Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_pilon, 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: 1420948
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:4787 original size:2 final size:2
Alignment explanation
Indices: 4780--4823 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
4770 TCAATCTACA
*
4780 AT AT AT AT A- AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4821 AT A
1 AT A
4824 ATTTACGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5002 original size:13 final size:13
Alignment explanation
Indices: 4984--5042 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
4974 GCGCAATGAG
4984 CGTCATAAATGCA
1 CGTCATAAATGCA
* *
4997 CATCATAAATGCG
1 CGTCATAAATGCA
5010 CGTCATAAATGCA
1 CGTCATAAATGCA
* * *
5023 TGTCATAAATACG
1 CGTCATAAATGCA
5036 CGTCATA
1 CGTCATA
5043 GATTTATAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.25
Consensus pattern (13 bp):
CGTCATAAATGCA
Found at i:5007 original size:26 final size:26
Alignment explanation
Indices: 4978--5042 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
4968 AATGACGCGC
4978 AATGAGCGTCATAAATGCACATCATA
1 AATGAGCGTCATAAATGCACATCATA
* **
5004 AATGCGCGTCATAAATGCATGTCATA
1 AATGAGCGTCATAAATGCACATCATA
5030 AAT-ACGCGTCATA
1 AATGA-GCGTCATA
5043 GATTTATAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (26 bp):
AATGAGCGTCATAAATGCACATCATA
Found at i:5244 original size:2 final size:2
Alignment explanation
Indices: 5237--5269 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5227 TATATTGATT
5237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5270 CGTATGACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7621 original size:10 final size:11
Alignment explanation
Indices: 7594--7655 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 11
7584 AACTGTTGAG
7594 AATGAAAAGAAT
1 AATG-AAAGAAT
7606 AATGAAAGAA-
1 AATGAAAGAAT
7616 AATGAAA-AAT
1 AATGAAAGAAT
7626 AGA-GAAAGAA-
1 A-ATGAAAGAAT
7636 AATGAAA-AAT
1 AATGAAAGAAT
7646 AGA-GAAAGAA
1 A-ATGAAAGAA
7656 AATTAAAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
9 5 0.12
10 22 0.51
11 12 0.28
12 4 0.09
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.11
Consensus pattern (11 bp):
AATGAAAGAAT
Found at i:7626 original size:20 final size:20
Alignment explanation
Indices: 7609--7663 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
7599 AAAGAATAAT
7609 GAAAGAAAATGAAAAATAGA
1 GAAAGAAAATGAAAAATAGA
7629 GAAAGAAAATGAAAAATAGA
1 GAAAGAAAATGAAAAATAGA
*
7649 GAAAGAAAATTAAAA
1 GAAAGAAAATGAAAA
7664 GACAAAGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (20 bp):
GAAAGAAAATGAAAAATAGA
Found at i:10031 original size:18 final size:18
Alignment explanation
Indices: 10008--10044 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9998 TTATTTGATG
10008 TTAGTTTATATAGATATA
1 TTAGTTTATATAGATATA
10026 TTAGTTTATATAGATATA
1 TTAGTTTATATAGATATA
10044 T
1 T
10045 AGGAGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAGTTTATATAGATATA
Found at i:18032 original size:18 final size:18
Alignment explanation
Indices: 18009--18060 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
17999 AAAGGCGATG
18009 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
18027 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
18045 GCGGCATCATATATGG
1 GCGGCATCATATATGG
18061 TTGTGGTGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:19928 original size:12 final size:10
Alignment explanation
Indices: 19914--19954 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
19904 TACCTTAAAA
*
19914 GAGAGTATTT
1 GAGAGAATTT
19924 GAGAGAAATTT
1 GAGAG-AATTT
19935 -AGAGAATTT
1 GAGAGAATTT
19944 GAGAGAATTT
1 GAGAGAATTT
19954 G
1 G
19955 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:20131 original size:50 final size:50
Alignment explanation
Indices: 20077--20174 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
20067 AGATATTCAG
** *
20077 GTATAGCGCGGATTAAGGGGCGCACTATACCCACGTGACGCCAGATCACC
1 GTATAGCGCGGAGCAAGGGGCGCACTATACCCACGTGACGCCAAATCACC
* * * ** *
20127 GTATATCGCGGGGCAGGGGGCGCGTTATACCCACGTGGCGCCAAATCA
1 GTATAGCGCGGAGCAAGGGGCGCACTATACCCACGTGACGCCAAATCA
20175 GCATATAACA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.23, C:0.29, G:0.32, T:0.16
Consensus pattern (50 bp):
GTATAGCGCGGAGCAAGGGGCGCACTATACCCACGTGACGCCAAATCACC
Found at i:20193 original size:50 final size:50
Alignment explanation
Indices: 20093--20202 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
20083 CGCGGATTAA
** * * * *
20093 GGGGCGCACTATACCCACGTGACGCCAGATCACCGTATATCGCGGGGCAG
1 GGGGCGCGTTATACCCACGTGACGCCAAATCACCATATAACACGGGGCAG
* * *
20143 GGGGCGCGTTATACCCACGTGGCGCCAAATCAGCATATAACACGGTGCAG
1 GGGGCGCGTTATACCCACGTGACGCCAAATCACCATATAACACGGGGCAG
20193 GGGGCGCGTT
1 GGGGCGCGTT
20203 TTCCTGCTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.22, C:0.29, G:0.34, T:0.15
Consensus pattern (50 bp):
GGGGCGCGTTATACCCACGTGACGCCAAATCACCATATAACACGGGGCAG
Found at i:23358 original size:36 final size:34
Alignment explanation
Indices: 23293--23360 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 34
23283 CTCTAGGCCC
*
23293 ATAAGGAATTCCAGCTGATTGATGTTGAACCTAT
1 ATAAGGAATTCCAGCTGATTGATGCTGAACCTAT
23327 ATAAGGAATTACCAGCTTGATTAGA-GCTGAACCT
1 ATAAGGAATT-CCAGC-TGATT-GATGCTGAACCT
23361 GCAGAGACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 10 0.33
35 5 0.17
36 13 0.43
37 2 0.07
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (34 bp):
ATAAGGAATTCCAGCTGATTGATGCTGAACCTAT
Found at i:27509 original size:20 final size:20
Alignment explanation
Indices: 27440--27513 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 20
27430 AAGGTAAATT
*
27440 GTGCATCGATGCA-TG-GGTA
1 GTGCATCGATGCACTGTAG-A
27459 GTGCATCGATGCACATGTTAAAGA
1 GTGCATCGATGCAC-TG-T--AGA
*
27483 ATGCATCGATGCACTGTAGA
1 GTGCATCGATGCACTGTAGA
27503 GTGCATCGATG
1 GTGCATCGATG
27514 TACTTCAAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 13 0.28
20 13 0.28
21 2 0.04
22 1 0.02
23 2 0.04
24 14 0.30
25 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (20 bp):
GTGCATCGATGCACTGTAGA
Found at i:28364 original size:18 final size:18
Alignment explanation
Indices: 28341--28446 Score: 167
Period size: 18 Copynumber: 5.9 Consensus size: 18
28331 GAGAGTCTAC
28341 ATGGTCCTTCGGGACATA
1 ATGGTCCTTCGGGACATA
28359 ATGGTCCTTCGGGACATA
1 ATGGTCCTTCGGGACATA
*
28377 GTGGTCCTTCGGGACATA
1 ATGGTCCTTCGGGACATA
*
28395 ATGGTCCTTCGGGACACA
1 ATGGTCCTTCGGGACATA
*
28413 GTGGTCCTTCGGGACATA
1 ATGGTCCTTCGGGACATA
* *
28431 GTGGTCCTACGGGACA
1 ATGGTCCTTCGGGACA
28447 AATTCTACGC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 82 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (18 bp):
ATGGTCCTTCGGGACATA
Found at i:28423 original size:54 final size:54
Alignment explanation
Indices: 28341--28446 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
28331 GAGAGTCTAC
* *
28341 ATGGTCCTTCGGGACATAATGGTCCTTCGGGACATAGTGGTCCTTCGGGACATA
1 ATGGTCCTTCGGGACACAATGGTCCTTCGGGACATAGTGGTCCTACGGGACATA
*
28395 ATGGTCCTTCGGGACACAGTGGTCCTTCGGGACATAGTGGTCCTACGGGACA
1 ATGGTCCTTCGGGACACAATGGTCCTTCGGGACATAGTGGTCCTACGGGACA
28447 AATTCTACGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (54 bp):
ATGGTCCTTCGGGACACAATGGTCCTTCGGGACATAGTGGTCCTACGGGACATA
Found at i:30298 original size:57 final size:57
Alignment explanation
Indices: 30226--30340 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
30216 GGCCCAAAGG
* *
30226 GCGTATATGTCAACCTAAGAGAGCACCTTGGGTTCATAAGGTCTTACCCTAGCCGAA
1 GCGTATATGCCAACCTAAGAGAGCACCTTGGGTACATAAGGTCTTACCCTAGCCGAA
*
30283 GCGTATGTGCCAACCTAAGAGAGCACCTTGGGTACATAAGGTCTTACCCTAGCCGAA
1 GCGTATATGCCAACCTAAGAGAGCACCTTGGGTACATAAGGTCTTACCCTAGCCGAA
30340 G
1 G
30341 TATAGGTGCC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (57 bp):
GCGTATATGCCAACCTAAGAGAGCACCTTGGGTACATAAGGTCTTACCCTAGCCGAA
Found at i:32193 original size:51 final size:51
Alignment explanation
Indices: 32131--32232 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
32121 TTAAATAATT
* * * *
32131 ATATTTATAAAGTGTATGTACATCATCAATAATTATTGACAACGAATATCA
1 ATATTTATAAAGTATAGGTACATCATCAATAATTATCGACAACAAATATCA
* * *
32182 ATATTTGTAAAGTATAGGTATATTATCAATAATTATCGACAACAAATATCA
1 ATATTTATAAAGTATAGGTACATCATCAATAATTATCGACAACAAATATCA
32233 GTACGTAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (51 bp):
ATATTTATAAAGTATAGGTACATCATCAATAATTATCGACAACAAATATCA
Found at i:32470 original size:2 final size:2
Alignment explanation
Indices: 32463--32494 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32453 TACACAAATA
32463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32495 TATTCGTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36743 original size:2 final size:2
Alignment explanation
Indices: 36736--36762 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36726 CATAATGTCT
36736 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
36763 CTGTGTTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38987 original size:53 final size:54
Alignment explanation
Indices: 38880--38988 Score: 121
Period size: 53 Copynumber: 2.0 Consensus size: 54
38870 TTTAAATTAA
* * * * * ***
38880 TTTAAAATTAAACTTTCATACAAATATCAAACATTATATCATAAGTTTTGATAT
1 TTTAAAATTAAAATTTCATACAAATATCAAACATCAAAACATAAATTCCAATAT
* *
38934 TTTAAAATTAAAATTTCATA-AAGTATCAAATATCAAAACATAAATTCCAATAT
1 TTTAAAATTAAAATTTCATACAAATATCAAACATCAAAACATAAATTCCAATAT
38987 TT
1 TT
38989 GTTATTTTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
53 26 0.58
54 19 0.42
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.39
Consensus pattern (54 bp):
TTTAAAATTAAAATTTCATACAAATATCAAACATCAAAACATAAATTCCAATAT
Found at i:42342 original size:20 final size:20
Alignment explanation
Indices: 42295--42425 Score: 140
Period size: 20 Copynumber: 6.5 Consensus size: 20
42285 GCGATTTTCC
* *
42295 GACTATCGCAATGCGAATAT
1 GACTATCGCAACGCGATTAT
* *
42315 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAACGCGATTAT
42335 GACTATCGCAACGCGATTCA-
1 GACTATCGCAACGCGATT-AT
* *
42355 GACTATCGCAACGAGATTCT
1 GACTATCGCAACGCGATTAT
**
42375 GACTATCGCAACGCGATGCT
1 GACTATCGCAACGCGATTAT
**
42395 GACTATCGCAACGCGATGCT
1 GACTATCGCAACGCGATTAT
42415 GACTATCGCAA
1 GACTATCGCAA
42426 TACGATTTTC
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.01
20 96 0.97
21 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (20 bp):
GACTATCGCAACGCGATTAT
Found at i:42431 original size:20 final size:20
Alignment explanation
Indices: 42319--42425 Score: 160
Period size: 20 Copynumber: 5.3 Consensus size: 20
42309 GAATATGTAA
* *
42319 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
42339 ATCGCAACGCGATTCAGACT
1 ATCGCAACGCGATTCTGACT
*
42359 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
42379 ATCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
*
42399 ATCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
42419 ATCGCAA
1 ATCGCAA
42426 TACGATTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:42633 original size:22 final size:22
Alignment explanation
Indices: 42608--42650 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
42598 GGCGACATCC
42608 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
42630 GTCCCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
42651 CGTCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:43127 original size:20 final size:20
Alignment explanation
Indices: 43038--43144 Score: 110
Period size: 20 Copynumber: 5.5 Consensus size: 20
43028 AGAATCGCAA
*
43038 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
43057 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** **
43076 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
43096 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
* *
43116 TGCGATTTTCATTTTTGTGT
1 TGCGATTTTCATTTTCGCGT
43136 TGCGATTTT
1 TGCGATTTT
43145 AAGTTTCAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
19 26 0.34
20 51 0.66
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:43338 original size:25 final size:26
Alignment explanation
Indices: 43284--43338 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
43274 TTATGTTTAT
* *
43284 TGTTCTTGGTATATCTTCACAGTGTA
1 TGTTTTTGGTATATCTTAACAGTGTA
43310 -GTTTTTGGTATATC-TAACA-TGGTA
1 TGTTTTTGGTATATCTTAACAGT-GTA
43334 TGTTT
1 TGTTT
43339 ATTGTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 7 0.28
25 17 0.68
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACAGTGTA
Found at i:44892 original size:18 final size:18
Alignment explanation
Indices: 44869--44918 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
44859 TTTACTCGTA
44869 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
44887 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
44905 ATTTCACTTAGATT
1 ATTTCACTTAGATT
44919 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:45396 original size:268 final size:269
Alignment explanation
Indices: 44915--45407 Score: 889
Period size: 268 Copynumber: 1.8 Consensus size: 269
44905 ATTTCACTTA
*
44915 GATTGCTTAGTAAATTCATTCTGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
*
44980 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTATCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
45045 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACAAAAGAATCGCAATGCG
131 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACAAAAGAATCGCAATGCG
*
45110 AAATGAAAATCTCATTGCGATTCTCTCGTTGCGAAAGTAAACTATTTATTCTTCTGCAAATTGAA
196 AAATGAAAATCGCATTGCGATTCTCTCGTTGCGAAAGTAAACTATTTATTCTTCTGCAAATTGAA
45175 ACTTGAATG
261 ACTTGAATG
* *
45184 GATTGCTTAGTAAATTCATTCGGTTGCTGTCAATACTGCTAAATTGTTTATTCTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
45249 AAGTTAGTATTTG-TTTTGGTTATCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTATCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
* * * *
45313 CATAAGAAGAATAGTTTACTTTTGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAATGCG
131 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACAAAAGAATCGCAATGCG
*
45378 AAATTAAAATCGCATTGCGATTCTCTCGTT
196 AAATGAAAATCGCATTGCGATTCTCTCGTT
45408 ACGATAGTCA
Statistics
Matches: 214, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
268 139 0.65
269 75 0.35
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (269 bp):
GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
AAGTTAGTATTTGTTTTTGGTTATCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACAAAAGAATCGCAATGCG
AAATGAAAATCGCATTGCGATTCTCTCGTTGCGAAAGTAAACTATTTATTCTTCTGCAAATTGAA
ACTTGAATG
Found at i:45446 original size:18 final size:19
Alignment explanation
Indices: 45404--45450 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
45394 GCGATTCTCT
*
45404 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTC-AATTCG
45424 CGTTGCGATAGTC-ATTCG
1 CGTTGCGATAGTCAATTCG
*
45442 TGTTGCGAT
1 CGTTGCGAT
45451 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
20 12 0.48
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTCG
Found at i:46203 original size:13 final size:13
Alignment explanation
Indices: 46185--46218 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
46175 GAAGTGGAGA
46185 GGAAACAACTACC
1 GGAAACAACTACC
46198 GGAAACAACTACC
1 GGAAACAACTACC
46211 GGAAACAA
1 GGAAACAA
46219 TTCTGGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.26, G:0.18, T:0.06
Consensus pattern (13 bp):
GGAAACAACTACC
Found at i:56515 original size:36 final size:36
Alignment explanation
Indices: 56474--56577 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
56464 AGTTGAGTAT
*
56474 TATCAGCTTTGGTACATTCTTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
56510 TATCAGCTTTGGTATATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
56546 TATCAGCTTTGGTACATTCGTGTATCAATGTT
1 TATCAGCTTTGGTACATTCGTGTATCAATGTT
56578 CAGCACCGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.44
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:58393 original size:14 final size:14
Alignment explanation
Indices: 58356--58417 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
58346 TTGCTTGTTT
*
58356 AATTGATTTATAAA
1 AATTGATTTGTAAA
58370 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* * *
58384 AGTTGTTTTGTTTAA
1 AATTGATTTG-TAAA
* *
58399 TATTGATGTGTAAA
1 AATTGATTTGTAAA
58413 TAATT
1 -AATT
58418 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 24 0.67
15 12 0.33
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:58569 original size:20 final size:20
Alignment explanation
Indices: 58516--58569 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
58506 AGGTACACTT
* **
58516 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGACAAAA
**
58536 TCGCAATACGAAAGACAAAA
1 TCGCAACGCGAAAGACAAAA
58556 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
58570 TCAATTCGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.26, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGACAAAA
Found at i:58585 original size:19 final size:20
Alignment explanation
Indices: 58563--58605 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
58553 AAATCGCAAC
*
58563 GCGAAAGTC-AATTCGCGTT
1 GCGAAAGTCTAATACGCGTT
* *
58582 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCGTT
58602 GCGA
1 GCGA
58606 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCGTT
Found at i:58838 original size:14 final size:14
Alignment explanation
Indices: 58816--58861 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
58806 CGTTCGTGAA
58816 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
58830 CGTTTGGTTATGTT
1 CGTTCGGTTATGTT
*
58844 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
58858 CGTT
1 CGTT
58862 TATGTTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.09, C:0.13, G:0.26, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:59632 original size:16 final size:16
Alignment explanation
Indices: 59605--59662 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
59595 GGGTCTTCAA
59605 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
* *
59621 CATTTATATTCGTGTT
1 CGTTTATGTTCGTGTT
*
59637 CGTTTTTGTTCGTGTT
1 CGTTTATGTTCGTGTT
59653 CGTTTATGTT
1 CGTTTATGTT
59663 TGTTTATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.59
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:59756 original size:16 final size:16
Alignment explanation
Indices: 59735--59765 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
59725 AAAAAAATTT
59735 TGTTCGTTTATGTTCA
1 TGTTCGTTTATGTTCA
59751 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
59766 GTTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCA
Found at i:59865 original size:20 final size:20
Alignment explanation
Indices: 59835--60048 Score: 196
Period size: 20 Copynumber: 11.7 Consensus size: 20
59825 TACAGGCCTA
*
59835 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
59855 ACGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
59875 GCGAT--T----TTCTCGTT
1 GCGATAGTCAAATTCGCGTT
* *
59889 GCGATAGTCAAATACCCGTT
1 GCGATAGTCAAATTCGCGTT
*
59909 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
59929 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
59949 GCGAT--T----TTTGCGTT
1 GCGATAGTCAAATTCGCGTT
59963 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
59983 GCGAT--T----TT-GAGTT
1 GCGATAGTCAAATTCGCGTT
*
59996 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
60016 ACGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
60036 GCGATATTCAAAT
1 GCGATAGTCAAAT
60049 GAATGTGTAG
Statistics
Matches: 157, Mismatches: 18, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
13 9 0.06
14 26 0.17
15 1 0.01
16 2 0.01
18 3 0.02
19 2 0.01
20 114 0.73
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCGTT
Found at i:59899 original size:34 final size:33
Alignment explanation
Indices: 59850--60020 Score: 198
Period size: 34 Copynumber: 4.9 Consensus size: 33
59840 AATCAAATTC
*
59850 GCGTTACGATAGTCAAATTCGCGTTGCGATTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTT
* * *
59883 CTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATT
1 -GCGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TT
59923 CGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
1 -GCGTTGCGATAGTCAAATTCGCGTTGCGA-TTTT
59958 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTT
* * *
59991 GAGTTGCGATAATCAAATTCGCGTTACGAT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGAT
60021 AGTCAAATTC
Statistics
Matches: 120, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
33 31 0.26
34 55 0.46
35 2 0.02
36 1 0.01
39 1 0.01
40 29 0.24
41 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (33 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGATTTT
Found at i:59920 original size:54 final size:54
Alignment explanation
Indices: 59835--60046 Score: 225
Period size: 54 Copynumber: 3.9 Consensus size: 54
59825 TACAGGCCTA
**
59835 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTCTCGTT
1 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTCAAGTT
* * * * * ** *
59889 GCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATT
1 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTCAAGTT
** * * *
59943 CGCG-T--TGCGATTTTTGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-GAGTT
1 -GCGATAAT-C-AAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTCAAGTT
*
59996 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATATTCAA
1 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTCAA
60047 ATGAATGTGT
Statistics
Matches: 125, Mismatches: 26, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
52 4 0.03
53 39 0.31
54 78 0.62
55 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (54 bp):
GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTCAAGTT
Found at i:59956 original size:74 final size:74
Alignment explanation
Indices: 59835--59987 Score: 263
Period size: 74 Copynumber: 2.1 Consensus size: 74
59825 TACAGGCCTA
59835 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCA
1 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTT-TGCGTTGCGATAGTCA
59899 AATACCCGTT
65 AATACCCGTT
*
59909 GCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCAA
1 GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCAA
* *
59974 ATTCGCGTT
66 ATACCCGTT
59983 GCGAT
1 GCGAT
59988 TTTGAGTTGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
73 1 0.01
74 74 0.99
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (74 bp):
GCGATAATCAAATTCGCGTTACGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGATAGTCAA
ATACCCGTT
Found at i:59997 original size:33 final size:33
Alignment explanation
Indices: 59926--60020 Score: 154
Period size: 33 Copynumber: 2.8 Consensus size: 33
59916 TCAAATTCGC
*
59926 GTTGCGATAGTCAAATTCGCGTTGCGATTTTTGC
1 GTTGCGATAGTCAAATTCGCGTTGCGA-TTTTGA
59960 GTTGCGATAGTCAAATTCGCGTTGCGATTTTGA
1 GTTGCGATAGTCAAATTCGCGTTGCGATTTTGA
* *
59993 GTTGCGATAATCAAATTCGCGTTACGAT
1 GTTGCGATAGTCAAATTCGCGTTGCGAT
60021 AGTCAAATTC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 31 0.53
34 27 0.47
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (33 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATTTTGA
Found at i:60271 original size:140 final size:140
Alignment explanation
Indices: 60019--60288 Score: 495
Period size: 140 Copynumber: 1.9 Consensus size: 140
60009 TCGCGTTACG
* * * *
60019 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAGTAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCACGTTGCGATATTCAAAAGAATGTGTAATAAGTGATAACAACTGAACAGATCA
60084 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
60149 AATACACATA
131 AATACACATA
60159 ATAGTCAAATTCACGTTGCGATATTCAAAAGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACGTTGCGATATTCAAAAGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
60224 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAGAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
60289 TAAAACGTTT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCACGTTGCGATATTCAAAAGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:60363 original size:12 final size:12
Alignment explanation
Indices: 60348--60378 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60338 AAGCCGGTTG
*
60348 TGATTGGGATTT
1 TGATTGCGATTT
60360 TGATTGCGATTT
1 TGATTGCGATTT
60372 TGATTGC
1 TGATTGC
60379 CTTTTTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.48
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:62428 original size:14 final size:14
Alignment explanation
Indices: 62409--62445 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
62399 TCCCGTGGCA
62409 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
62423 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
62437 TTCTTCTTC
1 TT-TTCTTC
62446 TTCTTCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:63531 original size:20 final size:20
Alignment explanation
Indices: 63506--63572 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
63496 GAAATTCAGT
*
63506 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
63526 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
*
63546 GTTGCGATAGTCATAATCGC
1 GTTGCGATAGTCAGAATCGC
*
63566 ATTGCGA
1 GTTGCGA
63573 ATTACATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:63580 original size:20 final size:20
Alignment explanation
Indices: 63557--63635 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
63547 TTGCGATAGT
*
63557 CATAATCGCATTGCGAATTA
1 CATATTCGCATTGCGAATTA
*
63577 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGAATTA
*
63597 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGAATTA
63617 CATATTCGCATTGCGAATT
1 CATATTCGCATTGCGAATT
63636 CGGAAAATCG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
CATATTCGCATTGCGAATTA
Found at i:63591 original size:40 final size:40
Alignment explanation
Indices: 63547--63632 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
63537 CAGAATCTCG
63547 TTGCGATAGT-CATAATCGCATTGCGAATTACATATTCGCA
1 TTGCGAT-GTACATAATCGCATTGCGAATTACATATTCGCA
* * *
63587 TTGCGATTTACATATTCGCATTGCGATTTACATATTCGCA
1 TTGCGATGTACATAATCGCATTGCGAATTACATATTCGCA
63627 TTGCGA
1 TTGCGA
63633 ATTCGGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (40 bp):
TTGCGATGTACATAATCGCATTGCGAATTACATATTCGCA
Found at i:65668 original size:16 final size:16
Alignment explanation
Indices: 65647--65679 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65637 TAATAAATAA
*
65647 ACGAACATAAGCGAAC
1 ACGAACATAAACGAAC
65663 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
65679 A
1 A
65680 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.24, G:0.15, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:65770 original size:10 final size:10
Alignment explanation
Indices: 65755--65822 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 10
65745 CATTTAAATG
65755 ATAAACGAAC
1 ATAAACGAAC
65765 ATAAACGAACAC
1 ATAAACG-A-AC
*
65777 AAACGAACGAAC
1 ATA--AACGAAC
*
65789 ATAAACAAAC
1 ATAAACGAAC
65799 ATAATAAACGAAC
1 ---ATAAACGAAC
65812 ATAAACGAAC
1 ATAAACGAAC
65822 A
1 A
65823 ACACAAACAC
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
10 24 0.51
11 1 0.02
12 8 0.17
13 10 0.21
14 4 0.09
ACGTcount: A:0.62, C:0.21, G:0.09, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:70595 original size:35 final size:35
Alignment explanation
Indices: 70518--70595 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 35
70508 TTCTAGGAAT
*
70518 ACAAAAGTTAGTATTTTACAGTGCCGGAGAACAGA
1 ACAAAAGGTAGTATTTTACAGTGCCGGAGAACAGA
* *
70553 AGC-AAAGGTGGTATTTTACA-T-CCTAGGAGAAGAGA
1 A-CAAAAGGTAGTATTTTACAGTGCC--GGAGAACAGA
70588 ACAAAAGG
1 ACAAAAGG
70596 GAACTTTGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
33 2 0.06
34 2 0.06
35 31 0.86
36 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (35 bp):
ACAAAAGGTAGTATTTTACAGTGCCGGAGAACAGA
Found at i:73056 original size:2 final size:2
Alignment explanation
Indices: 73049--73096 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
73039 CTTTAAGAAT
73049 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73091 TA -A TA T
1 TA TA TA T
73097 GTATTAAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:74929 original size:13 final size:13
Alignment explanation
Indices: 74911--74945 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
74901 AAATAATTAA
74911 ATTTTAAACTATT
1 ATTTTAAACTATT
74924 ATTTTAAACTATT
1 ATTTTAAACTATT
74937 ATTTTAAAC
1 ATTTTAAAC
74946 AACACTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTTAAACTATT
Found at i:76005 original size:64 final size:63
Alignment explanation
Indices: 75920--76041 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
75910 ATTTATTATT
* * *
75920 TATTTAACTTTGAATATTAAAATATAATTGTATA-CTTTTAAATATTTCAAATTAAAATAATTTC
1 TATTTAACTTTAAATAGTAAAA-AGAATT-TATATCTTTTAAATATTTCAAATTAAAATAATTTC
* * *
75984 TATTTAAGTTTAAATAGTAAAAGGAATTTATATCTTTTGAATATTTCAAATTAAAATA
1 TATTTAACTTTAAATAGTAAAAAGAATTTATATCTTTTAAATATTTCAAATTAAAATA
76042 TATTATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 4 0.08
63 28 0.55
64 19 0.37
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (63 bp):
TATTTAACTTTAAATAGTAAAAAGAATTTATATCTTTTAAATATTTCAAATTAAAATAATTTC
Found at i:76069 original size:132 final size:130
Alignment explanation
Indices: 75838--76073 Score: 309
Period size: 132 Copynumber: 1.8 Consensus size: 130
75828 TTAAGTATTA
* **
75838 AAATTAAAATATATTATTTAATTTAAATATTAGTAGGATAATTAATCTTTTAATATGTCAAATTA
1 AAATTAAAATATATTATTTAATTTAAATAGTAAAAGGATAATTAATCTTTTAATATGTCAAATTA
75903 AAAAGATATTTATTATTTATTTAACTTTGAATATTAAAATATAATTGTATACTTTTAAATATTTC
66 AAAAGATATTTATTATTTATTTAACTTTGAATATTAAAATATAATTGTATACTTTTAAATATTTC
* * *
75968 AAATTAAAATAATTTCTATTTAAGTTTAAATAGTAAAAGGA-ATTTATATCTTTTGAATATTTCA
1 AAATTAAAAT-ATAT-TATTTAA-TTTAAATAGTAAAAGGATAATTA-ATCTTTT-AATATGTCA
* * *
76032 AATT-AAAATATA-TTATTATTTGTTTATA-TTTGGATATTAAAA
61 AATTAAAAAGATATTTATTATTTATTTA-ACTTTGAATATTAAAA
76074 GATACATGGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
130 10 0.11
131 3 0.03
132 37 0.41
133 29 0.32
134 12 0.13
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (130 bp):
AAATTAAAATATATTATTTAATTTAAATAGTAAAAGGATAATTAATCTTTTAATATGTCAAATTA
AAAAGATATTTATTATTTATTTAACTTTGAATATTAAAATATAATTGTATACTTTTAAATATTTC
Found at i:78792 original size:56 final size:55
Alignment explanation
Indices: 78717--78839 Score: 133
Period size: 56 Copynumber: 2.2 Consensus size: 55
78707 TGCATTTCAA
* *
78717 GCATCGATTCACATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAAT
1 GCATCGATGCACATACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAAT
* * * *
78773 GCATCGATGCAC-TATCCATGCATCGATGTACTCTGGCTATTTTGAAACATCGAAT
1 GCATCGATGCACATA-CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAAT
*
78828 GCACTTGATGCA
1 GCA-TCGATGCA
78840 TCGATGCACT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
55 16 0.28
56 38 0.67
57 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (55 bp):
GCATCGATGCACATACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAAT
Found at i:84576 original size:22 final size:22
Alignment explanation
Indices: 84548--84601 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
84538 ACACCTAACA
84548 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
84570 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
*
84592 ATGCATCGAT
1 GTGCATCGAT
84602 ACACCATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:84621 original size:13 final size:13
Alignment explanation
Indices: 84603--84632 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
84593 TGCATCGATA
84603 CACCATGAAGGTG
1 CACCATGAAGGTG
84616 CACCATGAAGGTG
1 CACCATGAAGGTG
84629 CACC
1 CACC
84633 GATGCACGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.27, T:0.13
Consensus pattern (13 bp):
CACCATGAAGGTG
Found at i:87410 original size:64 final size:66
Alignment explanation
Indices: 87254--87413 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 66
87244 AATTAAATTG
* * *
87254 AACATCGAATGCATTTCATGCATCGATTCA-CATACCATGCACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGA
87318 A
66 A
* * * *
87319 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATG
87382 -A
65 AA
**
87383 AACATCGAATGCGCTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
87414 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 30 0.36
65 49 0.58
66 5 0.06
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGA
A
Found at i:91409 original size:550 final size:550
Alignment explanation
Indices: 90364--91469 Score: 2131
Period size: 550 Copynumber: 2.0 Consensus size: 550
90354 TATCTCGTGA
*
90364 ACCCATGGAGTGGGTTCACTAGATGGGAAAAACTGTAGAGAATTCATGACCATAATTGAAATCAA
1 ACCCGTGGAGTGGGTTCACTAGATGGGAAAAACTGTAGAGAATTCATGACCATAATTGAAATCAA
90429 ATTTCTGGTCGTAGCGGGAGTCATGTTGACAAGAGCTCATCCAATTGTTCATCAATCATCTTCAT
66 ATTTCTGGTCGTAGCGGGAGTCATGTTGACAAGAGCTCATCCAATTGTTCATCAATCATCTTCAT
* *
90494 CTCCATATAAAGTAGGCCTTCATAGAAGTACTAGAGAAGATTCTGTTCAGTTAAACCGTGTTGTA
131 CTCCATATAAAGTAGGCCTTCATAGAAGTACTAGAGAAGAGTATGTTCAGTTAAACCGTGTTGTA
*
90559 AACAACTAGCGCAGAGTTTCTTGAAACTTTCCAAATAGTCATATAATGGCTCATTATTTTTCTGT
196 AACAACTAGCGCAGAGTTTCTTGAAACTTTCCAAATAGTCATATAATGACTCATTATTTTTCTGT
90624 TGGACTCCTAATATACTTCTCCTTAATCTGCTTTCTTTTGTAGCAGAAAAGAACCTGTCAAGAAA
261 TGGACTCCTAATATACTTCTCCTTAATCTGCTTTCTTTTGTAGCAGAAAAGAACCTGTCAAGAAA
90689 CAATAGAGTCATATTAGTCCATGTAGTAACTAAATTATGCAGTAAATAAAATAATCAATCCTTAG
326 CAATAGAGTCATATTAGTCCATGTAGTAACTAAATTATGCAGTAAATAAAATAATCAATCCTTAG
90754 CCAAATCGGCTAAGGCAAAAGGAAATACGCGAAGTTTAATATGATCCTCAGATACTCCATGTGGT
391 CCAAATCGGCTAAGGCAAAAGGAAATACGCGAAGTTTAATATGATCCTCAGATACTCCATGTGGT
90819 TTCATGCTTGAGCAGTAAACCATGTAAAATTCTATGAGATGTTTGTGCGGTTTTTCATTTGGCAA
456 TTCATGCTTGAGCAGTAAACCATGTAAAATTCTATGAGATGTTTGTGCGGTTTTTCATTTGGCAA
90884 ACCATGGAAGGTCGACAGAAGATTAATTAG
521 ACCATGGAAGGTCGACAGAAGATTAATTAG
*
90914 ACCCGTGGAGTGGGTTCACTAGATGGGCAAAACTGTAGAGAATTCATGACCATAATTGAAATCAA
1 ACCCGTGGAGTGGGTTCACTAGATGGGAAAAACTGTAGAGAATTCATGACCATAATTGAAATCAA
90979 ATTTCTGGTCGTAGCGGGAGTCATGTTGACAAGAGCTCATCCAATTGTTCATCAATCATCTTCAT
66 ATTTCTGGTCGTAGCGGGAGTCATGTTGACAAGAGCTCATCCAATTGTTCATCAATCATCTTCAT
* * *
91044 CTCCATATAAAGTAGGCCTTCATATATGTACTAGAGAAGAGTATGTTCAGTTAAACTGTGTTGTA
131 CTCCATATAAAGTAGGCCTTCATAGAAGTACTAGAGAAGAGTATGTTCAGTTAAACCGTGTTGTA
91109 AACAACTAGCGCAGAGTTTCTTGAAACTTTCCAAATAGTCATATAATGACTCATTATTTTTCTGT
196 AACAACTAGCGCAGAGTTTCTTGAAACTTTCCAAATAGTCATATAATGACTCATTATTTTTCTGT
91174 TGGACTCCTAATATACTTCTCCTTAATCTGCTTTCTTTTGTAGCAGAAAAGAACCTGTCAAGAAA
261 TGGACTCCTAATATACTTCTCCTTAATCTGCTTTCTTTTGTAGCAGAAAAGAACCTGTCAAGAAA
91239 CAATAGAGTCATATTAGTCCATGTAGTAACTAAATTATGCAGTAAATAAAATAATCAATCCTTAG
326 CAATAGAGTCATATTAGTCCATGTAGTAACTAAATTATGCAGTAAATAAAATAATCAATCCTTAG
91304 CCAAATCGGCTAAGGCAAAAGGAAATACGCGAAGTTTAATATGATCCTCAGATACTCCATGTGGT
391 CCAAATCGGCTAAGGCAAAAGGAAATACGCGAAGTTTAATATGATCCTCAGATACTCCATGTGGT
*
91369 TTCATGCTTGAGCAGTAAACCATGTAAAATTCTGTGAGATGTTTGTGCGGTTTTTCATTTGGCAA
456 TTCATGCTTGAGCAGTAAACCATGTAAAATTCTATGAGATGTTTGTGCGGTTTTTCATTTGGCAA
91434 ACCATGGAAGGTCGACAGAAGATTAATTAG
521 ACCATGGAAGGTCGACAGAAGATTAATTAG
91464 ACCCGT
1 ACCCGT
91470 CTTAAGTCCG
Statistics
Matches: 547, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
550 547 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (550 bp):
ACCCGTGGAGTGGGTTCACTAGATGGGAAAAACTGTAGAGAATTCATGACCATAATTGAAATCAA
ATTTCTGGTCGTAGCGGGAGTCATGTTGACAAGAGCTCATCCAATTGTTCATCAATCATCTTCAT
CTCCATATAAAGTAGGCCTTCATAGAAGTACTAGAGAAGAGTATGTTCAGTTAAACCGTGTTGTA
AACAACTAGCGCAGAGTTTCTTGAAACTTTCCAAATAGTCATATAATGACTCATTATTTTTCTGT
TGGACTCCTAATATACTTCTCCTTAATCTGCTTTCTTTTGTAGCAGAAAAGAACCTGTCAAGAAA
CAATAGAGTCATATTAGTCCATGTAGTAACTAAATTATGCAGTAAATAAAATAATCAATCCTTAG
CCAAATCGGCTAAGGCAAAAGGAAATACGCGAAGTTTAATATGATCCTCAGATACTCCATGTGGT
TTCATGCTTGAGCAGTAAACCATGTAAAATTCTATGAGATGTTTGTGCGGTTTTTCATTTGGCAA
ACCATGGAAGGTCGACAGAAGATTAATTAG
Found at i:93279 original size:98 final size:98
Alignment explanation
Indices: 93110--93304 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
93100 ATAAATAAAC
* * *
93110 AATGAGAAATAATTATCAACAAAATATGTGCAAATTAAAACACTCATCATTATTCTATTCTTGTA
1 AATGAGAAATAATTATCAACAAAATATGTGCAAATTAAAACACTCATAATTATTATATGCTTGTA
93175 TGTTGATTAAATGGTAAAACGTACCAAAGACAA
66 TGTTGATTAAATGGTAAAACGTACCAAAGACAA
93208 AATGAGAAATAATTATCAACAAAATATGTGCAAATTAAAACACTCATAATTATTATATGCTTGTA
1 AATGAGAAATAATTATCAACAAAATATGTGCAAATTAAAACACTCATAATTATTATATGCTTGTA
93273 TGTTGATTAAATGGTAAAACGTACCAAAGACA
66 TGTTGATTAAATGGTAAAACGTACCAAAGACA
93305 TGTTAAATTC
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (98 bp):
AATGAGAAATAATTATCAACAAAATATGTGCAAATTAAAACACTCATAATTATTATATGCTTGTA
TGTTGATTAAATGGTAAAACGTACCAAAGACAA
Found at i:96808 original size:36 final size:36
Alignment explanation
Indices: 96708--96885 Score: 178
Period size: 36 Copynumber: 4.9 Consensus size: 36
96698 AGTCACAGTC
**
96708 TTCTTAAAACAAATTTTATCTCGCTTGAGATGGTTT
1 TTCTTAAAACAAATTTTATCTCGCTTGAGATTATTT
** ** ** *
96744 CACTCGAAACATAAAGTTATCTCACTTGAGATTATTT
1 TTCTTAAAACA-AATTTTATCTCGCTTGAGATTATTT
96781 TTCTTAAAACAAATTTTATCTCGCTTGAGA-TAGTTT
1 TTCTTAAAACAAATTTTATCTCGCTTGAGATTA-TTT
** * * * *
96817 CACTCGAAACATAAACTTTATCTCACTTGAGATTATTT
1 TTCT-TAAA-ACAAATTTTATCTCGCTTGAGATTATTT
96855 TTCTTAAAACAAATTTTATCTCGCTTGAGAT
1 TTCTTAAAACAAATTTTATCTCGCTTGAGAT
96886 GGTTTCACTC
Statistics
Matches: 109, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
35 2 0.02
36 48 0.44
37 33 0.30
38 24 0.22
39 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (36 bp):
TTCTTAAAACAAATTTTATCTCGCTTGAGATTATTT
Found at i:96846 original size:38 final size:39
Alignment explanation
Indices: 96720--97543 Score: 698
Period size: 39 Copynumber: 21.5 Consensus size: 39
96710 CTTAAAACAA
* *
96720 ATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAA-
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * ** * *
96758 A-GTTATCTCACTTGAGATTA-TTTTTCT-TAAA-ACAA-
1 ATTTTATCTCGCTTGAGA-TAGTTTCACTCGAAACAGAAG
*
96793 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACATAA-
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * ** * *
96831 ACTTTATCTCACTTGAGATTA-TTTTTCT-TAAA-ACAA-
1 ATTTTATCTCGCTTGAGA-TAGTTTCACTCGAAACAGAAG
* *
96867 ATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAA-
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * * * **
96905 ACTTTATCTCACTTGATATTGTTT--TTC-TTAC---AG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * * * *
96938 ACTTTATCTCGCTTGAGACAATTTTTACTCGAAATA-AGAC
1 ATTTTATCTCGCTTGAGA-TAGTTTCACTCGAAACAGA-AG
* * * ** * ** * **
96978 ATTTCATTTCACTCAAGATTGTTTTTCT-TAAA-ATTAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
*
97015 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
97054 ATATTATCTCGCTTGAGATAATTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
97093 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAAAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
*
97132 A-TTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
97170 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
97209 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
97248 A-TTCATCTCGCTTGAGATAGTTTCACTCGAAACAGCTTGAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG---AAG
*
97289 ATAGTTTCACTCGAAACAGCTTGAGATAGTTTCACTCGAAACAGAAG
1 AT--TTT-A-TC---TC-GCTTGAGATAGTTTCACTCGAAACAGAAG
*
97336 ATTTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* *
97375 A-TTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * *
97413 ATTTTATCTCACTTGAGATAGTTTCACTTGAAACAGAAT
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
* * * ** * *
97452 A-TTTAGCTCACTTGAGATTGTTTTTCT-TAAA-ACAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
** * *
97488 A-TTCGTCTCGCTTGAGATAGTTTCACTTGAAACATAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
*
97526 A-TTTATCTCACTTGAGAT
1 ATTTTATCTCGCTTGAGAT
97544 TTTTTTATTT
Statistics
Matches: 638, Mismatches: 112, Indels: 72
0.78 0.14 0.09
Matches are distributed among these distances:
32 1 0.00
33 16 0.03
34 3 0.00
35 9 0.01
36 73 0.11
37 57 0.09
38 199 0.31
39 221 0.35
40 14 0.02
41 3 0.00
43 2 0.00
44 3 0.00
45 4 0.01
46 2 0.00
47 4 0.01
49 1 0.00
50 26 0.04
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (39 bp):
ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAG
Found at i:96990 original size:147 final size:145
Alignment explanation
Indices: 96708--97281 Score: 458
Period size: 155 Copynumber: 3.8 Consensus size: 145
96698 AGTCACAGTC
96708 TTCTTAAAACAAATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAAAGTTATCTCACTTGA
1 TTCTTAAAACAAATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAAAGTTATCTCACTTGA
* *
96773 GATTATTTTTCTTAAAACAAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAACTTTAT
66 GATTATTTTTCTT--AACAAACTTTATCTCGCTTGAGAAAGTTTCACTCGAAACATAAACTTTAT
**
96838 CTCACTTGAGATTATTT
129 CTCACTCAAGATTATTT
*
96855 TTCTTAAAACAAATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAAACTTTATCTCACTTG
1 TTCTTAAAACAAATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAAA-GTTATCTCACTTG
* * * * *
96920 ATATTGTTTTTCTT-ACAGACTTTATCTCGCTTGAGACAATTTTTACTCG-AA-ATAAGACATTT
65 AGATTATTTTTCTTAACAAACTTTATCTCGCTTGAGA-AAGTTTCACTCGAAACATAA-AC-TTT
* *
96982 CATTTCACTCAAGATTGTTT
127 -ATCTCACTCAAGATTATTT
* * * * * * *
97002 TTCTTAAAATTAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATATTATCTCGCT
1 TTCTTAAAA-CAAATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAA-A-GTTATCTCACT
* * ** * * *
97067 TGAGATAATTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAATA-AAA
63 TGAGATTATTT--TTCTTAAC--AA-ACTTTATCTCGCTTGAGAAAGTTTCACTCGAAACATAAA
* * * **
97131 GATTCATCTCGCTTGAGA-TAGTTT
123 -CTTTATCTCACTCAAGATTA-TTT
** * * * * * *
97155 CACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCG
1 TTCT-TAAA-ACAA-ATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAA-A-GTTATCTCA
* ** * * *
97220 CTTGAGA-TAGTTTCACTCGAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACA
61 CTTGAGATTA-TTT--TTCTTAACA-AA-CTTTATCTCGCTTGAGAAAGTTTCACTCGAAACA
97282 GCTTGAGATA
Statistics
Matches: 355, Mismatches: 49, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
144 4 0.01
145 24 0.07
146 12 0.03
147 75 0.21
148 60 0.17
149 18 0.05
151 2 0.01
152 3 0.01
153 16 0.05
154 50 0.14
155 90 0.25
156 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (145 bp):
TTCTTAAAACAAATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAAAGTTATCTCACTTGA
GATTATTTTTCTTAACAAACTTTATCTCGCTTGAGAAAGTTTCACTCGAAACATAAACTTTATCT
CACTCAAGATTATTT
Found at i:97145 original size:116 final size:116
Alignment explanation
Indices: 96723--97543 Score: 711
Period size: 116 Copynumber: 7.1 Consensus size: 116
96713 AAAACAAATT
* * * **
96723 TTATCTCGCTTGAGATGGTTTCACTCGAAACATAA-A-GTTATCTCACTTGAGATTA-TTTTTCT
1 TTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGA-TAGTTTCACT
** * * *
96785 TAAAACA-AA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACATAA-ACT-
65 CGAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TA
* ** * * * *
96834 TTATCTCACTTGAGATTA-TTTTTCT-TAAA-ACAA-ATTTTATCTCGCTTGAGATGGTTTCACT
1 TTATCTCGCTTGAGA-TAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACT
* * * * * * ** *
96895 CGAAACATAA-ACTTTATCTCACTTGATATTGTTT--TTC-TTACAG-A-CT-
65 CGAAACAGAAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATA
* * * * * * * ** * **
96941 TTATCTCGCTTGAGACAATTTTTACTCGAAATA-AGACATTTCATTTCACTCAAGATTGTTTTTC
1 TTATCTCGCTTGAGA-TAGTTTCACTCGAAACAGA-AGATTTTATCTCACTTGAGATAGTTTCAC
* ** * *
97005 T-TAAA-ATTAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATA
64 TCGAAACAGAAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATA
* *
97057 TTATCTCGCTTGAGATAATTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTC
1 TTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTC
* * *
97122 GAAATAAAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATT
66 GAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATA
*
97173 TTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTC
1 TTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTC
*
97238 GAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGCTTGAGATA
66 GAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAG---AAGATA
*
97292 GTTTCACTCGAAACAGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAG
1 --TT-A-TC---TC-GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAG
* *
97357 TTTCACTCGAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATT
58 TTTCACTCGAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATA
* * * * * **
97416 TTATCTCACTTGAGATAGTTTCACTTGAAACAGAATA-TTTAGCTCACTTGAGATTGTTTTTCT-
1 TTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTC
* * * * *
97479 TAAA-ACAAGATTCGTCTCGCTTGAGATAGTTTCACTTGAAACATAAGAT-
66 GAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATA
*
97528 TTATCTCACTTGAGAT
1 TTATCTCGCTTGAGAT
97544 TTTTTTATTT
Statistics
Matches: 592, Mismatches: 87, Indels: 61
0.80 0.12 0.08
Matches are distributed among these distances:
107 16 0.03
108 7 0.01
109 15 0.03
110 54 0.09
111 41 0.07
112 38 0.06
113 45 0.08
114 4 0.01
115 57 0.10
116 190 0.32
117 5 0.01
119 4 0.01
120 2 0.00
121 3 0.01
122 3 0.01
123 2 0.00
124 4 0.01
126 1 0.00
127 101 0.17
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (116 bp):
TTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTC
GAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATA
Found at i:97178 original size:77 final size:77
Alignment explanation
Indices: 96720--97543 Score: 708
Period size: 77 Copynumber: 10.7 Consensus size: 77
96710 CTTAAAACAA
* *
96720 ATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAAAG--TTATCTCACTTGAGATTA-TTTT
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAGATTTATCTCACTTGAGA-TAGTTTC
* * *
96782 TCT-TAAA-ACAA-
64 ACTCGAAACAGAAG
* *
96793 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAA-CTTTATCTCACTTGAGATTA-TTTT
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAGATTTATCTCACTTGAGA-TAGTTTC
* * *
96856 TCT-TAAA-ACAA-
64 ACTCGAAACAGAAG
* * * *
96867 ATTTTATCTCGCTTGAGATGGTTTCACTCGAAACATAAA-CTTTATCTCACTTGATATTGTTT--
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAGATTTATCTCACTTGAGATAGTTTCA
* **
96929 TTC-TTAC---AG
65 CTCGAAACAGAAG
* * * * * * * * ** * *
96938 ACTTTATCTCGCTTGAGACAATTTTTACTCGAAATAAGACATTTCATTTCACTCAAGATTGTTTT
1 ATTTTATCTCGCTTGAGA-TAGTTTCACTCGAAACAAAAGATTT-ATCTCACTTGAGATAGTTTC
* * **
97003 TCT-TAAA-ATTAG
64 ACTCGAAACAGAAG
* * * *
97015 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATATTATCTCGCTTGAGATAATTTCA
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGAT-TTATCTCACTTGAGATAGTTTCA
97080 CTCGAAACAGAAG
65 CTCGAAACAGAAG
* * *
97093 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAAAAGATTCATCTCGCTTGAGATAGTTTCAC
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATAGTTTCAC
97158 TCGAAACAGAAG
66 TCGAAACAGAAG
* *
97170 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCA
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA-TTTATCTCACTTGAGATAGTTTCA
97235 CTCGAAACAGAAG
65 CTCGAAACAGAAG
* *
97248 A-TTCATCTCGCTTGAGATAGTTTCACTCGAAACAGCTTGAGATAG-TTTCACTCGAAACAGCTT
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACA-----A-A-AGATTT-A-TC---TCA-CTT
97311 GAGATAGTTTCACTCGAAACAGAAG
53 GAGATAGTTTCACTCGAAACAGAAG
* * * *
97336 ATTTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTCATCTCGCTTGAGATAGTTTCAC
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATAGTTTCAC
*
97401 TCGAAACATAAG
66 TCGAAACAGAAG
* * * * * * **
97413 ATTTTATCTCACTTGAGATAGTTTCACTTGAAACAGAATATTTAGCTCACTTGAGATTGTTTTTC
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATAGTTTCAC
* *
97478 T-TAAA-ACAAG
66 TCGAAACAGAAG
** * *
97488 A-TTCGTCTCGCTTGAGATAGTTTCACTTGAAACATAAGATTTATCTCACTTGAGAT
1 ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGAT
97544 TTTTTTATTT
Statistics
Matches: 644, Mismatches: 73, Indels: 67
0.82 0.09 0.09
Matches are distributed among these distances:
70 1 0.00
71 19 0.03
72 17 0.03
73 54 0.08
74 139 0.22
75 7 0.01
76 35 0.05
77 213 0.33
78 81 0.13
81 2 0.00
82 6 0.01
83 5 0.01
84 4 0.01
87 1 0.00
88 29 0.05
89 31 0.05
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (77 bp):
ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATAGTTTCAC
TCGAAACAGAAG
Found at i:97291 original size:25 final size:25
Alignment explanation
Indices: 97257--97332 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
97247 GATTCATCTC
97257 GCTTGAGATAGTTTCACTCGAAACA
1 GCTTGAGATAGTTTCACTCGAAACA
97282 GCTTGAGATAGTTTCACTCGAAACA
1 GCTTGAGATAGTTTCACTCGAAACA
97307 GCTTGAGATAGTTTCACTCGAAACA
1 GCTTGAGATAGTTTCACTCGAAACA
97332 G
1 G
97333 AAGATTTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (25 bp):
GCTTGAGATAGTTTCACTCGAAACA
Found at i:97357 original size:243 final size:240
Alignment explanation
Indices: 97064--97521 Score: 736
Period size: 243 Copynumber: 1.9 Consensus size: 240
97054 ATATTATCTC
* *
97064 GCTTGAGATAATTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAA
1 GCTTGAGATAATTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAA
*
97129 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTT
66 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
* * *
97194 CACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTCATCTCGC
131 CACTCGAAACAGAAGA-TTTAGCTCACTTGAGATAGTTTCACT-GAAA-ACAAGATTCATCTCGC
97259 TTGAGATAGTTTCACTCGAAACAGCTTGAGATAGTTTCACTCGAAACA
193 TTGAGATAGTTTCACTCGAAACAGCTTGAGATAGTTTCACTCGAAACA
* *
97307 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAG
1 GCTTGAGATAATTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAA
*
97372 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCACTTGAGATAGTTT
66 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
* * * ** * *
97437 CACTTGAAACAGAATATTTAGCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCGTCTCGCTTG
131 CACTCGAAACAGAAGATTTAGCTCACTTGAGATAGTTTCACTGAAAACAAGATTCATCTCGCTTG
*
97502 AGATAGTTTCACTTGAAACA
196 AGATAGTTTCACTCGAAACA
97522 TAAGATTTAT
Statistics
Matches: 198, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
240 36 0.18
241 3 0.02
242 21 0.11
243 138 0.70
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (240 bp):
GCTTGAGATAATTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAA
AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
CACTCGAAACAGAAGATTTAGCTCACTTGAGATAGTTTCACTGAAAACAAGATTCATCTCGCTTG
AGATAGTTTCACTCGAAACAGCTTGAGATAGTTTCACTCGAAACA
Found at i:97397 original size:204 final size:204
Alignment explanation
Indices: 97103--97474 Score: 611
Period size: 204 Copynumber: 1.8 Consensus size: 204
97093 ATTTTATCTC
* *
97103 GCTTGAGATAGTTTCACTCGAAATAAAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGA
1 GCTTGAGATAGTTTCACTCGAAACAAAAGATTCATCTCACTTGAGATAGTTTCACTCGAAACAGA
* *
97168 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTT
66 AGATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
* *
97233 CACTCGAAACAGAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGCTTGAGATAGTTTCA
131 CACTCGAAACAGAAGATTCAGCTCACTTGAGATAGTTTCACTCGAAACAGCTTGAGATAGTTTCA
97298 CTCGAAACA
196 CTCGAAACA
* *
97307 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAG
1 GCTTGAGATAGTTTCACTCGAAACAAAAGA-TTCATCTCACTTGAGATAGTTTCACTCGAAACAG
*
97372 AAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCACTTGAGATAGTT
65 AAGATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTT
* * * *
97436 TCACTTGAAACAGAATATTTAGCTCACTTGAGATTGTTT
130 TCACTCGAAACAGAAGATTCAGCTCACTTGAGATAGTTT
97475 TTCTTAAAAC
Statistics
Matches: 154, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
204 118 0.77
205 36 0.23
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (204 bp):
GCTTGAGATAGTTTCACTCGAAACAAAAGATTCATCTCACTTGAGATAGTTTCACTCGAAACAGA
AGATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
CACTCGAAACAGAAGATTCAGCTCACTTGAGATAGTTTCACTCGAAACAGCTTGAGATAGTTTCA
CTCGAAACA
Found at i:97430 original size:166 final size:166
Alignment explanation
Indices: 97141--97448 Score: 546
Period size: 166 Copynumber: 1.9 Consensus size: 166
97131 GATTCATCTC
*
97141 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
1 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAG
* *
97206 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTCATCTCGCTTGAGATAGTTT
66 AAGATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTCATCTCACTTGAGATAGTTT
97271 CACTCGAAACAGCTTGAGATAGTTTCACTCGAAACA
131 CACTCGAAACAGCTTGAGATAGTTTCACTCGAAACA
97307 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAG
1 GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAG
* *
97372 AAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCACTTGAGATAGTT
66 AAGATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTCATCTCACTTGAGATAGTT
*
97436 TCACTTGAAACAG
130 TCACTCGAAACAG
97449 AATATTTAGC
Statistics
Matches: 135, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
165 36 0.27
166 99 0.73
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (166 bp):
GCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAG
AAGATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTCATCTCACTTGAGATAGTTT
CACTCGAAACAGCTTGAGATAGTTTCACTCGAAACA
Found at i:97560 original size:113 final size:116
Alignment explanation
Indices: 97308--97543 Score: 336
Period size: 113 Copynumber: 2.1 Consensus size: 116
97298 CTCGAAACAG
** * *
97308 CTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAGA
1 CTTGAGATAGTTTCACTTAAAACAGAAGATTTTAGCTCACTTGAGATAGTTTCACTCGAAACACA
97373 AGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCA
66 AGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCA
* * * ** *
97424 CTTGAGATAGTTTCACTTGAAACAGAATA-TTTAGCTCACTTGAGATTGTTTTTCT-TAAA-ACA
1 CTTGAGATAGTTTCACTTAAAACAGAAGATTTTAGCTCACTTGAGATAGTTTCACTCGAAACACA
* *
97486 AGATTCGTCTCGCTTGAGATAGTTTCACTTGAAACATAAGA-TTTATCTCA
66 AGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCA
97536 CTTGAGAT
1 CTTGAGAT
97544 TTTTTTATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
112 17 0.15
113 41 0.37
114 3 0.03
115 22 0.20
116 27 0.25
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (116 bp):
CTTGAGATAGTTTCACTTAAAACAGAAGATTTTAGCTCACTTGAGATAGTTTCACTCGAAACACA
AGATTCATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCA
Found at i:97636 original size:59 final size:59
Alignment explanation
Indices: 97567--97710 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 59
97557 AACAAACTAC
*
97567 GCCTCACTTGAGGGATTAACATTTCCTTTGCTCGATTCACAACACTTT-GAATCAGCAAT
1 GCCTCACTTGAGGGATCAACATTTCCTTTGCTCGATTCACAACA-TTTCGAATCAGCAAT
* * * * **
97626 GCCTCACTTGAGGGATCAACATTTTCTTTTCTTGATTCACGACATTTCGAATCAGCGGT
1 GCCTCACTTGAGGGATCAACATTTCCTTTGCTCGATTCACAACATTTCGAATCAGCAAT
* *
97685 GCCTCACTCGAGTGA-CGAACATTTCC
1 GCCTCACTTGAGGGATC-AACATTTCC
97711 AGTAGAAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 4 0.05
59 69 0.95
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (59 bp):
GCCTCACTTGAGGGATCAACATTTCCTTTGCTCGATTCACAACATTTCGAATCAGCAAT
Found at i:124443 original size:3 final size:3
Alignment explanation
Indices: 124435--124461 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
124425 ATACTATGAG
124435 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
124462 GAAAAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:125982 original size:14 final size:15
Alignment explanation
Indices: 125946--125982 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
125936 TTTTATCTTC
*
125946 TAATAATTTATATAA
1 TAATAATTTAAATAA
125961 TAAT-ATTTAAATAA
1 TAATAATTTAAATAA
125975 -AATAATTT
1 TAATAATTT
125983 TCAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 13 0.65
15 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATAATTTAAATAA
Found at i:127487 original size:20 final size:20
Alignment explanation
Indices: 127462--127508 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
127452 GTTCAACTTG
*
127462 TAAAATAT-AGTTATAAAACA
1 TAAAATATGA-TTATAAAAAA
127482 TAAAATATGTATTATAAAAAA
1 TAAAATATG-ATTATAAAAAA
127503 TAAAAT
1 TAAAAT
127509 TCTAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 15 0.62
22 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (20 bp):
TAAAATATGATTATAAAAAA
Found at i:132387 original size:24 final size:24
Alignment explanation
Indices: 132351--132396 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
132341 GTAAACGGAG
*
132351 ATATCAAAAATCAAAATAGAATTC
1 ATATCAAAAATCAAAACAGAATTC
* * *
132375 ATATCAGATATCAGAACAGAAT
1 ATATCAAAAATCAAAACAGAAT
132397 CTAGATCAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (24 bp):
ATATCAAAAATCAAAACAGAATTC
Found at i:134069 original size:17 final size:18
Alignment explanation
Indices: 134047--134083 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
134037 TCTTATGCAC
134047 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
134064 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
134082 AT
1 AT
134084 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:135772 original size:24 final size:24
Alignment explanation
Indices: 135745--135853 Score: 123
Period size: 24 Copynumber: 4.5 Consensus size: 24
135735 AAACGAAGAT
*
135745 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
135769 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
135793 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
135817 GTAATG-TATCAGAACAGAATTCA-
1 ATCA-GAAATCAGAACAGAATTCAG
135840 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
135854 TAAAATATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
23 1 0.01
24 68 0.97
25 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:135774 original size:12 final size:12
Alignment explanation
Indices: 135747--135816 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
135737 ACGAAGATAT
* *
135747 CAGAAATCAAAA
1 CAGAATTCAGAA
*
135759 CAGAATTCAGAT
1 CAGAATTCAGAA
*
135771 CAG-ATATCATAA
1 CAGAAT-TCAGAA
* *
135783 CAGAATCCAGAT
1 CAGAATTCAGAA
*
135795 CAGAAATCAGAA
1 CAGAATTCAGAA
135807 CAGAATTCAG
1 CAGAATTCAG
135817 GTAATGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:135816 original size:48 final size:47
Alignment explanation
Indices: 135745--135853 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 47
135735 AAACGAAGAT
* * *
135745 ATCAGAAATCAAAACAGAATTCAGATCA-GATATCATAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGATAATG-TATCAGAACAGAATCCA
* *
135792 GATCAGAAATCAGAACAGAATTCAGGTAATGTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGATAATGTATCAGAACAGAATCCA
135840 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
135854 TAAAATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 1 0.02
48 52 0.96
49 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.19
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGATAATGTATCAGAACAGAATCCA
Found at i:141063 original size:32 final size:32
Alignment explanation
Indices: 141022--141208 Score: 172
Period size: 31 Copynumber: 5.9 Consensus size: 32
141012 AGTCGAAGGT
*
141022 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTTCGGAACATATGGACAGAA
*
141054 TTACCTATG-TCTTTCGGGACATATGGACAGAA
1 TTACCTATGTTC-TTCGGAACATATGGACAGAA
**
141086 TTACCTATG-TCTTTTGAGACATATGGAC--AA
1 TTACCTATGTTCTTCGGA-ACATATGGACAGAA
* *
141116 TATACCTATGTTC-TCAGAAACATATGGACAGTA
1 T-TACCTATGTTCTTC-GGAACATATGGACAGAA
*** *
141149 -TACCTATGTTCTAAAGAACATATGGACAG-T
1 TTACCTATGTTCTTCGGAACATATGGACAGAA
* * *
141179 TTACCTAGGTTCTTCGGGACCTATGGACAG
1 TTACCTATGTTCTTCGGAACATATGGACAG
141209 TTGCCGAGGT
Statistics
Matches: 126, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
30 3 0.02
31 71 0.56
32 51 0.40
33 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
TTACCTATGTTCTTCGGAACATATGGACAGAA
Found at i:141204 original size:62 final size:63
Alignment explanation
Indices: 141022--141209 Score: 195
Period size: 62 Copynumber: 3.0 Consensus size: 63
141012 AGTCGAAGGT
** * *
141022 TTACCTATGTTCTACGGAACATATGGACAGAATTACCTATG-TCTTTCGGGACATATGGACAGAA
1 TTACCTATGTTCTAAAGAACATATGGACAG-TTTACCTATGTTC-TTCGGGACATATGGACAGTA
*** * * **
141086 TTACCTATG-TCTTTTGAGACATATGGACAATATACCTATGTTC-TCAGAAACATATGGACAGTA
1 TTACCTATGTTCTAAAGA-ACATATGGACAGTTTACCTATGTTCTTC-GGGACATATGGACAGTA
* *
141149 -TACCTATGTTCTAAAGAACATATGGACAGTTTACCTAGGTTCTTCGGGACCTATGGACAGT
1 TTACCTATGTTCTAAAGAACATATGGACAGTTTACCTATGTTCTTCGGGACATATGGACAGT
141210 TGCCGAGGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
62 45 0.45
63 34 0.34
64 22 0.22
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (63 bp):
TTACCTATGTTCTAAAGAACATATGGACAGTTTACCTATGTTCTTCGGGACATATGGACAGTA
Found at i:145617 original size:20 final size:20
Alignment explanation
Indices: 145581--145631 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
145571 ACCCCTTTTT
*
145581 AGTATCGGTAC-CAAGGGT-
1 AGTATCGATACTCAAGGGTC
145599 AGGTATCGATACTCAAGGGTC
1 A-GTATCGATACTCAAGGGTC
*
145620 AGTACCGATACT
1 AGTATCGATACT
145632 GAATGACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 9 0.32
20 17 0.61
21 1 0.04
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
AGTATCGATACTCAAGGGTC
Found at i:147916 original size:20 final size:20
Alignment explanation
Indices: 147887--147924 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
147877 ATCCATTCGG
147887 GTCAAACTTTAGATTTTTTT
1 GTCAAACTTTAGATTTTTTT
*
147907 GTCAATCTTTAGATTTTT
1 GTCAAACTTTAGATTTTT
147925 AGATTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (20 bp):
GTCAAACTTTAGATTTTTTT
Found at i:148655 original size:13 final size:14
Alignment explanation
Indices: 148634--148665 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
148624 TAGATTAAAA
148634 AATATAATATTTAT
1 AATATAATATTTAT
148648 AATA-AATATTTAT
1 AATATAATATTTAT
148661 AATAT
1 AATAT
148666 CAAATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATATAATATTTAT
Found at i:149535 original size:13 final size:14
Alignment explanation
Indices: 149517--149545 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
149507 ATTTATATAA
149517 TATTATAT-ATTAT
1 TATTATATAATTAT
149530 TATTATATAATTAT
1 TATTATATAATTAT
149544 TA
1 TA
149546 CAAGACTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATATAATTAT
Found at i:158108 original size:59 final size:60
Alignment explanation
Indices: 158005--158127 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 60
157995 TCAAGAAAAT
* *
158005 TAAATCCTCCGGGTCATTTGTAAAACATCCGGGTCATTTATAAAACCTCC-TGGTCATTTG
1 TAAAACCTCCGGGTCATTTGTAAAACATCCGGGTCATTTATAAAACCTCCAT-GTAATTTG
* * *
158065 TAAAACCTCCGGGTTATTT-TTAAA-ATCTCGGGTCATTTGTAAAACCTCCATGTAATTTG
1 TAAAACCTCCGGGTCATTTGTAAAACATC-CGGGTCATTTATAAAACCTCCATGTAATTTG
158124 TAAA
1 TAAA
158128 TCATTCAGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
58 3 0.05
59 35 0.62
60 18 0.32
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (60 bp):
TAAAACCTCCGGGTCATTTGTAAAACATCCGGGTCATTTATAAAACCTCCATGTAATTTG
Found at i:158124 original size:20 final size:20
Alignment explanation
Indices: 158005--158127 Score: 149
Period size: 20 Copynumber: 6.2 Consensus size: 20
157995 TCAAGAAAAT
*
158005 TAAATCCTCCGGGTCATTTG
1 TAAAACCTCCGGGTCATTTG
* *
158025 TAAAACATCCGGGTCATTTA
1 TAAAACCTCCGGGTCATTTG
*
158045 TAAAACCTCCTGGTCATTTG
1 TAAAACCTCCGGGTCATTTG
* *
158065 TAAAACCTCCGGGTTATTTT
1 TAAAACCTCCGGGTCATTTG
*
158085 TAAAATCT-CGGGTCATTTG
1 TAAAACCTCCGGGTCATTTG
** *
158104 TAAAACCTCCATGTAATTTG
1 TAAAACCTCCGGGTCATTTG
158124 TAAA
1 TAAA
158128 TCATTCAGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
19 16 0.19
20 70 0.81
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATTTG
Found at i:158383 original size:88 final size:88
Alignment explanation
Indices: 158230--158416 Score: 250
Period size: 88 Copynumber: 2.1 Consensus size: 88
158220 TCATTCGTAA
* * * * *
158230 AACCTTCACGGAAGAGTAGTAAAGTAATTCAACCTCGAATCTGATCTTCATGGAAGAGTAATGAA
1 AACCTTCACGGAAGAGTAGTAAAGTAATCCAACCTCAAATCTAATATTCACGGAAGAGTAATGAA
158295 ACAGATTCTTC-TCAAGCTAATTC
66 ACAGATTCTTCTTC-AGCTAATTC
* * * * *
158318 AACCTTCATGGAAGAGTTGTGAAGTAATCCAACCTCAAATCTAATATTCACGGAGGAGTAGTGAA
1 AACCTTCACGGAAGAGTAGTAAAGTAATCCAACCTCAAATCTAATATTCACGGAAGAGTAATGAA
* *
158383 ACATATTCTTCTTCAGTTAATTC
66 ACAGATTCTTCTTCAGCTAATTC
158406 AACCTTCACGG
1 AACCTTCACGG
158417 GTAGTGAAGT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 83 0.98
89 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (88 bp):
AACCTTCACGGAAGAGTAGTAAAGTAATCCAACCTCAAATCTAATATTCACGGAAGAGTAATGAA
ACAGATTCTTCTTCAGCTAATTC
Found at i:158466 original size:36 final size:35
Alignment explanation
Indices: 158401--158497 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 35
158391 TTCTTCAGTT
158401 AATTCAACCTTCACG--G-GTAGTGAAGTAATTCA
1 AATTCAACCTTCACGAAGAGTAGTGAAGTAATTCA
* *
158433 AATTCAACCTTCACAGAAGAGTAGTGAATTAATTTA
1 AATTCAACCTTCAC-GAAGAGTAGTGAAGTAATTCA
* * *
158469 AGTCCAGCCTTCACGGAAGAGTAGTGAAG
1 AATTCAACCTTCAC-GAAGAGTAGTGAAG
158498 CAGGAGCAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 14 0.26
33 1 0.02
35 1 0.02
36 38 0.70
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (35 bp):
AATTCAACCTTCACGAAGAGTAGTGAAGTAATTCA
Found at i:160584 original size:17 final size:16
Alignment explanation
Indices: 160562--160598 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
160552 TATAAGCATC
160562 CAAATTCAAACAATCCA
1 CAAATTCAAAC-ATCCA
160579 CAAATTCAAACATCCA
1 CAAATTCAAACATCCA
160595 -AAAT
1 CAAAT
160599 GTTAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 5 0.25
17 11 0.55
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (16 bp):
CAAATTCAAACATCCA
Found at i:167040 original size:99 final size:99
Alignment explanation
Indices: 166869--167067 Score: 362
Period size: 99 Copynumber: 2.0 Consensus size: 99
166859 TAGCTATGAG
166869 TTAGAAGACTAATTTTAGATTCTTTTACCTCGTCGGTGCCTTCATGAGTGACTTGTAGTTTGTCC
1 TTAGAAGACTAATTTTAGATTCTTTTACCTCGTCGGTGCCTTCATGAGTGACTTGTAGTTTGTCC
* *
166934 CATATCTCATTGGCGGTTGTACATGATGAAACTC
66 CATATCTCATTGGCGGTTGCACAAGATGAAACTC
*
166968 TTAGAAGACTAATTTTAGATTCTTTTACCTTGTCGGTGCCTTCATGAGTGACTTGTAGTTTGTCC
1 TTAGAAGACTAATTTTAGATTCTTTTACCTCGTCGGTGCCTTCATGAGTGACTTGTAGTTTGTCC
*
167033 CATATCTCCTTGGCGGTTGCACAAGATGAAACTC
66 CATATCTCATTGGCGGTTGCACAAGATGAAACTC
167067 T
1 T
167068 CCCATATTCA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (99 bp):
TTAGAAGACTAATTTTAGATTCTTTTACCTCGTCGGTGCCTTCATGAGTGACTTGTAGTTTGTCC
CATATCTCATTGGCGGTTGCACAAGATGAAACTC
Found at i:170721 original size:18 final size:18
Alignment explanation
Indices: 170698--170732 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
170688 TATTATAAAA
170698 AAATTGTTATCCTTTACC
1 AAATTGTTATCCTTTACC
170716 AAATTGTTATCCTTTAC
1 AAATTGTTATCCTTTAC
170733 ATTTAATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.46
Consensus pattern (18 bp):
AAATTGTTATCCTTTACC
Found at i:177361 original size:19 final size:19
Alignment explanation
Indices: 177337--177388 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
177327 TAATAGTTTA
177337 AATTCAAAATCTTTGTTCG
1 AATTCAAAATCTTTGTTCG
177356 AATTCAAAATCTTTGTTCG
1 AATTCAAAATCTTTGTTCG
177375 AATTCAAAATCTTT
1 AATTCAAAATCTTT
177389 AAAGAGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (19 bp):
AATTCAAAATCTTTGTTCG
Found at i:179361 original size:17 final size:17
Alignment explanation
Indices: 179341--179373 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
179331 ATATTTATTT
*
179341 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
179358 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
179374 TATGGTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:179411 original size:16 final size:17
Alignment explanation
Indices: 179392--179428 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
179382 TAAAATATTA
179392 TTTTA-AATAATTAC-AT
1 TTTTACAATAA-TACTAT
179408 TTTTACAATAATACTAT
1 TTTTACAATAATACTAT
179425 TTTT
1 TTTT
179429 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTACAATAATACTAT
Found at i:179489 original size:23 final size:24
Alignment explanation
Indices: 179442--179491 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
179432 ATCACATAAA
* **
179442 ATTATAAATAGTAAAATATTGAAT
1 ATTAAAAATAGTAAAATATAAAAT
179466 ATTAAAAATA-TAAAATATAAAAT
1 ATTAAAAATAGTAAAATATAAAAT
179489 ATT
1 ATT
179492 TTAAGTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
ATTAAAAATAGTAAAATATAAAAT
Found at i:180519 original size:41 final size:41
Alignment explanation
Indices: 180468--180550 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
180458 AGTAAGAAAA
* *
180468 TTTCAGATTACGAGTGTTCGTCTATTCATGATCTCAAGAAT
1 TTTCAGATTACAAGTGTTCATCTATTCATGATCTCAAGAAT
180509 TTTCAGATTACAAGTGTTCATCTATTCATGATCTCAAGAAT
1 TTTCAGATTACAAGTGTTCATCTATTCATGATCTCAAGAAT
180550 T
1 T
180551 ACTCCAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (41 bp):
TTTCAGATTACAAGTGTTCATCTATTCATGATCTCAAGAAT
Found at i:181557 original size:23 final size:24
Alignment explanation
Indices: 181520--181565 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
181510 TTCGATATTG
181520 AAAAAATATTAAAATAATTTATTTT
1 AAAAAATATTAAAATAA-TTATTTT
*
181545 AAAAAATA-T-AAATTATTATTT
1 AAAAAATATTAAAATAATTATTT
181566 ATCATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 5 0.25
24 1 0.05
25 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAAATATTAAAATAATTATTTT
Found at i:183059 original size:3 final size:3
Alignment explanation
Indices: 183051--183112 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
183041 AATATATATT
* *
183051 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
183099 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
183113 TGGATAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:183785 original size:113 final size:113
Alignment explanation
Indices: 183432--184094 Score: 1149
Period size: 113 Copynumber: 5.9 Consensus size: 113
183422 TGATAGTATC
* *
183432 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
** * * *
183496 TCATTATGAACCTTCTCTGGCAA---AAAT-AATCAAGTGATGAATTC
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
* *
183540 AAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
183605 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
*
183654 AAATAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
183719 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
183767 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
183832 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
183880 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
183945 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
183993 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
184058 TCATTATGAA-CTTATCTGGCAATGAATGATCCATCAA
66 TCATTATGAACCTTCTCTGGCAATG-TTGATCCATCAA
184095 GTGGATTTGA
Statistics
Matches: 533, Mismatches: 15, Indels: 9
0.96 0.03 0.02
Matches are distributed among these distances:
108 4 0.01
109 63 0.12
110 17 0.03
112 13 0.02
113 355 0.67
114 81 0.15
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
Found at i:184902 original size:84 final size:84
Alignment explanation
Indices: 184804--185327 Score: 987
Period size: 84 Copynumber: 6.2 Consensus size: 84
184794 TTCATCTTTT
* * *
184804 AATTCCAACGATTGGTTCTGTCC-AACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 AATT-CAATGATTGGTTCTG-CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
184868 ATTGAGCAAATTCATCTTCCA
64 ATTGAGCAAATTCATCTTCCA
184889 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
184954 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
184973 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
185038 TGAGCAAATTCATATTCCA
66 TGAGCAAATTCATCTTCCA
185057 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
185122 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
185141 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
185206 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
185225 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
185290 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
185309 AATTCAATGATTGGTTCTG
1 AATTCAATGATTGGTTCTG
185328 AGATATCACA
Statistics
Matches: 433, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
83 2 0.00
84 427 0.99
85 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (84 bp):
AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
TGAGCAAATTCATCTTCCA
Found at i:197205 original size:6 final size:7
Alignment explanation
Indices: 197186--197210 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
197176 TAAATATATA
197186 AATTTTT
1 AATTTTT
197193 AATTTTT
1 AATTTTT
197200 AATTTTT
1 AATTTTT
197207 AATT
1 AATT
197211 AATAGAGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:197844 original size:23 final size:24
Alignment explanation
Indices: 197807--197852 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
197797 TTCGATATTG
197807 AAAAAATATTAAAATAATTTATTTT
1 AAAAAATATTAAAATAA-TTATTTT
*
197832 AAAAAATA-T-AAATTATTATTT
1 AAAAAATATTAAAATAATTATTT
197853 ATCATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 5 0.25
24 1 0.05
25 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAAATATTAAAATAATTATTTT
Found at i:199346 original size:3 final size:3
Alignment explanation
Indices: 199338--199417 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
199328 AATATATATT
*
199338 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
199386 TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
199418 TGGATAAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:205731 original size:2 final size:2
Alignment explanation
Indices: 205724--205769 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
205714 ATTTAAACAA
205724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
205766 AT AT
1 AT AT
205770 GTGTGTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:207165 original size:3 final size:3
Alignment explanation
Indices: 207151--207232 Score: 98
Period size: 3 Copynumber: 28.0 Consensus size: 3
207141 TTTGTATCTG
** *
207151 TAA TAA -AA TAA TAA TAA TAA T-A TTT TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
207197 TAA TAG TAA TAA TAA TAA TAA -ATA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
207233 AAAACCAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 5 0.07
3 62 0.91
4 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:207777 original size:113 final size:113
Alignment explanation
Indices: 207575--208453 Score: 1144
Period size: 113 Copynumber: 7.8 Consensus size: 113
207565 TAGAGTTATG
* * *
207575 CAAAAGATTGAACAAGCTCTTTTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
207639 TTATGAACTTTCTCTGGAAAAGTTGATCAATCGAATGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
* * * ** **
207687 CAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTATTTCTTCAGACGAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * * *
207752 TTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGTATTTAAA
66 TTATGAACT-TTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
* *
207800 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCACA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * * ** *
207865 TTATGAACTTTCTCTGGTAATGCTGATCCATCGAGTGATGAATTCGAG
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
** *
207913 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-TTTCTTCAGATAAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
207977 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATAATGAATTCAAA
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
* * * * **
208025 CAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGACGAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
208090 TTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTTAAA
66 TTATGAACT-TTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
* * *
208138 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATAAGTTTTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * * * *
208203 TTATGAAC-TTCTCTGGTAATGCTGATCCATCGAGTGATGAATTTGAG
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
* * *
208250 CAAAAGGTTAAACAAACTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
*
208315 TTATGAACTTTCTCTGGAAAAGTTGATCCATC-AAGTGATGAATTTAAA
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCGAA-TGATGAATTTAAA
* * * * *
208363 CAAAAGGTTGAACAAATTCTTCTTATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
*
208428 TTATGAA--TTCTTCTGGAAATGCTGAT
66 TTATGAACTTTC-TCTGGAAATGTTGAT
208454 GACCCGAAGG
Statistics
Matches: 666, Mismatches: 92, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
111 5 0.01
112 248 0.37
113 409 0.61
114 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (113 bp):
CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
TTATGAACTTTCTCTGGAAATGTTGATCCATCGAATGATGAATTTAAA
Found at i:207981 original size:338 final size:336
Alignment explanation
Indices: 207574--208434 Score: 1490
Period size: 338 Copynumber: 2.5 Consensus size: 336
207564 ATAGAGTTAT
* *
207574 GCAAAAGATTGAACAAGCTCTTTTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCA
*
207639 TTATGAACTTTCTCTGGAAAAGTTGATCAATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
207704 TCTTCTCATTATGAATTTCTTCTTATTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGG
131 TCTTCTCATTATGAATTTCTTCTT-TTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGG
*
207769 CAATGTTGATCCATCAAATGATGTATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
195 CAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
207834 TCTTCTTCCTTCTTCAGATAAGTTCTTCACATTATGAACTTTCTCTGGTAATGCTGATCCATCGA
260 TCTTCTTCCTTCTTCAGATAAGTTCTTCACATTATGAAC-TTCTCTGGTAATGCTGATCCATCGA
207899 GTGATGAATTCGA
324 GTGATGAATTCGA
* *
207912 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTTTCTTCAGATAAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCA
*
207977 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATAATGAATTCAAACAAAAAGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
208042 TCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGG
131 TCTTCTCATTATGAATTTCTTCTT-TTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGG
208107 CAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
195 CAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
* * *
208172 TCTTTTTCCTTCTTCAGATAAGTTTTTCTCATTATGAACTTCTCTGGTAATGCTGATCCATCGAG
260 TCTTCTTCCTTCTTCAGATAAGTTCTTCACATTATGAACTTCTCTGGTAATGCTGATCCATCGAG
*
208237 TGATGAATTTGA
325 TGATGAATTCGA
* * * *
208249 GCAAAAGGTTAAACAAACTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTC
* *
208314 ATTATGAACTTTCTCTGGAAAAGTTGATCCATC-AAGTGATGAATTTAAACAAAAGGTTGAACAA
65 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAA-TGATGAATTCAAACAAAAAGTTGAACAA
* *
208378 ATTCTTCTTATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAA
129 ATTCTTCTCATTATGAATTTCTTCTTT-TTCTTCAGACGAGTTCTTCTCATTATGAA
208435 TTCTTCTGGA
Statistics
Matches: 497, Mismatches: 23, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
337 78 0.16
338 419 0.84
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (336 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTTTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGGC
AATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATAAGTTCTTCACATTATGAACTTCTCTGGTAATGCTGATCCATCGAGT
GATGAATTCGA
Found at i:208004 original size:225 final size:225
Alignment explanation
Indices: 207575--208453 Score: 1178
Period size: 225 Copynumber: 3.9 Consensus size: 225
207565 TAGAGTTATG
* * *
207575 CAAAAGATTGAACAAGCTCTTTTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * *
207639 TTATGAACTTTCTCTGGAAAAGTTGATCAATCGAATGATGAATTCAAACAAAAAGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAAT
* **
207704 TCTTCTCATTATGAATTTCTTCTTAT-TTCTTCAGACGAGTTCTTCTCATTATGAAC-TCTACCT
131 TCTTCTCATTATGAACTTCTTCTT-TCTTCTTCAGATAAGTTCTTCTCATTATGAACTTCT--CT
* * *
207767 GGCAATGTTGATCCATCAAATGATGTATTTAAA
193 GGAAATGTTGATCCATCGAATGATGAATTTAAA
* *
207800 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCACA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * * * * * * *
207865 TTATGAACTTTCTCTGGTAATGCTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAAGT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAAT
207930 TCTTCTCATTATGAACTTCTTCTTT-TTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAAC-TTCTCTGG
* * *
207994 AAAAGTTGATCCATCGAATAATGAATTCAAA
195 AAATGTTGATCCATCGAATGATGAATTTAAA
* * * * **
208025 CAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGACGAGTTCTTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* * * * *
208090 TTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAG
66 TTATGAACT-TTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAA
* *
208154 CTCTTCTCATTATGAACTTCTT-TTTCCTTCTTCAGATAAGTTTTTCTCATTATGAACTTCTCTG
130 TTCTTCTCATTATGAACTTCTTCTTT-CTTCTTCAGATAAGTTCTTCTCATTATGAACTTCTCTG
* * * * *
208218 GTAATGCTGATCCATCGAGTGATGAATTTGAG
194 GAAATGTTGATCCATCGAATGATGAATTTAAA
* * *
208250 CAAAAGGTTAAACAAACTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATAAGTTATTCTCA
1 CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
* *
208315 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAAT
* * *
208380 TCTTCTTATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAA-TTCTTCTGG
131 TCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTC-TCTGG
*
208444 AAATGCTGAT
195 AAATGTTGAT
208454 GACCCGAAGG
Statistics
Matches: 578, Mismatches: 67, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
224 8 0.01
225 432 0.75
226 135 0.23
227 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (225 bp):
CAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTCTCTGGA
AATGTTGATCCATCGAATGATGAATTTAAA
Found at i:208577 original size:76 final size:76
Alignment explanation
Indices: 208451--208682 Score: 410
Period size: 76 Copynumber: 3.1 Consensus size: 76
208441 TGGAAATGCT
* * * **
208451 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCAAACACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
208516 TAGGACTTACA
66 TAGGACTTACA
*
208527 GATGACCCTAAAGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
208592 TAGGACTTACA
66 TAGGACTTACA
208603 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
208668 TAGGACTTACA
66 TAGGACTTACA
208679 GATG
1 GATG
208683 TGGGAAATAG
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 149 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (76 bp):
GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
TAGGACTTACA
Found at i:209384 original size:22 final size:22
Alignment explanation
Indices: 209359--209435 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
209349 AATAAAGCTT
209359 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
209381 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
209403 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
209425 TCATCTTTGAA
1 TCATCTTTGAA
209436 GAGTGTAGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:213560 original size:32 final size:32
Alignment explanation
Indices: 213519--213580 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
213509 GAAGAAATGA
*
213519 TTGTTATGCTCATCTTGTAGAGATACTTCTCG
1 TTGTTATGCTCATCTGGTAGAGATACTTCTCG
213551 TTGTTATGCTCATCTGGTAGAGATACTTCT
1 TTGTTATGCTCATCTGGTAGAGATACTTCT
213581 TGTGTCTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (32 bp):
TTGTTATGCTCATCTGGTAGAGATACTTCTCG
Found at i:214198 original size:8 final size:8
Alignment explanation
Indices: 214185--214263 Score: 70
Period size: 8 Copynumber: 9.4 Consensus size: 8
214175 CTTGATTCAA
214185 TTTTTTTC
1 TTTTTTTC
214193 TTTTTTTCC
1 TTTTTTT-C
*
214202 TTTTTGT-
1 TTTTTTTC
*
214209 TTTTTTTA
1 TTTTTTTC
*
214217 TTTCTTTCC
1 TTT-TTTTC
214226 TTTTTTTC
1 TTTTTTTC
214234 TTTTTTTTCC
1 -TTTTTTT-C
214244 TCTTTTTTC
1 T-TTTTTTC
*
214253 TTTTTTCC
1 TTTTTTTC
214261 TTT
1 TTT
214264 CTTTGTTGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
7 6 0.10
8 23 0.39
9 23 0.39
10 7 0.12
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:214199 original size:9 final size:9
Alignment explanation
Indices: 214185--214258 Score: 60
Period size: 9 Copynumber: 7.6 Consensus size: 9
214175 CTTGATTCAA
214185 TTTTTTTCT
1 TTTTTTTCT
*
214194 TTTTTTCCT
1 TTTTTTTCT
214203 TTTTGTTT-T
1 TTTT-TTTCT
214212 TTTTATTTCTTT
1 TTTT-TTTC--T
214224 CCTTTTTTTCT
1 --TTTTTTTCT
214235 TTTTTTTCCT
1 TTTTTTT-CT
*
214245 CTTTTTTCT
1 TTTTTTTCT
214254 TTTTT
1 TTTTT
214259 CCTTTCTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
9 33 0.62
10 10 0.19
11 1 0.02
12 1 0.02
13 4 0.08
14 4 0.08
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.82
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:214214 original size:18 final size:17
Alignment explanation
Indices: 214208--214263 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
214198 TTCCTTTTTG
*
214208 TTTTTTTTATTTCTTTCC
1 TTTTTTTT-TTTTTTTCC
214226 TTTTTTTCTTTTTTTTCC
1 TTTTTTT-TTTTTTTTCC
* *
214244 TCTTTTTTCTTTTTTCC
1 TTTTTTTTTTTTTTTCC
214261 TTT
1 TTT
214264 CTTTGTTGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 11 0.33
18 21 0.64
19 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTCC
Found at i:214224 original size:24 final size:25
Alignment explanation
Indices: 214185--214240 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
214175 CTTGATTCAA
* *
214185 TTTTTTTCTTTTTTTCCTTTTTGT-
1 TTTTTTTATTTCTTTCCTTTTTGTC
*
214209 TTTTTTTATTTCTTTCCTTTTTTTC
1 TTTTTTTATTTCTTTCCTTTTTGTC
214234 TTTTTTT
1 TTTTTTT
214241 TCCTCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (25 bp):
TTTTTTTATTTCTTTCCTTTTTGTC
Found at i:214266 original size:19 final size:19
Alignment explanation
Indices: 214186--214267 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 19
214176 TTGATTCAAT
214186 TTTTTTCTTTTTTTCCTTT-
1 TTTTTTC-TTTTTTCCTTTC
*
214205 TTGTTTT-TTTTATTTCTTTCC
1 TT-TTTTCTTTT-TTCCTTT-C
214226 TTTTTTTCTTTTTT--TTCCTC
1 -TTTTTTCTTTTTTCCTT--TC
214246 TTTTTTCTTTTTTCCTTTC
1 TTTTTTCTTTTTTCCTTTC
214265 TTT
1 TTT
214268 GTTGGATTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 20
0.71 0.01 0.27
Matches are distributed among these distances:
18 4 0.08
19 28 0.54
20 5 0.10
21 9 0.17
22 6 0.12
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (19 bp):
TTTTTTCTTTTTTCCTTTC
Found at i:214277 original size:27 final size:26
Alignment explanation
Indices: 214247--214300 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
214237 TTTTTCCTCT
*
214247 TTTTTCTTTTTTCCTTTCTTTGTTGGA
1 TTTTTCTTTTTT-CTTTCTTTGCTGGA
214274 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
214300 T
1 T
214301 GAGTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.04, C:0.15, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:214596 original size:2 final size:2
Alignment explanation
Indices: 214589--214623 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
214579 ACAACAAAGG
214589 AT AT AT 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 AT AT AT A
214624 AAGGATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:216836 original size:7 final size:7
Alignment explanation
Indices: 216802--216843 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
216792 ATAAGAGTAT
216802 AAATGCA
1 AAATGCA
* *
216809 CAATGAA
1 AAATGCA
216816 AAATGCA
1 AAATGCA
216823 AAGATGCA
1 AA-ATGCA
216831 AAATGC-
1 AAATGCA
216837 AAATGCA
1 AAATGCA
216844 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Done.