATTG
1 ATTCATAAGATTTTCAGATTCGCAAGAATTG-AGATTCACAAAAATTTAAGATTTGCAAGAATTA
73879 GAG
65 GAG
** * * *
73882 ATTTGTAAGATTTTCAGATTCGCAAGAATTAGAGATTCACAAGACTTTCAGATTTGCAAGAATTA
1 ATTCATAAGATTTTCAGATTCGCAAGAATT-GAGATTCACAAAAATTTAAGATTTGCAAGAATTA
73947 GAG
65 GAG
* * *
73950 ATTCATGAGATTTTTAGATTCGTAAGAATTGGAGATTC
1 ATTCATAAGATTTTCAGATTCGCAAGAATT-GAGATTC
73988 GTAAAATTGA
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
68 86 0.99
69 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (67 bp):
ATTCATAAGATTTTCAGATTCGCAAGAATTGAGATTCACAAAAATTTAAGATTTGCAAGAATTAG
AG
Found at i:73985 original size:17 final size:17
Alignment explanation
Indices: 73871--73996 Score: 74
Period size: 17 Copynumber: 7.5 Consensus size: 17
73861 TAAGATTTGC
*
73871 AAGAATTGGAGATTTGT
1 AAGAATTGGAGATTCGT
* ** *
73888 AAGATTTTCAGATTCGC
1 AAGAATTGGAGATTCGT
* **
73905 AAGAATTAGAGATTCAC
1 AAGAATTGGAGATTCGT
* ** * *
73922 AAGACTTTCAGATTTGC
1 AAGAATTGGAGATTCGT
* *
73939 AAGAATTAGAGATTCAT
1 AAGAATTGGAGATTCGT
* * **
73956 GAGATTTTTAGATTCGT
1 AAGAATTGGAGATTCGT
73973 AAGAATTGGAGATTCGT
1 AAGAATTGGAGATTCGT
73990 AA-AATTG
1 AAGAATTG
73997 AAGACTCGCA
Statistics
Matches: 80, Mismatches: 29, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
16 5 0.06
17 75 0.94
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (17 bp):
AAGAATTGGAGATTCGT
Found at i:73987 original size:34 final size:34
Alignment explanation
Indices: 73814--73987 Score: 161
Period size: 34 Copynumber: 5.1 Consensus size: 34
73804 ATATTAAAAA
* * * *
73814 ATTCACAAGAATTTCATATTTGCAAGAATT-GAAG
1 ATTCATAAGATTTTCAGATTCGCAAGAATTAG-AG
* * * * * *
73848 ATTTATAAAAATTTAAGATTTGCAAGAATTGGAG
1 ATTCATAAGATTTTCAGATTCGCAAGAATTAGAG
**
73882 ATTTGTAAGATTTTCAGATTCGCAAGAATTAGAG
1 ATTCATAAGATTTTCAGATTCGCAAGAATTAGAG
* * *
73916 ATTCACAAGACTTTCAGATTTGCAAGAATTAGAG
1 ATTCATAAGATTTTCAGATTCGCAAGAATTAGAG
* * * *
73950 ATTCATGAGATTTTTAGATTCGTAAGAATTGGAG
1 ATTCATAAGATTTTCAGATTCGCAAGAATTAGAG
73984 ATTC
1 ATTC
73988 GTAAAATTGA
Statistics
Matches: 116, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
34 115 0.99
35 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (34 bp):
ATTCATAAGATTTTCAGATTCGCAAGAATTAGAG
Found at i:75383 original size:15 final size:16
Alignment explanation
Indices: 75349--75385 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
75339 CTTTTTCTCT
*
75349 TTTTTTTATTTTTTCA
1 TTTTTTTATTTTTTAA
75365 -TTTTTTA-TTTTTAA
1 TTTTTTTATTTTTTAA
75379 TTTTTTT
1 TTTTTTT
75386 TGCTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTATTTTTTAA
Found at i:75401 original size:7 final size:7
Alignment explanation
Indices: 75350--75384 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
75340 TTTTTCTCTT
75350 TTTTTTA
1 TTTTTTA
75357 TTTTTTCA
1 TTTTTT-A
75365 TTTTTTA
1 TTTTTTA
*
75372 TTTTTAA
1 TTTTTTA
75379 TTTTTT
1 TTTTTT
75385 TTGCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:79586 original size:60 final size:59
Alignment explanation
Indices: 79384--79599 Score: 196
Period size: 60 Copynumber: 3.7 Consensus size: 59
79374 AAATATATAT
* * **
79384 TTTTTATTTTTAAGAAAAATTGATAC-TTCAACTTCTCCTTAAAGCA----TTTCAAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAACATTTTTTTTGAAA
* * * *
79438 TTTTTA-TTTTAAAAAAAATTGATATTTTCAA-TTTTTCTCAAAA-ATATATTTTTTGAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAACAT-T-TTTTTTGAAA
* ** * * *
79496 TTTTCATTTTTAAGGGAAATTGACATTTTCAACTTTTCCTTAAAACATTTTTTTTGAGA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAACATTTTTTTTGAAA
* * *
79555 TTTTTACTTTTTCAGAAAAATTGATACTTTCAATTTTTCTTTAAA
1 TTTTTA-TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAA
79600 CATATATATA
Statistics
Matches: 127, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 25 0.20
54 11 0.09
58 11 0.09
59 35 0.28
60 42 0.33
61 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAACATTTTTTTTGAAA
Found at i:79602 original size:59 final size:60
Alignment explanation
Indices: 79435--79606 Score: 190
Period size: 59 Copynumber: 2.9 Consensus size: 60
79425 AAGCATTTCA
* * *
79435 AAATTTTTA-TTTTAAAAAAAATTGATATTTTCAATTTTTCTCAAAA-ATATATTTTTTG
1 AAATTTTCATTTTTAAGAAAAATTGATATTTTCAATTTTTCTTAAAACATATATTTTTTG
** * *
79493 AAATTTTCATTTTTAAGGGAAATTGACATTTTCAACTTTTCCTTAAAACAT-T-TTTTTTG
1 AAATTTTCATTTTTAAGAAAAATTGATATTTTCAA-TTTTTCTTAAAACATATATTTTTTG
* * * * *
79552 AGATTTTTACTTTTTCAGAAAAATTGATACTTTCAATTTTTCTTTAAACATATAT
1 AAATTTTCA-TTTTTAAGAAAAATTGATATTTTCAATTTTTCTTAAAACATATAT
79607 ATATTTTATT
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
58 8 0.09
59 48 0.52
60 33 0.36
61 3 0.03
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (60 bp):
AAATTTTCATTTTTAAGAAAAATTGATATTTTCAATTTTTCTTAAAACATATATTTTTTG
Found at i:80870 original size:24 final size:27
Alignment explanation
Indices: 80843--80893 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 27
80833 GGCAGAGGTG
*
80843 ACAGTAGGGTA-TTGA-TGGT-GTGGA
1 ACAGAAGGGTATTTGAGTGGTGGTGGA
*
80867 ACAGAATGGTATTTGAGTGGTGGTGGA
1 ACAGAAGGGTATTTGAGTGGTGGTGGA
80894 GGATGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 9 0.41
25 4 0.18
26 4 0.18
27 5 0.23
ACGTcount: A:0.25, C:0.04, G:0.41, T:0.29
Consensus pattern (27 bp):
ACAGAAGGGTATTTGAGTGGTGGTGGA
Found at i:81395 original size:21 final size:21
Alignment explanation
Indices: 81369--81436 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
81359 TGTAATCATG
81369 CAAATATCATAAAAATCATAT
1 CAAATATCATAAAAATCATAT
*
81390 CAAATATCATAAATATCATA-
1 CAAATATCATAAAAATCATAT
81410 CAAAATATCATGCAAAAA--ATAT
1 C-AAATATCAT--AAAAATCATAT
81432 CAAAT
1 CAAAT
81437 TATATTATAC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 1 0.02
21 35 0.85
22 1 0.02
23 4 0.10
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.26
Consensus pattern (21 bp):
CAAATATCATAAAAATCATAT
Found at i:81400 original size:12 final size:11
Alignment explanation
Indices: 81363--81425 Score: 62
Period size: 9 Copynumber: 5.9 Consensus size: 11
81353 ATATCATGTA
*
81363 ATCATGCAAAT
1 ATCATACAAAT
81374 ATCATA-AAA-
1 ATCATACAAAT
81383 ATCATATCAAAT
1 ATCATA-CAAAT
81395 ATCAT--AAAT
1 ATCATACAAAT
81404 ATCATACAAAAT
1 ATCATAC-AAAT
*
81416 ATCATGCAAA
1 ATCATACAAA
81426 AAATATCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
9 15 0.34
10 3 0.07
11 11 0.25
12 15 0.34
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.27
Consensus pattern (11 bp):
ATCATACAAAT
Found at i:81456 original size:36 final size:35
Alignment explanation
Indices: 81402--81488 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 35
81392 AATATCATAA
* *
81402 ATATCATACAA-AATATCATGCAAAAAATATCAAATT
1 ATATTATACAATAA-ATCATGCAAAAAATAT-AAAAT
* *
81438 ATATTATACAATAAATCATGCCATAAATATAAAAT
1 ATATTATACAATAAATCATGCAAAAAATATAAAAT
*
81473 ATATTATGCAATAAAT
1 ATATTATACAATAAAT
81489 ATAAAATCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 19 0.42
36 24 0.53
37 2 0.04
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (35 bp):
ATATTATACAATAAATCATGCAAAAAATATAAAAT
Found at i:81485 original size:35 final size:36
Alignment explanation
Indices: 81391--81488 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 36
81381 AAATCATATC
* *
81391 AAATATCATAA-ATATCATACAA-AATATCATGCAAA
1 AAATATCAAAATATATTATACAATAA-ATCATGCAAA
* * *
81426 AAATATCAAATTATATTATACAATAAATCATGCCAT
1 AAATATCAAAATATATTATACAATAAATCATGCAAA
*
81462 AAATAT-AAAATATATTATGCAATAAAT
1 AAATATCAAAATATATTATACAATAAAT
81489 ATAAAATCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 28 0.52
36 24 0.44
37 2 0.04
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (36 bp):
AAATATCAAAATATATTATACAATAAATCATGCAAA
Found at i:81509 original size:24 final size:23
Alignment explanation
Indices: 81442--81509 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
81432 CAAATTATAT
* * *
81442 TATACAATAAATCATGCCATAAA
1 TATAAAATATATCATGCAATAAA
*
81465 TATAAAATATATTATGCAATAAA
1 TATAAAATATATCATGCAATAAA
*
81488 TATAAAATCATATCATGTAATA
1 TATAAAAT-ATATCATGCAATA
81510 GTATAGAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
23 27 0.71
24 11 0.29
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.32
Consensus pattern (23 bp):
TATAAAATATATCATGCAATAAA
Found at i:81574 original size:20 final size:20
Alignment explanation
Indices: 81546--81590 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
81536 ATTATCATAT
81546 AATA-AAAAATCACACAAATA
1 AATATAAAAA-CACACAAATA
* *
81566 AATATAAAAACATACAATTA
1 AATATAAAAACACACAAATA
81586 AATAT
1 AATAT
81591 TAATAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (20 bp):
AATATAAAAACACACAAATA
Found at i:81623 original size:20 final size:20
Alignment explanation
Indices: 81586--81624 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
81576 CATACAATTA
* *
81586 AATATTAATAATGTAAATAT
1 AATATTAATAAAGCAAATAT
81606 AATATTAATAAAGCAAATA
1 AATATTAATAAAGCAAATA
81625 GTAAATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AATATTAATAAAGCAAATAT
Found at i:81656 original size:20 final size:21
Alignment explanation
Indices: 81633--81671 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
81623 TAGTAAATAA
*
81633 TCATGCACATA-ATTAAAGAG
1 TCATGCAAATATATTAAAGAG
81653 TCATGCAAATATATTAAAG
1 TCATGCAAATATATTAAAG
81672 TACTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (21 bp):
TCATGCAAATATATTAAAGAG
Found at i:83147 original size:3 final size:3
Alignment explanation
Indices: 83139--83180 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
83129 TAAAAACCAC
83139 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA
83181 AAACATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:83677 original size:38 final size:38
Alignment explanation
Indices: 83581--83682 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 38
83571 GCTTTTTCAC
* * * *
83581 CGAGGTTTCATCTTTGAAAAAAATAAAATATTCTTCCAT
1 CGAGGTTTCAACTTTG-GAAAAATAAAATACTCCTCCAT
*
83620 CGAGGCTTCAACTTT-GAAAAATAAAATACTCCTCCA-
1 CGAGGTTTCAACTTTGGAAAAATAAAATACTCCTCCAT
*
83656 CTGATGTTTCAACTTTGGAAAAATAAA
1 C-GAGGTTTCAACTTTGGAAAAATAAA
83683 GTCATGTCCA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
36 1 0.02
37 30 0.56
38 10 0.19
39 13 0.24
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (38 bp):
CGAGGTTTCAACTTTGGAAAAATAAAATACTCCTCCAT
Found at i:85198 original size:17 final size:17
Alignment explanation
Indices: 85189--85247 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
85179 TTTTTTTTGC
85189 TTTTGCTTTTGCGTTATCTTT
1 TTTTGCTTTTGC-TT-T--TT
* *
85210 TTTTGCATTTGGTTTTT
1 TTTTGCTTTTGCTTTTT
*
85227 TTTTTCTTTTGCTTTTT
1 TTTTGCTTTTGCTTTTT
85244 TTTT
1 TTTT
85248 CATATCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 20 0.61
19 1 0.03
20 2 0.06
21 10 0.30
ACGTcount: A:0.03, C:0.10, G:0.12, T:0.75
Consensus pattern (17 bp):
TTTTGCTTTTGCTTTTT
Found at i:85894 original size:24 final size:25
Alignment explanation
Indices: 85867--85914 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
85857 ATTTCAAATA
85867 TAAATACTCTCCAT-AAGAACATTG
1 TAAATACTCTCCATAAAGAACATTG
* *
85891 TAAATACTTTCGATAAAGAACATT
1 TAAATACTCTCCATAAAGAACATT
85915 TATTGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (25 bp):
TAAATACTCTCCATAAAGAACATTG
Found at i:90553 original size:19 final size:20
Alignment explanation
Indices: 90529--90576 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 20
90519 CATGCAAATG
*
90529 ATGCAATAATATAA-ATATC
1 ATGCAATAATATAATATAAC
90548 ATGCAATAATATAATATAAC
1 ATGCAATAATATAATATAAC
90568 ATGCAATAA
1 ATGCAATAA
90577 CAATATAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.29
Consensus pattern (20 bp):
ATGCAATAATATAATATAAC
Found at i:90601 original size:20 final size:20
Alignment explanation
Indices: 90545--90601 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
90535 TAATATAAAT
90545 ATCATGCAATAATA-TAATATA
1 ATCATGC-A-AATACTAATATA
90566 A-CATGC-AATAAC-AATATA
1 ATCATGCAAAT-ACTAATATA
90584 ATCATGCAAATACTAATA
1 ATCATGCAAATACTAATA
90602 AATATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
17 3 0.10
18 8 0.26
19 7 0.23
20 12 0.39
21 1 0.03
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (20 bp):
ATCATGCAAATACTAATATA
Found at i:90851 original size:17 final size:17
Alignment explanation
Indices: 90820--90870 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
90810 AATAACAAAG
* *
90820 AAAAAAAATAGAAAAAT
1 AAAAAAAAAACAAAAAT
90837 AAAAAAAAAACAAAAAT
1 AAAAAAAAAACAAAAAT
90854 AGAAAACAAAATACAAA
1 A-AAAA-AAAA-ACAAA
90871 TAAATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 16 0.55
18 4 0.14
19 4 0.14
20 5 0.17
ACGTcount: A:0.82, C:0.06, G:0.04, T:0.08
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAT
Found at i:92181 original size:6 final size:6
Alignment explanation
Indices: 92152--92217 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
92142 AACTTTGACC
* * * * *
92152 AAAATT AAAAAT AAAATC ACAATT AAAATT TAAATT AAAGTT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
** *
92200 AAAACC AATATT AAAATT
1 AAAATT AAAATT AAAATT
92218 GTAGCCTTTT
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:92186 original size:18 final size:17
Alignment explanation
Indices: 92153--92217 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 17
92143 ACTTTGACCA
*
92153 AAATTAAAAATAAAATC
1 AAATTAAAATTAAAATC
* *
92170 ACAATTAAAATTTAAATT
1 A-AATTAAAATTAAAATC
*
92188 AAAGTTAAAATTAAAACC
1 AAA-TTAAAATTAAAATC
92206 AATATTAAAATT
1 AA-ATTAAAATT
92218 GTAGCCTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 3 0.08
18 35 0.90
19 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (17 bp):
AAATTAAAATTAAAATC
Found at i:94308 original size:23 final size:22
Alignment explanation
Indices: 94281--94327 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
94271 GAGAAATGAA
94281 AATAACAATAATAAAAATAAAAG
1 AATAACAATAA-AAAAATAAAAG
* *
94304 AATAACAATAAGAAAATAATAG
1 AATAACAATAAAAAAATAAAAG
94326 AA
1 AA
94328 ATGATGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (22 bp):
AATAACAATAAAAAAATAAAAG
Found at i:94916 original size:31 final size:31
Alignment explanation
Indices: 94860--94921 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
94850 TATTTTTTTC
*
94860 AAATAAAAATGGAATAATAATTTTAAAAAAT
1 AAATAAAAATGGAAGAATAATTTTAAAAAAT
*
94891 AAATAAACAATGGAGAGAA-AATTTAAAAAAA
1 AAATAAA-AATGGA-AGAATAATTTTAAAAAA
94922 AAAGATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 7 0.26
32 17 0.63
33 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.23
Consensus pattern (31 bp):
AAATAAAAATGGAAGAATAATTTTAAAAAAT
Found at i:96640 original size:124 final size:125
Alignment explanation
Indices: 96341--96770 Score: 544
Period size: 124 Copynumber: 3.4 Consensus size: 125
96331 TTACATTCCT
* **
96341 TTTCATCATTTTTCTTATTTGAAAATAATAA-AGTTGTACATACACTTCATTTCATGTACAAATA
1 TTTCATTATTTTTCACATTTGAAAATAATAAGA-TTGTACATACACTTCATTTCATGTACAAATA
* * ** * * *
96405 TTTGAATAGTAATATCAATTTCGTAAAACTTTTTAACTTTGAATGTTATTGTACCTTTCGTA
65 TTTGAATGGTAATGTCAATTTTATAAAA-ATTTTGATTTTGAATGTTATTGTACCTTTCGTA
** * *
96467 TTTCATTATTTTTTGCATTTGAAAATAATAAGATTGTACATACATTTCATTGCATGTACAAATAT
1 TTTCATTATTTTTCACATTTGAAAATAATAAGATTGTACATACACTTCATTTCATGTACAAATAT
* *
96532 TTGAATGGTATTGTTAATTTTATAAAAATTTTGATTTTGAATGTTATTGTA-CTTTCGTA
66 TTGAATGGTAATGTCAATTTTATAAAAATTTTGATTTTGAATGTTATTGTACCTTTCGTA
* * * * *
96591 TTTCATTATTTTTCATATTTGGAAATAATAA-AGTTGTATATACACTTCATTTCATGTATAAATC
1 TTTCATTATTTTTCACATTTGAAAATAATAAGA-TTGTACATACACTTCATTTCATGTACAAATA
* * * *
96655 TTTGAATGATAGTGTCAA-TTTAGTACAAATTTTGATTTTGAATGTTATTGTACCTTTCATA
65 TTTGAATGGTAATGTCAATTTTA-TAAAAATTTTGATTTTGAATGTTATTGTACCTTTCGTA
* * *
96716 TTTTATTATTTTTTACATTTGAAAATAATAAGATTGTACATACATTTCATTTCAT
1 TTTCATTATTTTTCACATTTGAAAATAATAAGATTGTACATACACTTCATTTCAT
96771 TTCATTAAAT
Statistics
Matches: 264, Mismatches: 35, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
123 5 0.02
124 104 0.39
125 75 0.28
126 79 0.30
127 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (125 bp):
TTTCATTATTTTTCACATTTGAAAATAATAAGATTGTACATACACTTCATTTCATGTACAAATAT
TTGAATGGTAATGTCAATTTTATAAAAATTTTGATTTTGAATGTTATTGTACCTTTCGTA
Found at i:99114 original size:27 final size:27
Alignment explanation
Indices: 99084--99174 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
99074 AAAAAAAAAT
99084 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
** * * ** **
99111 ATTTTCCTCAGAAATAAATTTCAAAAAAAAA
1 ATTTT--T-AGGGA-AAAGTTGAAAGTATCA
99142 TATTTTTAGGGAAAAGTTGAAAGTATCA
1 -ATTTTTAGGGAAAAGTTGAAAGTATCA
99170 ATTTT
1 ATTTT
99175 CCTTAGAAAT
Statistics
Matches: 43, Mismatches: 16, Indels: 10
0.62 0.23 0.14
Matches are distributed among these distances:
27 10 0.23
28 10 0.23
29 4 0.09
30 4 0.09
31 10 0.23
32 5 0.12
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:99211 original size:116 final size:118
Alignment explanation
Indices: 99066--99412 Score: 524
Period size: 116 Copynumber: 2.9 Consensus size: 118
99056 ATAAAAATAA
*
99066 AAAATTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATT
1 AAAATTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATT
99131 TCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
65 TCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAAT
* * *
99185 -AAATTTC-CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
1 AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
*
99248 CAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAT
66 CAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
* *
99301 CAAAATTTCAAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAA
1 -AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AA
* *
99365 ATTTC-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
62 ATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
99413 CTACAAAAAA
Statistics
Matches: 210, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
115 2 0.01
116 102 0.49
118 14 0.07
119 44 0.21
120 41 0.20
121 7 0.03
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (118 bp):
AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
CAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT
Found at i:99340 original size:60 final size:59
Alignment explanation
Indices: 99067--99412 Score: 515
Period size: 59 Copynumber: 5.9 Consensus size: 59
99057 TAAAAATAAA
*
99067 AAATTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
99126 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
* * *
99185 AAATTTC--CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
99242 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTC-GAAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT
* *
99301 CAAAATTTC-AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAAT
1 --AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT
* *
99361 CGAAATTTC-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 --AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
99413 CTACAAAAAA
Statistics
Matches: 268, Mismatches: 13, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
57 53 0.20
58 1 0.00
59 109 0.41
60 98 0.37
61 7 0.03
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (59 bp):
AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:103257 original size:11 final size:11
Alignment explanation
Indices: 103237--103268 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
103227 ATGAAAAATG
103237 AAAA-AAGAAA
1 AAAATAAGAAA
103247 AAAATAAG-AA
1 AAAATAAGAAA
103257 AAAATAAGAAA
1 AAAATAAGAAA
103268 A
1 A
103269 TGAAAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
AAAATAAGAAA
Found at i:103982 original size:12 final size:12
Alignment explanation
Indices: 103964--103997 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
103954 GTGATGGTGG
103964 ATGAAATTTGTT
1 ATGAAATTTGTT
*
103976 TTGAAATTTGTT
1 ATGAAATTTGTT
103988 ATGAAATTTG
1 ATGAAATTTG
103998 CTAGCGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
ATGAAATTTGTT
Found at i:104687 original size:83 final size:83
Alignment explanation
Indices: 104529--105144 Score: 905
Period size: 83 Copynumber: 7.5 Consensus size: 83
104519 GTCTAGGAGT
* *
104529 ATTTACTTTTCAAAGT--TCGCTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTTCGT--
1 ATTTACTTTTCAAAGTCGT-GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG-TCGTGG
*
104589 TGCCTCTGTTTAGAGGAGCA
64 TGCCTCTGTTGAGAGGAGCA
* *
104609 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGT-TTGTT
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGT
*
104673 GCCTCTGTTTAGAGGAGCA
65 GCCTCTGTTGAGAGGAGCA
*
104692 ATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCCAAAGTCGTG
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTT-CAAAGTCGTG
*
104754 GTACCTCTGTTGAGAGGAGCA
63 GTGCCTCTGTTGAGAGGAGCA
*
104775 ATTTAC-TTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGT
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGT
*
104838 GCCTCTGTTTAGAGGAGCA
65 GCCTCTGTTGAGAGGAGCA
* * * *
104857 ATTTATTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGT
*
104922 ACCTCTGTTGAGAGGAGCA
65 GCCTCTGTTGAGAGGAGCA
* *
104941 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTG
105006 CCTCTGTTGAGAGGAGCA
66 CCTCTGTTGAGAGGAGCA
105024 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTG
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTG
105088 CCTCTGTTGAGAGGAGCA
66 CCTCTGTTGAGAGGAGCA
*
105106 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
105145 ACTTCGGCAA
Statistics
Matches: 493, Mismatches: 25, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
80 11 0.02
81 14 0.03
82 140 0.28
83 283 0.57
84 45 0.09
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (83 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTG
CCTCTGTTGAGAGGAGCA
Found at i:104688 original size:41 final size:42
Alignment explanation
Indices: 104529--105144 Score: 888
Period size: 41 Copynumber: 14.9 Consensus size: 42
104519 GTCTAGGAGT
*
104529 ATTTAC-TTTTCAAAGT--TCGCTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGT-GGTGCCTCTGTTTAGAGGAGCA
*
104569 ATTTA-TTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
104609 ATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
104651 ATTTACTTTTTCAAAGT-TTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
104692 ATTTA-TTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
* *
104733 ATTTA-TTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
104775 ATTTACTTTCT-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
104816 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
104857 ATTTATTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
104899 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
104941 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
104982 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
105024 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
105065 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
105106 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
105145 ACTTCGGCAA
Statistics
Matches: 528, Mismatches: 28, Indels: 38
0.89 0.05 0.06
Matches are distributed among these distances:
40 61 0.12
41 250 0.47
42 206 0.39
43 11 0.02
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (42 bp):
ATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Done.