Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008052.1 Hibiscus syriacus cultivar Beakdansim tig00110547_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: 532719
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:4929 original size:14 final size:14
Alignment explanation
Indices: 4910--4939 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4900 AAGCATTAGA
4910 TATGTTGGACAGCT
1 TATGTTGGACAGCT
4924 TATGTTGGACAGCT
1 TATGTTGGACAGCT
4938 TA
1 TA
4940 GAGTATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (14 bp):
TATGTTGGACAGCT
Found at i:13517 original size:27 final size:27
Alignment explanation
Indices: 13477--13538 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
13467 CAATGGTTTT
**
13477 TCCTTCTTTTTCTTCTCCTTCTCCTTC
1 TCCTTCTTAATCTTCTCCTTCTCCTTC
* *
13504 TCCTTCTTAATCTTTTCCTTTTCCTTC
1 TCCTTCTTAATCTTCTCCTTCTCCTTC
*
13531 TCTTTCTT
1 TCCTTCTT
13539 CTCTTTGTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.61
Consensus pattern (27 bp):
TCCTTCTTAATCTTCTCCTTCTCCTTC
Found at i:16897 original size:21 final size:21
Alignment explanation
Indices: 16871--16916 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16861 ATTTATTGTG
* *
16871 ATTGTGGTCATCACGGGTGTT
1 ATTGTGGCCATCACGGGTATT
* *
16892 ATTGTGGCCGTCGCGGGTATT
1 ATTGTGGCCATCACGGGTATT
16913 ATTG
1 ATTG
16917 GGCGTTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.15, G:0.35, T:0.37
Consensus pattern (21 bp):
ATTGTGGCCATCACGGGTATT
Found at i:30510 original size:18 final size:18
Alignment explanation
Indices: 30487--30521 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
30477 TATTGTAAAT
30487 ATATTATCTTATTATCAA
1 ATATTATCTTATTATCAA
30505 ATATTATCTTATTATCA
1 ATATTATCTTATTATCA
30522 CATAATTTAT
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:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTATCTTATTATCAA
Found at i:30534 original size:18 final size:18
Alignment explanation
Indices: 30487--30534 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
30477 TATTGTAAAT
*
30487 ATATTATCTTATTATCAA
1 ATATTATATTATTATCAA
* *
30505 ATATTATCTTATTATCAC
1 ATATTATATTATTATCAA
30523 ATAATT-TATTAT
1 AT-ATTATATTAT
30535 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTATATTATTATCAA
Found at i:30633 original size:20 final size:20
Alignment explanation
Indices: 30610--30648 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30600 GATATTAAAT
30610 TATATAAAAGTATCATTTAA
1 TATATAAAAGTATCATTTAA
*
30630 TATATAAAATTATCATTTA
1 TATATAAAAGTATCATTTA
30649 TATTGATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
TATATAAAAGTATCATTTAA
Found at i:30736 original size:19 final size:18
Alignment explanation
Indices: 30714--30749 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
30704 TTAAATAAAT
*
30714 AATTAAATTTGATGTGATA
1 AATTAAAGTTGAT-TGATA
30733 AATTAAAGTTGATTGAT
1 AATTAAAGTTGATTGAT
30750 TCAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
AATTAAAGTTGATTGATA
Found at i:33081 original size:28 final size:29
Alignment explanation
Indices: 33050--33136 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 29
33040 ATAATCAAGT
33050 AATTATTTTATAATTTTTAAT-ATCGAAA
1 AATTATTTTATAATTTTTAATAATCGAAA
*** *
33078 AATTAAAAAATATAATATCTT-ATAATC-AAA
1 AATT--ATTTTATAAT-TTTTAATAATCGAAA
*
33108 AATTATTTTATAATTTTTAATGATCGAAA
1 AATTATTTTATAATTTTTAATAATCGAAA
33137 CCTATACAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
27 3 0.07
28 16 0.36
29 3 0.07
30 16 0.36
31 6 0.14
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (29 bp):
AATTATTTTATAATTTTTAATAATCGAAA
Found at i:36810 original size:20 final size:20
Alignment explanation
Indices: 36787--36835 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
36777 CGGCTGTCGG
*
36787 CGGCGGCGAGTGGCGTAAGA
1 CGGCGGCGAGTGGCGGAAGA
* *
36807 CGGCGGCGGGTGGCGGACGA
1 CGGCGGCGAGTGGCGGAAGA
*
36827 TGGCGGCGA
1 CGGCGGCGA
36836 ACAACGACGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.22, G:0.55, T:0.08
Consensus pattern (20 bp):
CGGCGGCGAGTGGCGGAAGA
Found at i:44944 original size:17 final size:17
Alignment explanation
Indices: 44917--44955 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
44907 AATTTACAAT
44917 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
44933 TAATTATAAATAATATC
1 TAATTATAAATAATATC
44950 TAATTA
1 TAATTA
44956 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:45072 original size:9 final size:9
Alignment explanation
Indices: 45058--45082 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45048 ATATTTAAGT
45058 GTTAATTCG
1 GTTAATTCG
45067 GTTAATTCG
1 GTTAATTCG
45076 GTTAATT
1 GTTAATT
45083 AACCGATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (9 bp):
GTTAATTCG
Found at i:53200 original size:123 final size:123
Alignment explanation
Indices: 53049--53296 Score: 433
Period size: 123 Copynumber: 2.0 Consensus size: 123
53039 AATTTTCATT
* * * *
53049 TCCATCCATGGAGCCTAGACTGAACTTTCTCGATAATAAGCTGTCACGTTACTTTGGAGTTGTGA
1 TCCATCCATGGAGCCTAGACTGAACTTTCTCAATAATAAGCTGCCACATTACTTTGGAGTTGCGA
*
53114 CGATGACCCAACGGTAACCCAAGATAATGTGTCGGAAAAGATTCTACCCCACATTTGA
66 CGATGACCCAACGGTAACCCAAGATAATGTATCGGAAAAGATTCTACCCCACATTTGA
53172 TCCATCCATGGAGCCTAGACTGAACTTTCTCAATAATAAGCTGCCACATTACTTTGGAGTTGCGA
1 TCCATCCATGGAGCCTAGACTGAACTTTCTCAATAATAAGCTGCCACATTACTTTGGAGTTGCGA
* *
53237 CGATGATCCAACGGTAACCCAAGATAATGTATCGGAAAAGATTCTATCCCACATTTGA
66 CGATGACCCAACGGTAACCCAAGATAATGTATCGGAAAAGATTCTACCCCACATTTGA
53295 TC
1 TC
53297 AAACTAGCTC
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (123 bp):
TCCATCCATGGAGCCTAGACTGAACTTTCTCAATAATAAGCTGCCACATTACTTTGGAGTTGCGA
CGATGACCCAACGGTAACCCAAGATAATGTATCGGAAAAGATTCTACCCCACATTTGA
Found at i:57609 original size:21 final size:20
Alignment explanation
Indices: 57542--57616 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
57532 CAGTTTCCAA
* * *
57542 AATCGCAACGCGATTCTTGAC
1 AATCGCAATGCGATT-TTCAT
57563 AATCGCAATGCGATTTTCAT
1 AATCGCAATGCGATTTTCAT
* *
57583 ATTCGCATTGCGATTTTCCAT
1 AATCGCAATGCGATTTT-CAT
*
57604 AATCGCAACGCGA
1 AATCGCAATGCGA
57617 ATATGAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 18 0.40
21 27 0.60
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (20 bp):
AATCGCAATGCGATTTTCAT
Found at i:57629 original size:20 final size:20
Alignment explanation
Indices: 57604--57872 Score: 297
Period size: 20 Copynumber: 13.4 Consensus size: 20
57594 GATTTTCCAT
** *
57604 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
57624 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
57644 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
57664 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
57684 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
57704 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
57724 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
**
57744 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
57764 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
57784 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
57804 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
57824 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
57844 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
*
57864 AATCACAAC
1 AATCGCAAC
57873 ACTGAAATTT
Statistics
Matches: 221, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 220 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:58603 original size:24 final size:24
Alignment explanation
Indices: 58564--58610 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
58554 AAATTTGGTC
58564 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
58588 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
58611 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:61131 original size:72 final size:72
Alignment explanation
Indices: 61038--61270 Score: 286
Period size: 72 Copynumber: 3.3 Consensus size: 72
61028 GCAACGAGAG
61038 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
61103 AAATGAA
66 AAATGAA
* * *
61110 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
61175 AAATGAA
66 AAATGAA
* * * * *
61182 AATCGCAACGAGAGAATCG-CAATGCGAA-ATA-AAAATCGCAATGC-GAAATGAAAATCGCAA-
1 AATCGCAATGCGA-AAT-GAAAATCCCAACA-AGAAAATCGCAATGCGGAAATGAAAATCGCAAT
*
61242 -CG--A-GAG
63 GCGAAATGAA
61248 AATCGCAATGCGGAAATGAAAAT
1 AATCGCAATGC-GAAATGAAAAT
61271 TGCAATGCGA
Statistics
Matches: 141, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 2 0.01
71 16 0.11
72 92 0.65
73 9 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:61159 original size:53 final size:52
Alignment explanation
Indices: 61024--61293 Score: 397
Period size: 53 Copynumber: 5.1 Consensus size: 52
61014 CGGAAATTAC
*
61024 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
61071 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
61129 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
*
61182 AATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
61234 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATTGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
61287 AATCGCA
1 AATCGCA
61294 TTGCGATTCT
Statistics
Matches: 204, Mismatches: 6, Indels: 20
0.89 0.03 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 65 0.32
53 113 0.55
55 2 0.01
56 1 0.00
57 2 0.01
58 11 0.05
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:61299 original size:72 final size:68
Alignment explanation
Indices: 61005--61298 Score: 258
Period size: 72 Copynumber: 4.2 Consensus size: 68
60995 GCATTTGACT
** * * *
61005 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-AAG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAG
61069 AAA
66 AAA
*
61072 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
*
61137 CG-AGAGA
61 CGAAGAAA
* * * * *
61144 ATCGCAATGCGGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAA--
*
61206 CGAAATAAAA
61 CG-AA-GAAA
*
61216 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATTGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAA--CG
61280 AAATGAAA
63 -AA-GAAA
*
61288 ATCGCATTGCG
1 ATCGCAATGCG
61299 ATTCTCTCGT
Statistics
Matches: 186, Mismatches: 22, Indels: 32
0.77 0.09 0.13
Matches are distributed among these distances:
65 7 0.04
66 7 0.04
67 33 0.18
69 4 0.02
70 1 0.01
71 21 0.11
72 105 0.56
73 3 0.02
74 5 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (68 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAG
AAA
Found at i:61313 original size:105 final size:105
Alignment explanation
Indices: 61024--61293 Score: 408
Period size: 105 Copynumber: 2.6 Consensus size: 105
61014 CGGAAATTAC
*
61024 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAATGCG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--C-
* *
61083 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
63 G--A-GAGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
61129 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
61194 AGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
66 AGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
*
61234 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATTGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
61294 TTGCGATTCT
Statistics
Matches: 155, Mismatches: 4, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
105 123 0.79
106 16 0.10
108 2 0.01
109 1 0.01
110 2 0.01
111 11 0.07
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (105 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
AGAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAA
Found at i:61333 original size:53 final size:52
Alignment explanation
Indices: 61276--61385 Score: 139
Period size: 53 Copynumber: 2.1 Consensus size: 52
61266 AAAATTGCAA
*
61276 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCAT
1 TGCGAAATGAAAATCACATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCAT
** ** ** *
61329 TGCGATTTTCATTTCACATTGCGTTTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCGAAATGAAAATCACATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
61381 TGCGA
1 TGCGA
61386 TTTTCATTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 10 0.20
53 39 0.80
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (52 bp):
TGCGAAATGAAAATCACATTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
Found at i:61350 original size:19 final size:19
Alignment explanation
Indices: 61308--61396 Score: 98
Period size: 19 Copynumber: 4.9 Consensus size: 19
61298 GATTCTCTCG
*
61308 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CACA
61328 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCACA
* *
61347 TTGCG--TTTC---TCTCG
1 TTGCGATTTTCATTTCACA
*
61361 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCACA
61380 TTGCGATTTTCATTTCA
1 TTGCGATTTTCATTTCA
61397 ACATAATGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
14 8 0.14
16 4 0.07
17 4 0.07
19 27 0.47
20 15 0.26
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCACA
Found at i:61505 original size:14 final size:14
Alignment explanation
Indices: 61486--61522 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
61476 CATCAATTAC
61486 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
61500 ACAAATCATCTTTT
1 ACAAATCAACTTTT
61514 ACAAATCAA
1 ACAAATCAA
61523 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:63506 original size:38 final size:35
Alignment explanation
Indices: 63441--63612 Score: 147
Period size: 33 Copynumber: 4.8 Consensus size: 35
63431 TAGTTTACTT
* * *
63441 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAA-GCG-AA-CAGAA
* *
63480 TCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAATCGCAA-GCG-AA-CAGAA
**
63518 TCGCAACGCGAAA-TGAAATCGCAA-CG-ACAGAA
1 TCGCAACGCGAAACCAAAATCGCAAGCGAACAGAA
*
63550 TCGCAACGCGAAACCAAAATCGCAA-CG-AGAGAA
1 TCGCAACGCGAAACCAAAATCGCAAGCGAACAGAA
**
63583 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAACGCGAAACCAAAATCGCAA-GCGA
63613 TTTGGTTTCG
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
32 17 0.15
33 40 0.35
35 4 0.04
37 9 0.08
38 32 0.28
39 12 0.11
ACGTcount: A:0.45, C:0.26, G:0.20, T:0.09
Consensus pattern (35 bp):
TCGCAACGCGAAACCAAAATCGCAAGCGAACAGAA
Found at i:63553 original size:14 final size:14
Alignment explanation
Indices: 63534--63590 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
63524 CGCGAAATGA
63534 AATCGCAACGACAG
1 AATCGCAACGACAG
*
63548 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
63567 AATCGCAACGAGAG
1 AATCGCAACGACAG
63581 AATCGCAACG
1 AATCGCAACG
63591 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.28, G:0.21, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:63559 original size:51 final size:55
Alignment explanation
Indices: 63441--63576 Score: 190
Period size: 51 Copynumber: 2.5 Consensus size: 55
63431 TAGTTTACTT
* *
63441 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGCGAAATGAGAATCGCAAC-AG-AACCAAAA
*
63499 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGA-AATCGCAAC-G-A-CAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAGAATCGCAACAGAACCAAAA
63550 TCGCAACGCGAAACCAAAATCGCAACG
1 TCGCAACGCGAAACCAAAATCGCAACG
63577 AGAGAATCGC
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
51 31 0.41
52 1 0.01
54 1 0.01
56 9 0.12
57 20 0.27
58 13 0.17
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (55 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAGAATCGCAACAGAACCAAAA
Found at i:63575 original size:33 final size:33
Alignment explanation
Indices: 63476--63607 Score: 149
Period size: 33 Copynumber: 3.9 Consensus size: 33
63466 ACGCGAAATG
*
63476 AGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACC
1 AGAATCGCAACGCGAAACCAAAATCGCAA--CG--A-C
* **
63514 AAAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
*
63546 AGAATCGCAACGCGAAACCAAAATCGCAACGAG
1 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
**
63579 AGAATCGCAACGCGAAATGAAAATCGCAA
1 AGAATCGCAACGCGAAACCAAAATCGCAA
63608 TGCGATTTGG
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
32 17 0.20
33 40 0.48
35 2 0.02
37 9 0.11
38 15 0.18
ACGTcount: A:0.47, C:0.26, G:0.20, T:0.08
Consensus pattern (33 bp):
AGAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:63576 original size:70 final size:66
Alignment explanation
Indices: 63476--63607 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 66
63466 ACGCGAAATG
63476 AGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATG-AAATCGC
1 AGAATCGCAACGAGAAACCAAAATCGCAA--CG--A-CAAAATCGCAACGCGAAATGAAAATCGC
63540 AACGAC
61 AACGAC
* * *
63546 AGAATCGCAACGCGAAACCAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAA
1 AGAATCGCAACGAGAAACCAAAATCGCAACGACAAAATCGCAACGCGAAATGAAAATCGCAA
63608 TGCGATTTGG
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
65 18 0.31
66 10 0.17
68 2 0.03
70 28 0.48
ACGTcount: A:0.47, C:0.26, G:0.20, T:0.08
Consensus pattern (66 bp):
AGAATCGCAACGAGAAACCAAAATCGCAACGACAAAATCGCAACGCGAAATGAAAATCGCAACGA
C
Found at i:63605 original size:19 final size:19
Alignment explanation
Indices: 63441--63612 Score: 141
Period size: 19 Copynumber: 9.6 Consensus size: 19
63431 TAGTTTACTT
* *
63441 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
63461 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
63480 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
63499 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
63518 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
63536 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
**
63550 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
63569 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
63583 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
63602 TCGCAATGCGA
1 TCGCAACGCGA
63613 TTTGGTTTCG
Statistics
Matches: 125, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.14
15 2 0.02
16 10 0.08
17 2 0.02
18 10 0.08
19 72 0.58
20 12 0.10
ACGTcount: A:0.45, C:0.26, G:0.20, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:63637 original size:19 final size:19
Alignment explanation
Indices: 63608--63684 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 19
63598 AAAATCGCAA
63608 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
63626 TGCGATTTTGGTTTTGCGT
1 TGCGATTTTGGTTTCGCGT
*
63645 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
63659 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
63678 TGCGATT
1 TGCGATT
63685 CTCTCGTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
14 11 0.22
16 1 0.02
17 1 0.02
18 6 0.12
19 30 0.61
ACGTcount: A:0.08, C:0.17, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:63659 original size:14 final size:14
Alignment explanation
Indices: 63642--63698 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
63632 TTTGGTTTTG
*
63642 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
63656 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
63675 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
63689 CGTTGCGATT
1 CGTTGCGATT
63699 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:63662 original size:33 final size:33
Alignment explanation
Indices: 63623--63716 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
63613 TTTGGTTTCG
** * *
63623 CGTTGCGATTTTGGTTTTGCGTTGCGATTCTGT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
63656 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
63689 CGTTGCGATTTTAAGTTTCGTGTTGCGA
1 CGTTGCGATTTTCA-TTTCGCGTTGCGA
63717 AAGTAAACTA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
33 42 0.78
34 12 0.22
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:64123 original size:185 final size:183
Alignment explanation
Indices: 63813--64214 Score: 768
Period size: 185 Copynumber: 2.2 Consensus size: 183
63803 TCAGGGTATT
63813 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAAT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAA-TTACTTTCAACCAAAGACAAAACAAAGACAAAT
63878 ACTATTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
65 ACTATTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
63943 CAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
130 CAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
63997 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTACTTTCAACCAAAAGACAAAACAAAGACAAAT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTACTTTCAACC-AAAGACAAAACAAAGACAAAT
64062 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
65 ACTATTTCACAGTGTT-AAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
64127 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
129 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
64182 AGTTTAGCAGAATTGGCAGCAACCGAATAAATT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATT
64215 TACTAAGCAA
Statistics
Matches: 215, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
183 12 0.06
184 68 0.32
185 135 0.63
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.22
Consensus pattern (183 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTACTTTCAACCAAAGACAAAACAAAGACAAATA
CTATTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTC
AACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
Found at i:64187 original size:93 final size:93
Alignment explanation
Indices: 63813--64218 Score: 782
Period size: 93 Copynumber: 4.4 Consensus size: 93
63803 TCAGGGTATT
63813 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
63877 TACTATTTCACAGTGTT-AAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
63904 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
63969 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
63997 AGTTTAGCAGAATTGGCAGCAACCGAACAAA-TTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
64061 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
64089 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
64154 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
64182 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
64219 AAGCAATCTA
Statistics
Matches: 311, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
91 44 0.14
92 129 0.41
93 138 0.44
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:65948 original size:20 final size:20
Alignment explanation
Indices: 65917--65980 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
65907 TTTTGGTTGA
65917 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
65937 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
65957 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
65978 AAT
1 AAT
65981 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:65969 original size:21 final size:21
Alignment explanation
Indices: 65915--65979 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
65905 TCTTTTGGTT
65915 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
65936 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
65956 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
65977 GAA
1 GAA
65980 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:66045 original size:21 final size:21
Alignment explanation
Indices: 66016--66091 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
66006 GCGATTTTGG
*
66016 TTTCGCGTTGCGATTTTCATT
1 TTTCTCGTTGCGATTTTCATT
**
66037 TTTCTCGTTGCAGATAGTCA-T
1 TTTCTCGTTGC-GATTTTCATT
*
66058 TTTCACGTTGCGATTTTCATT
1 TTTCTCGTTGCGATTTTCATT
*
66079 TATCTCGTTGCGA
1 TTTCTCGTTGCGA
66092 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.13
21 33 0.73
22 6 0.13
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TTTCTCGTTGCGATTTTCATT
Found at i:66213 original size:33 final size:33
Alignment explanation
Indices: 66171--66241 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
66161 AATACTAACT
66171 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
66204 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
66237 TGAAA
1 TGAAA
66242 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:66646 original size:20 final size:20
Alignment explanation
Indices: 66621--66734 Score: 201
Period size: 20 Copynumber: 5.7 Consensus size: 20
66611 CTTTAAAAAT
66621 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
66641 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
66661 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
66681 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
66701 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
66721 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
66735 TGTGTTTGCG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:66790 original size:21 final size:20
Alignment explanation
Indices: 66766--66813 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
66756 ATATTCGCGT
66766 TGCGATTATGGAAAATCGCAA
1 TGCGATTAT-GAAAATCGCAA
* *
66787 TGCGAATATGAAAATCGCAT
1 TGCGATTATGAAAATCGCAA
66807 TGCGATT
1 TGCGATT
66814 GTCAAGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCGATTATGAAAATCGCAA
Found at i:71617 original size:22 final size:22
Alignment explanation
Indices: 71589--71634 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
71579 AGAGAAGATC
71589 TGCCTAGTGGAGGGAGCAGTGG
1 TGCCTAGTGGAGGGAGCAGTGG
71611 TGCCTAGTGGAGGGAGCAGTGG
1 TGCCTAGTGGAGGGAGCAGTGG
71633 TG
1 TG
71635 GAAATTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.50, T:0.20
Consensus pattern (22 bp):
TGCCTAGTGGAGGGAGCAGTGG
Found at i:71827 original size:4 final size:4
Alignment explanation
Indices: 71818--71864 Score: 62
Period size: 4 Copynumber: 11.8 Consensus size: 4
71808 CGTTTTGGTC
71818 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TATTA CTTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA -TTTA TTTA TTTA TTT
71865 TTCTTTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 4 0.10
4 31 0.79
5 3 0.08
6 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:76021 original size:106 final size:106
Alignment explanation
Indices: 75890--77520 Score: 2444
Period size: 106 Copynumber: 15.5 Consensus size: 106
75880 TTTCAACAAA
* *
75890 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
75955 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* *
75996 CAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
76061 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* * * *
76102 CAACATCTCAAATTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
76167 AGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
*
76208 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
76273 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
76314 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
76379 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* * *
76420 AAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
76485 AGTTTAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* *
76526 CAACTTCTCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
76591 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
76632 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
76697 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* *
76738 CAACTTCTTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
76803 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
** * * * * *
76844 CAGTTTCCCAATCTCAGGGCCGATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
76909 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
** * * *
76950 CAGTTTC-CTAATCTCAGGGCCGATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
1 CAACTTCTC-AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
*
77014 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
65 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
** * * * * *
77056 CAGTTTCCCAATCTCAGGGCCGATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
77121 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* * * * *
77162 CAATTTCCCAATTTTAGAGCCAATTTCAACTTCTCAGCGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
*
77227 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* * * * * * *
77268 CAACTTCCCAATTTCAGAGCCAATTTCGACTTCTCAGCGAAGGATCTTGGAC-CTAAGACAACAC
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC-CAGACAACGC
* * * * *
77332 AAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAACAA-
65 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
* * * * * * * *
77373 -AA-TT-T-TA-TTCAAAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACA
1 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* *
77433 AGTTCAACTTCACAAACGAAGGGA-CGATTGGTTGTC---AAC
66 AGTTCAACTTCAC-GACGAAGGGACCG-CTGGTTGTCAATAAC
* * * *
77472 AAACTT-TCCAGTTTC-GAAGGCAATTTCAACTTCACAGCGAAGGATATTG
1 CAACTTCT-CAATTTCAG-AGCCAATTTCAACTTCACAACGAAGGATATTG
77521 ACATCGAAAC
Statistics
Matches: 1434, Mismatches: 78, Indels: 28
0.93 0.05 0.02
Matches are distributed among these distances:
98 2 0.00
100 58 0.04
101 20 0.01
103 2 0.00
104 35 0.02
105 2 0.00
106 1314 0.92
107 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAC
Found at i:77776 original size:3 final size:3
Alignment explanation
Indices: 77763--77821 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
77753 TTATCGTATA
* * *
77763 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT AAT ATT TTT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
77809 ATT AATT A-T ATT A
1 ATT -ATT ATT ATT A
77822 ATGATTTTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:78588 original size:22 final size:22
Alignment explanation
Indices: 78560--78605 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
78550 AGAGAAGATC
78560 TGCCTAGTGGAGGGAGCAGTGG
1 TGCCTAGTGGAGGGAGCAGTGG
78582 TGCCTAGTGGAGGGAGCAGTGG
1 TGCCTAGTGGAGGGAGCAGTGG
78604 TG
1 TG
78606 GAAATTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.50, T:0.20
Consensus pattern (22 bp):
TGCCTAGTGGAGGGAGCAGTGG
Found at i:78802 original size:4 final size:4
Alignment explanation
Indices: 78793--78835 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
78783 TTTGGTCTTT
78793 TTTA TTTA TTTA TTTA TTTA TTT- TATTA CTTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA -TTTA TTTA TTTA TTT
78836 TTCTTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 4 0.11
4 27 0.77
5 3 0.09
6 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:78930 original size:21 final size:20
Alignment explanation
Indices: 78869--78931 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
78859 TTCTTTGTTA
78869 TTTATT-ATATTTATTTTTC
1 TTTATTAATATTTATTTTTC
78888 TTATATTAATA-TT-TTTTTC
1 TT-TATTAATATTTATTTTTC
* *
78907 TTTTTTCATATTTATTTTTAC
1 TTTATTAATATTTATTTTT-C
78928 TTTA
1 TTTA
78932 CAATCTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 6 0.17
19 12 0.33
20 11 0.31
21 7 0.19
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTAATATTTATTTTTC
Found at i:82022 original size:25 final size:25
Alignment explanation
Indices: 81965--82014 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
81955 AGATAAAATA
* *
81965 AAAATAAAAATAAAATATACATTTT
1 AAAATTAAAGTAAAATATACATTTT
*
81990 AAAATTAAAGTAAAATATATATTTT
1 AAAATTAAAGTAAAATATACATTTT
82015 TAAGTTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
AAAATTAAAGTAAAATATACATTTT
Found at i:82036 original size:30 final size:30
Alignment explanation
Indices: 82002--82252 Score: 146
Period size: 30 Copynumber: 8.5 Consensus size: 30
81992 AATTAAAGTA
82002 AAATATATATTTTTAAGTTAAGATAAGAAT
1 AAATATATATTTTTAAGTTAAGATAAGAAT
* *
82032 AAATA-ATATTTAATAATTTAATG-TAAGAAT
1 AAATATATATTT-TTAAGTTAA-GATAAGAAT
** * *
82062 ATAATATAT-TTAATAATTTAAGTTAAGAAT
1 A-AATATATATTTTTAAGTTAAGATAAGAAT
** *** * *
82092 ATAATATA-CGTAACAAGTTAATATAAAAAT
1 A-AATATATATTTTTAAGTTAAGATAAGAAT
* *
82122 AAA-ATATATTTTTAAGTTAAGGTAGGAAT
1 AAATATATATTTTTAAGTTAAGATAAGAAT
* * *
82151 -AATATATATTTTATAAATTAAGATAGGACT
1 AAATATATATTTT-TAAGTTAAGATAAGAAT
* *
82181 AAAATATATATTTTTTAGTTAA-AGTGAGAAT
1 -AAATATATATTTTTAAGTTAAGA-TAAGAAT
***
82212 AAA-ATATACTCAATAAGTTAAGA-AA-AAT
1 AAATATATA-TTTTTAAGTTAAGATAAGAAT
82240 AAA-ATATATTTTT
1 AAATATATATTTTT
82253 TAATGCTAAT
Statistics
Matches: 173, Mismatches: 34, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
27 2 0.01
28 16 0.09
29 37 0.21
30 86 0.50
31 18 0.10
32 14 0.08
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (30 bp):
AAATATATATTTTTAAGTTAAGATAAGAAT
Found at i:83903 original size:15 final size:15
Alignment explanation
Indices: 83883--83949 Score: 98
Period size: 15 Copynumber: 4.5 Consensus size: 15
83873 ATATTTAGCT
83883 GGGCGGGCGGATGCA
1 GGGCGGGCGGATGCA
83898 GGGCGGGCGGATGCA
1 GGGCGGGCGGATGCA
* *
83913 GGGCGGACGGATGCG
1 GGGCGGGCGGATGCA
* *
83928 GGGCGGGAGGATGCG
1 GGGCGGGCGGATGCA
83943 GGGCGGG
1 GGGCGGG
83950 TAATGTCTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.12, C:0.18, G:0.64, T:0.06
Consensus pattern (15 bp):
GGGCGGGCGGATGCA
Found at i:87072 original size:18 final size:18
Alignment explanation
Indices: 87046--87081 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
87036 TTTTTACCTT
* *
87046 TAAACCTATATAGAATTA
1 TAAAACTATATAAAATTA
87064 TAAAACTATATAAAATTA
1 TAAAACTATATAAAATTA
87082 ATATAATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAAACTATATAAAATTA
Found at i:90335 original size:111 final size:112
Alignment explanation
Indices: 89982--90446 Score: 734
Period size: 113 Copynumber: 4.1 Consensus size: 112
89972 GATACTTATA
* * * *
89982 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACTTATTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
90047 TTTTTCATTTTTTTTACCTGTTATACTATTATGGATCGATATATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
90095 ATAAAATATCGGCACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAACGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
90160 TTTGTCATATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCAT-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
90208 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
90273 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
90319 ATAAAATATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
90384 TGTGTCATTTTTTTACCTGATATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
90431 ATAAAGTATCGACACT
1 ATAAAGTATCGACACT
90447 AACCGACAAA
Statistics
Matches: 324, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
111 106 0.33
112 52 0.16
113 166 0.51
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:90374 original size:224 final size:224
Alignment explanation
Indices: 89982--90447 Score: 754
Period size: 224 Copynumber: 2.1 Consensus size: 224
89972 GATACTTATA
* *
89982 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACTTATTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
* * *
90047 TTTTTCATTTTTTTTACCTGTTATACTATTATGGATCGATATATTTTTATAAAATATCGGCACTT
66 TTTGTCA-TTTTTTTACCTGTTATACTATTATGGATCGATACATTTTTATAAAATATCGACACTT
*
90112 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAACGGTTTTGTCATATTTTTTAC
130 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAACGGTTGTGTCAT-TTTTTTAC
* *
90177 CTGTTATATTGTTATGGATCGATACATTTTT
194 CTGATATATTGTTATGGATCAATACATTTTT
* * * * *
90208 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGAT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
* *
90273 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATATCGACACTTT
66 TTTGTCATTTTTTTACCTGTTATACTATTATGGATCGATACATTTTTATAAAATATCGACACTTT
*
90337 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTGTGTCATTTTTTTACCT
131 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAACGGTTGTGTCATTTTTTTACCT
*
90402 GATATATTGTTATGGATCAATATATTTTT
196 GATATATTGTTATGGATCAATACATTTTT
90431 ATAAAGTATCGACACTA
1 ATAAAGTATCGACACTA
90448 ACCGACAAAC
Statistics
Matches: 222, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
223 52 0.23
224 106 0.48
226 64 0.29
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (224 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTTACCTGTTATACTATTATGGATCGATACATTTTTATAAAATATCGACACTTT
CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAACGGTTGTGTCATTTTTTTACCT
GATATATTGTTATGGATCAATACATTTTT
Found at i:93830 original size:12 final size:12
Alignment explanation
Indices: 93813--93837 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93803 TATACTATCA
93813 TGTCATGATGCC
1 TGTCATGATGCC
93825 TGTCATGATGCC
1 TGTCATGATGCC
93837 T
1 T
93838 TTCGAGTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (12 bp):
TGTCATGATGCC
Found at i:99616 original size:21 final size:22
Alignment explanation
Indices: 99583--99624 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
99573 TAATAACAGG
99583 TAAAAACAGGACAAAACAGGTC
1 TAAAAACAGGACAAAACAGGTC
*
99605 TAAAAA-ATGACAAAACAGGT
1 TAAAAACAGGACAAAACAGGT
99625 AAAGCGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (22 bp):
TAAAAACAGGACAAAACAGGTC
Found at i:99807 original size:182 final size:181
Alignment explanation
Indices: 99553--100755 Score: 1629
Period size: 182 Copynumber: 6.6 Consensus size: 181
99543 GATACAAATG
* * * *
99553 AAAAATATATCGATCCATAA-TA-ATAACAGGTAAAAACAGGACAAAACAGGTCTAAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACCGGTCT-AAAAATGAC
* * *
99616 AAAACAGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTT
65 AAAACAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * *
99681 TTTGAATTTAAAAGAGAAGAAGTTATAACGCCTA-AAACATGTCGACACTTTA
130 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAA-GTGTCGACACTTTA
** * * * *
99733 TGCAAATATATCGATCCATAACAATATAACAGCCT-AAAATATGACAAAACCGGTCTCAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACAG-GTAAAAATAGGACAAAACCGGTCTAAAAATGA
** *
99797 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
64 CAAAACAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
*
99862 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
129 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTTA
* *
99915 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGATAAAACAGGTCTAAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACCGGTCTAAAAATGACA
* * *
99980 AAACCA-GTAAAACGATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
66 AAA-CAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
100044 TCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTA-AAACGTGTCGACACTTTAA
130 T-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAA-GTGTCGACACTTT-A
* * * * * *
100097 AAAAATGTATCTATCCATAACAATATAACAGCCT-AAAATATGATAAAACCGGTCTCAAAATGAT
1 AAAAATGTATCGATCCATAACAATATAACAG-GTAAAAATAGGACAAAACCGGTCTAAAAATGAC
* ** * *
100161 AAAAGAGGTAAATAACTACCGGATATGTTGAAAGTGTTGATACTTTAATATAAGTATCGACACTT
65 AAAACAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* *
100226 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTACAAAGTGTCGATACTTTAA
130 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTT-A
*
100279 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAATCGGTCTAAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACCGGTCTAAAAATGACA
* * * * *
100344 AAACCGGTAAAGCGTTACCGGATATTTTGAAAGTGTCAATAATTTAATATAAGTATCGACACTTT
66 AAACAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
100409 CT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTA-AAACGTGTCGACACTTTA
131 -TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAA-GTGTCGACACTTTA
* * * * * * *
100460 TGAAAATGTATTGATCCATAACAATACAACAGCCT-AAAATATGACAAAACCAGTCTCAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACAG-GTAAAAATAGGACAAAACCGGTCTAAAAATGA
** *
100524 CAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
64 CAAAACAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
*
100589 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
129 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTTA
*
100642 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGAC-AAACCATGTCTAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACC-GGTCTAAAAATGAC
* * * * * *
100706 AAAACCGGTAAAACGATACCGGATATATTGAAAGTATCAATAATTTAATA
65 AAAACAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATA
100756 AGTACGCGTA
Statistics
Matches: 901, Mismatches: 99, Indels: 44
0.86 0.09 0.04
Matches are distributed among these distances:
180 10 0.01
181 270 0.30
182 583 0.65
183 37 0.04
184 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACCGGTCTAAAAATGACA
AAACAGGTAAATCGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTTA
Found at i:100205 original size:363 final size:363
Alignment explanation
Indices: 99553--100755 Score: 2020
Period size: 363 Copynumber: 3.3 Consensus size: 363
99543 GATACAAATG
* * *
99553 AAAAATATATCGATCCATAA-TA-ATAACAGGTAAAAACAGGACAAAACAGGTCTAAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACAGGTCT-AAAAATGAC
* * * * * *
99616 AAAA-CAGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACT
65 AAAACCA-GTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGACACT
* * * * *
99680 TTTTGAATTTAAAAGAGAAGAAGTTATAACGCCTAAAACATGTCGACACTTTATGCAAATATATC
129 TTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATC
*
99745 GATCCATAACAATATAACAGCCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAA
194 TATCCATAACAATATAACAGCCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAA
99810 TAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAA
259 TAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAA
99875 AGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
324 AGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
*
99915 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGATAAAACAGGTCTAAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACAGGTCTAAAAATGACA
*
99980 AAACCAGTAAAACGATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCAGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGACACTTT
**
100045 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTAAAAAAATGTATCTA
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCTA
* * *
100110 TCCATAACAATATAACAGCCTAAAATATGATAAAACCGGTCTCAAAATGATAAAAGAGGTAAATA
196 TCCATAACAATATAACAGCCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
*
100175 ACTACCGGATATGTTGAAAGTGTTGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
261 ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
*
100240 AGAAGAAGTTATAGCGCCTACAAAGTGTCGATACTTTAA
326 AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-A
100279 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAATC-GGTCTAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAA-CAGGTCTAAAAATGAC
* * * *
100343 AAAACCGGTAAAGCGTTACCGGATATTTTGAAAGTGTCAATAATTTAATATAAGTATCGACACTT
65 AAAACCAGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGACACTT
100408 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTAT-T
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCT
* *
100472 GATCCATAACAATACAACAGCCTAAAATATGACAAAACCAGTCTCAAAATGACAAAACAGGTAAA
195 -ATCCATAACAATATAACAGCCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAA
100537 TAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAA
259 TAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAA
100602 AGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
324 AGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
* *
100642 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAACCATGTCTAAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACAGGTCTAAAAATGACA
* *
100707 AAACCGGTAAAACGATACCGGATATATTGAAAGTATCAATAATTTAATA
66 AAACCAGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATA
100756 AGTACGCGTA
Statistics
Matches: 791, Mismatches: 43, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
362 20 0.03
363 395 0.50
364 375 0.47
365 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (363 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAGGACAAAACAGGTCTAAAAATGACA
AAACCAGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGACACTTT
CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCTA
TCCATAACAATATAACAGCCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
Found at i:101196 original size:21 final size:19
Alignment explanation
Indices: 101142--101209 Score: 100
Period size: 19 Copynumber: 3.6 Consensus size: 19
101132 CTTTTATTTA
* *
101142 ATATTATATGTAAAAGATG
1 ATATTATAGGTAAAAAATG
101161 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
*
101180 ATATTATAGGTAGAAAATG
1 ATATTATAGGTAAAAAATG
*
101199 ATATTTTAGGT
1 ATATTATAGGT
101210 TGTATAAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.37
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:101748 original size:261 final size:261
Alignment explanation
Indices: 101284--101802 Score: 984
Period size: 261 Copynumber: 2.0 Consensus size: 261
101274 CCACAAAGAG
*
101284 TGGTTATTGATTTTTGTATATTGAATAAAGTGTATGTAAGCAGTATTTGATTTGATTTATGCAAA
1 TGGTTATTGATTTTTGTATATTGAATAAAGTGTATGTAAGCAGTATTTGATTTGATTTACGCAAA
* *
101349 CTAATATATGAAGGAAAAATGAAGTCAATGGGTGGAAAGCAACCAAAGGGTGGATATATGTATTT
66 CTAATATATGAAGGAAAAATGAAGTCAATGGGTGGAAAGCAACCAAAGGGTAGATATATGTACTT
101414 CTAGTAAGTATCAATGTATTTTTGTTATTATTGTTGAAATGGTAATTGGATTAAAGTATTTAAAA
131 CTAGTAAGTATCAATGTATTTTTGTTATTATTGTTGAAATGGTAATTGGATTAAAGTATTTAAAA
101479 ACTTTAAATTGATTACAAATTTTAAATGTTGACAGTATGGCCGAATACAAAAGGATGAAGGAATA
196 ACTTTAAATTGATTACAAATTTTAAATGTTGACAGTATGGCCGAATACAAAAGGATGAAGGAATA
101544 A
261 A
*
101545 TGGTTATTGATTTTTGTATATTGAATAAAGTGTATGTAAGCAGTATTTGATTTGATTTGCGCAAA
1 TGGTTATTGATTTTTGTATATTGAATAAAGTGTATGTAAGCAGTATTTGATTTGATTTACGCAAA
*
101610 CTGATATATGAAGGAAAAATGAAGTCAATGGGTGGAAAGCAACCAAAGGGTAGATATATGTACTT
66 CTAATATATGAAGGAAAAATGAAGTCAATGGGTGGAAAGCAACCAAAGGGTAGATATATGTACTT
*
101675 CTAGTAAGTATCAATGTATTTTTGTTATTATTGTTGAAATGGTAATTGGATTAAAGTATTTAAGA
131 CTAGTAAGTATCAATGTATTTTTGTTATTATTGTTGAAATGGTAATTGGATTAAAGTATTTAAAA
101740 ACTTTAAATTGATTACAAATTTTAAATGTTGACAGTATGGCCGAATACAAAAGGATGAAGGAA
196 ACTTTAAATTGATTACAAATTTTAAATGTTGACAGTATGGCCGAATACAAAAGGATGAAGGAA
101803 GATGGCACAC
Statistics
Matches: 252, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 252 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (261 bp):
TGGTTATTGATTTTTGTATATTGAATAAAGTGTATGTAAGCAGTATTTGATTTGATTTACGCAAA
CTAATATATGAAGGAAAAATGAAGTCAATGGGTGGAAAGCAACCAAAGGGTAGATATATGTACTT
CTAGTAAGTATCAATGTATTTTTGTTATTATTGTTGAAATGGTAATTGGATTAAAGTATTTAAAA
ACTTTAAATTGATTACAAATTTTAAATGTTGACAGTATGGCCGAATACAAAAGGATGAAGGAATA
A
Found at i:103448 original size:21 final size:18
Alignment explanation
Indices: 103422--103460 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
103412 GAAAAAATTT
*
103422 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
103440 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
103458 GAA
1 GAA
103461 ATGGGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:104951 original size:19 final size:19
Alignment explanation
Indices: 104927--104977 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
104917 AAATGTAGGG
104927 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
104946 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
104965 ATAATTTTGTATA
1 TTAATTTTGTATA
104978 TGAATGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:105851 original size:199 final size:199
Alignment explanation
Indices: 105348--106623 Score: 2130
Period size: 199 Copynumber: 6.4 Consensus size: 199
105338 GTAAACTTAT
* *
105348 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCAAAAC-CAATAATTATGATGTAAT
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTC-ATAATTATAATGTAAT
* *
105412 AGGTAAATTAACAATTTAACCGGTCAAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
65 AGGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
105477 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
*
105542 -AAAC
195 AAAAA
*
105546 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * *
105611 GGTAAATTAACAATGTAACTGGTCTAAGTATACCAGTTTTTGAGAAAACAGATGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
105676 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
105741 AAAA
196 AAAA
*
105745 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATGATAG-AAT
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAAT-GTAAT
* *
105809 AGGTAAATTAACAATTTAACTGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
65 AGGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
*
105874 ATCGACACAAATAAAACAAGAGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
*
105939 AAAAC
195 AAAAA
* * * * *
105944 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTATAATATACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * * * *
106009 GGTAAATTAACAATGTAACCTGTCTAAGTATATCGGTTTTTGAGAAAACATGTGCACATAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
106074 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
106139 AAAA
196 AAAA
* * *
106143 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATGATGTAATA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * *
106208 GGTAAATTAACAATTTAACCGGTCTAAGTATACCGATTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
106273 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTTCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
106338 AAAA
196 AAAA
* * *
106342 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGTAAC-CTATAATTATAATGTACT
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTC-ATAATTATAATGTAAT
*
106406 AGGTAAATTAACAATGTAACCAGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
65 AGGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
* *
106471 ATCGACACAAATAAAACAAGTGTCAATTCTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
*
106536 -AAAC
195 AAAAA
* *
106540 GTGTCGATACATTTATAATAAGTGTCGATCCTAAAAATATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
106605 GGTAAATTAACAATGTAAC
66 GGTAAATTAACAATGTAAC
106624 ATATATAAAA
Statistics
Matches: 1010, Mismatches: 62, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
198 265 0.26
199 744 0.74
200 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:108197 original size:6 final size:6
Alignment explanation
Indices: 108183--108216 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
108173 CAAGCGGTCA
* *
108183 ATGAAG ATGACG ATGAAG ATGAAG ATGACG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
108217 TGATCCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.06, G:0.32, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:110003 original size:199 final size:199
Alignment explanation
Indices: 109658--110635 Score: 1451
Period size: 199 Copynumber: 4.9 Consensus size: 199
109648 TTATTCATTC
* * *
109658 GTGTTGATACTTGTT-GTCCAGAATGAATTTCAAAACTAAGTGCACTAAAAAGTGTCGATACATT
1 GTGTCGATACTT-TTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATT
* *
109722 TATAATAAATGTCGATCCCAAAAACATCGAAACCCATAATTATGATGTAATAGGTAAATTAACAA
65 TATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAA
* * *
109787 TTTAACCGGTCTAAGTATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAA
130 TGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAA
109852 AACAA
195 AACAA
*
109857 GTTTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTT
1 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTT
* * * *
109922 ATAATAAGTTTCGATCTCAAAAACATCGAAACCCATAATTATAATGTACTAGGTAAATTAAAAAT
66 ATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAAT
109987 GTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAA
131 GTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAA
110052 ACAA
196 ACAA
*
110056 GTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTT
1 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTT
* * *
110121 ATAATAAGTGTTGATCCCAAAAACATCGAAACTCATAATTATAATGTACTAGGTAAATTAACAAT
66 ATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAAT
* *
110186 GTAACCGGTCTAAGTATACCGATTTTTGAGAAAACAGGAGTACAAAAAGTATCGACACAAATAAA
131 GTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAA
110251 ACAA
196 ACAA
* * *
110255 GTGTCGATACCTTTGGTCCAGAATGTATTTCAAAACCAAATGCACT-AAACGTGTCGATACATTT
1 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTT
* * * * *
110319 ATAATAAATGTCGATCCTAAAAATATTGAAACCCATAATTATGA-GTAATAGGTAAATTAACAAT
66 ATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAAT
* * * * * *
110383 GTAACCGGTCTAAATATACCGGTTTATAAGAAAACATGTGTACAAAAAGCATCAACACAAATAAA
131 GTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAA
110448 ACAA
196 ACAA
* * *
110452 GTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAATTGCACTAAAACGTGTCGATACATTT
1 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTT
* * * * **
110517 ATAATAAGTGTCGATACTAAAAATATTGAAATTCATAGA-TATAATGTAATAGGTAAATTAACAA
66 ATAATAAGTGTCGATCCCAAAAACATCGAAACCCATA-ATTATAATGTAATAGGTAAATTAACAA
* * * * * * * *
110581 TGCAACCGATCTAAATATACCGGTTTTATGAGCAAATAGGTCTACATAATGTATC
130 TGTAACCGGTCTAAGTATACCGGTTTT-TGAGAAAACAGGTGTACAAAAAGTATC
110636 TATACTTTTT
Statistics
Matches: 713, Mismatches: 61, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
197 123 0.17
198 111 0.16
199 460 0.65
200 19 0.03
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (199 bp):
GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTT
ATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAAT
GTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAA
ACAA
Found at i:114661 original size:182 final size:182
Alignment explanation
Indices: 114336--115014 Score: 1069
Period size: 182 Copynumber: 3.7 Consensus size: 182
114326 GTAAATTAAC
* * *
114336 AGTGTCGATACTTTAATATAAGTATCGACACTTT-TGGAAATAAAAAGAGAAGAAGTTATAGCGC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGC
* * *
114400 CTAAAAAGTGTCGATACTTTAAAAAAATGTATCGATCCATAACAATATTACAGGTAAAAATATGA
65 CTAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
* * *
114465 CAAAACCAGTCTCAAAATGACAAAACCGGTAAAACGATACCGAATTTTTTGCA
130 CAAAACCGGTCTCAAAATGACAAAACCGGTAAAACGATACCGAATATGTTGCA
*
114518 AGTGTTGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* *
114583 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGAC
66 TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
* * *
114648 AAAACCGGTCTCAAAATGACAAAATCGGTAAAACGCTACCGGATATGTTGCA
131 AAAACCGGTCTCAAAATGACAAAACCGGTAAAACGATACCGAATATGTTGCA
*
114700 TGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
*
114765 TAAAAAGTGTCGATACTTT-TAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
66 TAAAAAGTGTCGACACTTTAT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
* * * *
114829 CAAAACCGATCTCAAAATGACAATACCGGTAAAAGGATACC-AGATATGTTGAA
130 CAAAACCGGTCTCAAAATGACAAAACCGGTAAAACGATACCGA-ATATGTTGCA
*
114882 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCG-T
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* * * *
114946 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCGATAACAATATAACAGCTAAAAATATGAG
66 TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
115011 AAAA
131 AAAA
115015 TAGGTACACA
Statistics
Matches: 459, Mismatches: 34, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
181 63 0.14
182 395 0.86
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
AAAACCGGTCTCAAAATGACAAAACCGGTAAAACGATACCGAATATGTTGCA
Found at i:121506 original size:14 final size:13
Alignment explanation
Indices: 121477--121552 Score: 61
Period size: 15 Copynumber: 5.6 Consensus size: 13
121467 CGCATTTTTA
121477 TTTTATTAATTAATT
1 TTTTATTAA-T-ATT
121492 TTTTATTCAATA--
1 TTTTATT-AATATT
121504 TTTT-TTAATATT
1 TTTTATTAATATT
121516 TTTGT-TTAATTAATT
1 TTT-TATTAA-T-ATT
121531 TTTTATTCAATATT
1 TTTTATT-AATATT
121545 TTTTATTA
1 TTTTATTA
121553 TTTAATTGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.08
11 2 0.04
12 7 0.13
13 6 0.11
14 13 0.25
15 17 0.32
16 4 0.08
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (13 bp):
TTTTATTAATATT
Found at i:121557 original size:29 final size:26
Alignment explanation
Indices: 121490--121559 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 26
121480 TATTAATTAA
* *
121490 TTTTTTATTCAATATTTTTTAATATT
1 TTTTTTATTTAATTTTTTTTAATATT
*
121516 TTTGTTTAATTAATTTTTTATTCAATATT
1 TTT-TTTATTTAATTTTTT-TT-AATATT
121545 TTTTATTATTTAATT
1 TTTT-TTATTTAATT
121560 GTACATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.08
27 12 0.33
28 3 0.08
29 18 0.50
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (26 bp):
TTTTTTATTTAATTTTTTTTAATATT
Found at i:121875 original size:14 final size:15
Alignment explanation
Indices: 121857--121895 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
121847 TAAACAAAAA
121857 TAATAAAAT-TT-AT
1 TAATAAAATATTAAT
121870 TGAATAAAATATTAAT
1 T-AATAAAATATTAAT
121886 TAATAAAATA
1 TAATAAAATA
121896 AAACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 8 0.35
15 11 0.48
16 3 0.13
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAATAAAATATTAAT
Found at i:122835 original size:26 final size:27
Alignment explanation
Indices: 122783--122842 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
122773 TAAAATAATT
*
122783 AATAAATTTAAAAATTTGTCCACAAAA
1 AATAAATTTAAAAATTTGTACACAAAA
122810 AATAAATTTAAAAATGTT-TACA-AAAA
1 AATAAATTTAAAAAT-TTGTACACAAAA
*
122836 TATAAAT
1 AATAAAT
122843 ATTTTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 10 0.33
27 18 0.60
28 2 0.07
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (27 bp):
AATAAATTTAAAAATTTGTACACAAAA
Found at i:126697 original size:21 final size:21
Alignment explanation
Indices: 126673--126726 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
126663 ATGAAGAAGG
**
126673 GATCGATCCTTTCTTTCGAGA
1 GATCGATCCTTTCTCCCGAGA
* *
126694 GATCGATTCTTTCTCCCGAGG
1 GATCGATCCTTTCTCCCGAGA
126715 GATCGATCCTTT
1 GATCGATCCTTT
126727 TGAAAAGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (21 bp):
GATCGATCCTTTCTCCCGAGA
Found at i:129273 original size:30 final size:30
Alignment explanation
Indices: 129237--129357 Score: 233
Period size: 30 Copynumber: 4.0 Consensus size: 30
129227 GATAAAAACA
129237 TAGTTTAGTGATATTTAGTAGCATCGTCAT
1 TAGTTTAGTGATATTTAGTAGCATCGTCAT
129267 TAGTTTAGTGATATTTAGTAGCATCGTCAT
1 TAGTTTAGTGATATTTAGTAGCATCGTCAT
*
129297 TAGTTTAGTGATATTTAATAGCATCGTCAT
1 TAGTTTAGTGATATTTAGTAGCATCGTCAT
129327 TAGTTTAGTGATATTTAGTAGCATCGTCAT
1 TAGTTTAGTGATATTTAGTAGCATCGTCAT
129357 T
1 T
129358 GCTTTCAAGC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 89 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (30 bp):
TAGTTTAGTGATATTTAGTAGCATCGTCAT
Found at i:129997 original size:43 final size:43
Alignment explanation
Indices: 129948--130088 Score: 106
Period size: 43 Copynumber: 3.2 Consensus size: 43
129938 GATTCATAAC
129948 AACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAAT
1 AACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAAT
* * * **** * * * * *
129991 AACAAAT-ATTGA-AAAAATTGGACCCCTGAAAGAATTGGATTCATAAC
1 AACAAATAAAT-ATTATAA-T-GAAATTTAAAAGCA-T-G-TCCCTAAT
130038 AACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAAT
1 AACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAAT
130081 AACAAATA
1 AACAAATA
130089 TTGAAAAAAT
Statistics
Matches: 66, Mismatches: 24, Indels: 16
0.62 0.23 0.15
Matches are distributed among these distances:
42 5 0.08
43 22 0.33
44 9 0.14
45 2 0.03
46 9 0.14
47 14 0.21
48 5 0.08
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (43 bp):
AACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAAT
Found at i:130080 original size:90 final size:90
Alignment explanation
Indices: 129927--130109 Score: 366
Period size: 90 Copynumber: 2.0 Consensus size: 90
129917 TAAAAAGTAT
129927 TGAAAGAATTGGATTCATAACAACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAATA
1 TGAAAGAATTGGATTCATAACAACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAATA
129992 ACAAATATTGAAAAAATTGGACCCC
66 ACAAATATTGAAAAAATTGGACCCC
130017 TGAAAGAATTGGATTCATAACAACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAATA
1 TGAAAGAATTGGATTCATAACAACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAATA
130082 ACAAATATTGAAAAAATTGGACCCC
66 ACAAATATTGAAAAAATTGGACCCC
130107 TGA
1 TGA
130110 TAATAAGTAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (90 bp):
TGAAAGAATTGGATTCATAACAACAAATAAATATTATAATGAAATTTAAAAGCATGTCCCTAATA
ACAAATATTGAAAAAATTGGACCCC
Found at i:130253 original size:29 final size:31
Alignment explanation
Indices: 130221--130300 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 31
130211 AGTAAACCCT
130221 TAATAATAAATATTAAAAAA-A-T-AAGACCA
1 TAATAATAAATATTAAAAAAGATTGAA-ACCA
130250 TAATAATAAATATTAAGAAAAGATTGAAACCA
1 TAATAATAAATATTAA-AAAAGATTGAAACCA
*
130282 TAATAATAAGTATTAAAAA
1 TAATAATAAATATTAAAAA
130301 CAATTGGCCC
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
29 16 0.35
30 4 0.09
31 4 0.09
32 20 0.43
33 2 0.04
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.26
Consensus pattern (31 bp):
TAATAATAAATATTAAAAAAGATTGAAACCA
Found at i:146636 original size:3 final size:3
Alignment explanation
Indices: 146624--146658 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
146614 GTTATGAAAA
146624 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
146659 TTTAAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:147164 original size:65 final size:66
Alignment explanation
Indices: 147042--147174 Score: 214
Period size: 65 Copynumber: 2.0 Consensus size: 66
147032 TCATGTTTAT
*
147042 TTTTTCTTATATCCCTTAAAAAACACATTTTTTATATAAAAAATCAATTATCTTATATTATATAT
1 TTTTTCTTATATCCCTTAAAAAACACACTTTTTATATAAAAAATCAATTATCTTATATTATATAT
147107 A
66 A
** * *
147108 TTTTTCTTATATCCCTTAAAAAGGACCCTTTTTAT-TAAAAAATCATTTATCTTATATTATATAT
1 TTTTTCTTATATCCCTTAAAAAACACACTTTTTATATAAAAAATCAATTATCTTATATTATATAT
147172 A
66 A
147173 TT
1 TT
147175 ATCATTAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
65 31 0.50
66 31 0.50
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.48
Consensus pattern (66 bp):
TTTTTCTTATATCCCTTAAAAAACACACTTTTTATATAAAAAATCAATTATCTTATATTATATAT
A
Found at i:148871 original size:10 final size:10
Alignment explanation
Indices: 148856--148883 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
148846 ATAAGATGAT
148856 AAGAATTAAG
1 AAGAATTAAG
148866 AAGAATTAAG
1 AAGAATTAAG
148876 AAGAATTA
1 AAGAATTA
148884 TCTACTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (10 bp):
AAGAATTAAG
Found at i:158460 original size:18 final size:19
Alignment explanation
Indices: 158439--158476 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
158429 TATAAAGTTG
158439 AGAAATTAAT-TTAA-AAAT
1 AGAAA-TAATATTAATAAAT
158457 AGAAATAATATTAATAAAT
1 AGAAATAATATTAATAAAT
158476 A
1 A
158477 TTTACTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AGAAATAATATTAATAAAT
Found at i:161912 original size:12 final size:11
Alignment explanation
Indices: 161885--161909 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
161875 AGGTGATTTG
161885 ACCTAAAAATC
1 ACCTAAAAATC
161896 ACCTAAAAATC
1 ACCTAAAAATC
161907 ACC
1 ACC
161910 CTATGAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACCTAAAAATC
Found at i:162129 original size:28 final size:28
Alignment explanation
Indices: 162089--162166 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
162079 CGCCACGCTG
*
162089 GAAAGAGCATTTCAGGGAACATATATTT
1 GAAAGAGCATTTCAGGGAACACATATTT
* *
162117 GAAAGAGCATTTCAGGGAACACGTCTTT
1 GAAAGAGCATTTCAGGGAACACATATTT
*
162145 GAAAGAG-AGTTTCAGGAAACAC
1 GAAAGAGCA-TTTCAGGGAACAC
162167 GCCTTTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (28 bp):
GAAAGAGCATTTCAGGGAACACATATTT
Found at i:165819 original size:11 final size:12
Alignment explanation
Indices: 165801--165830 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
165791 TCCAAAATAA
165801 ATGAAAAAGGGG
1 ATGAAAAAGGGG
165813 ATGAAAAAGGGG
1 ATGAAAAAGGGG
165825 ATGAAA
1 ATGAAA
165831 CAGTAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.37, T:0.10
Consensus pattern (12 bp):
ATGAAAAAGGGG
Found at i:166367 original size:138 final size:139
Alignment explanation
Indices: 165982--166879 Score: 1082
Period size: 138 Copynumber: 6.5 Consensus size: 139
165972 TACTATTCAC
* * * * *
165982 GTGAAAGCGCGTTTCACA-TGGA-CGCCTTCCCTTTTTTTTGTCAGAGAACATGTTATAATTGCC
1 GTGAAAGCGCGTTTCA-AGGGGAGCGCCTTCCCTTTTTTCT-CCAGAGAATAGGTTATAATTGCC
* *
166045 CTATTATGTGTGATGTCCCCCGACGGGGCACTATTCATGTCAGTGCCTATCATGTTTGAGGGGAC
64 CTATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGAC
* * *
166110 GTATCAAAGTG
129 GCAACAATGTG
* * * * * *
166121 GTGAAAGCGCGTTTTAGGGGGGGCGCCTTCCCTTTTTGTGT-CAGAGAAGAGATTATAATTGCCC
1 GTGAAAGCGCGTTTCAAGGGGAGCGCCTTCCCTTTTT-TCTCCAGAGAATAGGTTATAATTGCCC
* *
166185 TATTATATGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGATG
65 TATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACG
166250 CAACAATGTG
130 CAACAATGTG
* * * *
166260 GTGAAAGCGCGTTTCAAGGGGAGCACCTTCCCTCTTTT-TCAAGAGAATATGTTATAATTGCCCT
1 GTGAAAGCGCGTTTCAAGGGGAGCGCCTTCCCTTTTTTCTCCAGAGAATAGGTTATAATTGCCCT
* * * **
166324 ATTATGTGTGATGTCTCCCGGCGGGGCACTATTCATGTTAGTACCTATCATGTTTAAGGGGAATC
66 ATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
* *
166389 AATAAAGTG
131 AACAATGTG
* * * * * * * *
166398 GTGAAAGCACGTTTCAGGGGGCGCGTCTTCCCTTTTTTGT-AAGAGAATAGGTTGTAATTGTCCT
1 GTGAAAGCGCGTTTCAAGGGGAGCGCCTTCCCTTTTTTCTCCAGAGAATAGGTTATAATTGCCCT
* ** * * * * *
166462 ATTATGTGTGATGTCTCCCGGTAGGGAACTATTCATGTCATTACCTATCATGTTTAAAGGGATGC
66 ATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
*
166527 AACAATGTA
131 AACAATGTG
* * *
166536 ATGAAAGCGCGTTTC-AGGGG-GCACCTTCCCTTTTTT-TCCAGAGAATATGTTATAATTGCCCT
1 GTGAAAGCGCGTTTCAAGGGGAGCGCCTTCCCTTTTTTCTCCAGAGAATAGGTTATAATTGCCCT
* * * * *
166598 ATTATGTGTGATGTCCCCCGGCGGGGTACTATTCATATCAGTACCTATCATGATTGAGAGGACGT
66 ATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
166663 AACAATGTG
131 AACAATGTG
* * * *
166672 GTGAAAGCGCATTTC-AGGGGACGTGTCTT-CCTTTTTTCTCCATAGAATAGGTTATAATTGCCC
1 GTGAAAGCGCGTTTCAAGGGGA-GCGCCTTCCCTTTTTTCTCCAGAGAATAGGTTATAATTGCCC
* * * * *
166735 TATTATGTATGATGTCCTCCGGTGGAGCACTATTCATGTCAGTACCTATCATGTTTGAGGAGACG
65 TATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACG
*
166800 CATCAATGTG
130 CAACAATGTG
*
166810 GTGAAAGCGCGTTTC-AGAGGG-GCGCCTTCCTTTTTTTCTCCAGAGAATAGGTTATAATTGCCC
1 GTGAAAGCGCGTTTCAAG-GGGAGCGCCTTCCCTTTTTTCTCCAGAGAATAGGTTATAATTGCCC
166873 TATTATG
65 TATTATG
166880 CTTGAAATTT
Statistics
Matches: 651, Mismatches: 97, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
135 1 0.00
136 113 0.17
137 18 0.03
138 362 0.56
139 141 0.22
140 14 0.02
141 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (139 bp):
GTGAAAGCGCGTTTCAAGGGGAGCGCCTTCCCTTTTTTCTCCAGAGAATAGGTTATAATTGCCCT
ATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGC
AACAATGTG
Found at i:166643 original size:274 final size:271
Alignment explanation
Indices: 165982--166879 Score: 1138
Period size: 274 Copynumber: 3.3 Consensus size: 271
165972 TACTATTCAC
** * * * *
165982 GTGAAAGCGCGTTTCACATGGACGCCTTCCCTTTTTTTTGTCAGAGAACATGTTATAATTGCCCT
1 GTGAAAGCGCGTTTCA-GGGGGCACCTTCCC-TTTTTTT-CCAGAGAATATGTTATAATTGCCCT
* *
166047 ATTATGTGTGATGTCCCCCGACGGGGCACTATTCATGTCAGTGCCTATCATGTTTGAGGGG-A-C
63 ATTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGAATC
* * * * * *
166110 GTATCAAAGTGGTGAAAGCGCGTTTTAGGGGGGGCGCCTTCCCTTTTTGTGTCAGAGAAGAGATT
128 -AAT-AAAGTGGTGAAAGCGCGTTTCAGGGGGCGCGTCTTCCCTTTTT-TGTCAGAGAATAGGTT
* *
166175 ATAATTGCCCTATTATATGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTT
190 ATAATTGCCCTATTATGTGTGATGT-CCCCGG-TGGGCACTATTCATGTCAGTACCTATCATGTT
*
166240 TGAGGGGATGCAACAATGTG
253 T-AAGGGATGCAACAATGTG
* *
166260 GTGAAAGCGCGTTTCAAGGGGAGCACCTTCCCTCTTTTTCAAGAGAATATGTTATAATTGCCCTA
1 GTGAAAGCGCGTTTC-AGGGG-GCACCTTCCCTTTTTTTCCAGAGAATATGTTATAATTGCCCTA
* * *
166325 TTATGTGTGATGTCTCCCGGCGGGGCACTATTCATGTTAGTACCTATCATGTTTAAGGGGAATCA
64 TTATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGAATCA
* * *
166390 ATAAAGTGGTGAAAGCACGTTTCAGGGGGCGCGTCTTCCCTTTTTTGTAAGAGAATAGGTTGTAA
129 ATAAAGTGGTGAAAGCGCGTTTCAGGGGGCGCGTCTTCCCTTTTTTGTCAGAGAATAGGTTATAA
* * *
166455 TTGTCCTATTATGTGTGATGTCTCCCGGTAGGGAACTATTCATGTCATTACCTATCATGTTTAAA
194 TTGCCCTATTATGTGTGATGTC-CCCGGT-GGGCACTATTCATGTCAGTACCTATCATGTTT-AA
*
166520 GGGATGCAACAATGTA
256 GGGATGCAACAATGTG
*
166536 ATGAAAGCGCGTTTCAGGGGGCACCTTCCCTTTTTTTCCAGAGAATATGTTATAATTGCCCTATT
1 GTGAAAGCGCGTTTCAGGGGGCACCTTCCCTTTTTTTCCAGAGAATATGTTATAATTGCCCTATT
* * * * *
166601 ATGTGTGATGTCCCCCGGCGGGGTACTATTCATATCAGTACCTATCATGATTGAGAGGACGT-AA
66 ATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGA-ATCAA
* * * * * * *
166665 CAATGTGGTGAAAGCGCATTTCAGGGGACGTGTCTT-CCTTTTTTCTCCATAGAATAGGTTATAA
130 TAAAGTGGTGAAAGCGCGTTTCAGGGGGCGCGTCTTCCCTTTTTTGT-CAGAGAATAGGTTATAA
* *
166729 TTGCCCTATTATGTATGATGTCCTCCGGTGGAGCACTATTCATGTCAGTACCTATCATGTTTGAG
194 TTGCCCTATTATGTGTGATGTCC-CCGGTGG-GCACTATTCATGTCAGTACCTATCATGTTTAAG
* *
166794 GAGACGCATCAATGTG
257 G-GATGCAACAATGTG
* * *
166810 GTGAAAGCGCGTTTCAGAGGGGCGCCTTCCTTTTTTTCTCCAGAGAATAGGTTATAATTGCCCTA
1 GTGAAAGCGCGTTTCAG-GGGGCACCTTCCCTTTTTT-TCCAGAGAATATGTTATAATTGCCCTA
166875 TTATG
64 TTATG
166880 CTTGAAATTT
Statistics
Matches: 544, Mismatches: 63, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
273 15 0.03
274 221 0.41
275 24 0.04
276 131 0.24
277 117 0.22
278 26 0.05
279 10 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (271 bp):
GTGAAAGCGCGTTTCAGGGGGCACCTTCCCTTTTTTTCCAGAGAATATGTTATAATTGCCCTATT
ATGTGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGAATCAAT
AAAGTGGTGAAAGCGCGTTTCAGGGGGCGCGTCTTCCCTTTTTTGTCAGAGAATAGGTTATAATT
GCCCTATTATGTGTGATGTCCCCGGTGGGCACTATTCATGTCAGTACCTATCATGTTTAAGGGAT
GCAACAATGTG
Found at i:166782 original size:412 final size:413
Alignment explanation
Indices: 165982--166879 Score: 1139
Period size: 412 Copynumber: 2.2 Consensus size: 413
165972 TACTATTCAC
* * * * * *
165982 GTGAAAGCGCGTTTCACATGGACGCCTTCCCTTTTTTTTGTCAGAGAACATGTTATAATTGCCCT
1 GTGAAAGCACGTTTCAGAGGGGCGCCTTCCC--TTTTTTGTCAGAGAATAGGTTATAATTGCCCT
* * * * * *
166047 ATTATGTGTGATGTCCCCCGACGGGGCACTATTCATGTCAGTGCCTATCATGTTTGAGGGGACGT
64 ATTATGTGTGATGTCCCCCGACAGGGAACTATTCATGTCAGTACCTATCATGTTTAAAGGGACGC
* ** * *
166112 ATCAAAGTGGTGAAAGCGCGTTTTAGGGGGGGCGCCTTCCCTTTTTGTGTCAGAGAAGAGATTAT
129 AACAAAGTAATGAAAGCGCGTTTCA-GGGGGGCACCTTCCCTTTTTGTGTCAGAGAAGAGATTAT
* *
166177 AATTGCCCTATTATATGTGATGTCCCCCGGCGGGGCACTATTCATGTCAGTACCTATCATGTTTG
193 AATTGCCCTATTATATGTGATGTCCCCCGGCGGGGCACTATTCATATCAGTACCTATCATGATTG
* * *
166242 AGGGGATGCAACAATGTGGTGAAAGCGCGTTTCAAGGGGAGCACCTTCCCTCTTTTTCAAGAGAA
258 AGAGGACGCAACAATGTGGTGAAAGCGCATTTCAAGGGGAGCACCTTCCCTCTTTTTCAAGAGAA
* * * *
166307 TATGTTATAATTGCCCTATTATGTGTGATGTCTCCCGGCGGGGCACTATTCATGTTAGTACCTAT
323 TAGGTTATAATTGCCCTATTATGTATGATGTCTCCCGGCGGAGCACTATTCATGTCAGTACCTAT
* *
166372 CATGTTTAAGGGGAATCAAT-AAAGTG
388 CATGTTTAAGGAGAAGC-ATCAAAGTG
* * *
166398 GTGAAAGCACGTTTCAG-GGGGCGCGTCTTCCCTTTTTTGTAAGAGAATAGGTTGTAATTGTCCT
1 GTGAAAGCACGTTTCAGAGGGGCGC--CTTCCCTTTTTTGTCAGAGAATAGGTTATAATTGCCCT
* ** * *
166462 ATTATGTGTGATGTCTCCCGGTAGGGAACTATTCATGTCATTACCTATCATGTTTAAAGGGATGC
64 ATTATGTGTGATGTCCCCCGACAGGGAACTATTCATGTCAGTACCTATCATGTTTAAAGGGACGC
* *
166527 AACAATGTAATGAAAGCGCGTTTCA-GGGGGCACCTTCCCTTTTT-T-TCCAGAGAATATG-TTA
129 AACAAAGTAATGAAAGCGCGTTTCAGGGGGGCACCTTCCCTTTTTGTGT-CAGAGAAGA-GATTA
* *
166588 TAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGTACTATTCATATCAGTACCTATCATGATT
192 TAATTGCCCTATTATATGTGATGTCCCCCGGCGGGGCACTATTCATATCAGTACCTATCATGATT
* *** * * *
166653 GAGAGGACGTAACAATGTGGTGAAAGCGCATTTC-AGGGGACGTGTCTT-CCTTTTTTCTCCATA
257 GAGAGGACGCAACAATGTGGTGAAAGCGCATTTCAAGGGGA-GCACCTTCCCTCTTTT-TCAAGA
*
166716 GAATAGGTTATAATTGCCCTATTATGTATGATGTC-CTCCGGTGGAGCACTATTCATGTCAGTAC
320 GAATAGGTTATAATTGCCCTATTATGTATGATGTCTC-CCGGCGGAGCACTATTCATGTCAGTAC
* * *
166780 CTATCATGTTTGAGGAGACGCATCAATGTG
384 CTATCATGTTTAAGGAGAAGCATCAAAGTG
* * *
166810 GTGAAAGCGCGTTTCAGAGGGGCGCCTTCCTTTTTTTCTCCAGAGAATAGGTTATAATTGCCCTA
1 GTGAAAGCACGTTTCAGAGGGGCGCCTTCCCTTTTTTGT-CAGAGAATAGGTTATAATTGCCCTA
166875 TTATG
65 TTATG
166880 CTTGAAATTT
Statistics
Matches: 415, Mismatches: 57, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
411 29 0.07
412 233 0.56
413 26 0.06
415 106 0.26
416 15 0.04
417 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (413 bp):
GTGAAAGCACGTTTCAGAGGGGCGCCTTCCCTTTTTTGTCAGAGAATAGGTTATAATTGCCCTAT
TATGTGTGATGTCCCCCGACAGGGAACTATTCATGTCAGTACCTATCATGTTTAAAGGGACGCAA
CAAAGTAATGAAAGCGCGTTTCAGGGGGGCACCTTCCCTTTTTGTGTCAGAGAAGAGATTATAAT
TGCCCTATTATATGTGATGTCCCCCGGCGGGGCACTATTCATATCAGTACCTATCATGATTGAGA
GGACGCAACAATGTGGTGAAAGCGCATTTCAAGGGGAGCACCTTCCCTCTTTTTCAAGAGAATAG
GTTATAATTGCCCTATTATGTATGATGTCTCCCGGCGGAGCACTATTCATGTCAGTACCTATCAT
GTTTAAGGAGAAGCATCAAAGTG
Found at i:166904 original size:20 final size:21
Alignment explanation
Indices: 166881--166927 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
166871 CCTATTATGC
*
166881 TTGAAATTT-ATGTTAGAGTG
1 TTGAAATTTGATGTTAGAATG
166901 TTG-AATTTGATGTTAGAATG
1 TTGAAATTTGATGTTAGAATG
166921 -TGAAATT
1 TTGAAATT
166928 GAGTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
TTGAAATTTGATGTTAGAATG
Found at i:166924 original size:19 final size:20
Alignment explanation
Indices: 166885--166933 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
166875 TTATGCTTGA
*
166885 AATTT-ATGTTAGAGTGTTG
1 AATTTGATGTTAGAATGTTG
166904 AATTTGATGTTAGAATG-TG
1 AATTTGATGTTAGAATGTTG
*
166923 AAATTGA-GTTA
1 AATTTGATGTTA
166934 TTTTTTGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 13 0.48
20 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (20 bp):
AATTTGATGTTAGAATGTTG
Found at i:167995 original size:42 final size:43
Alignment explanation
Indices: 167944--168040 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
167934 TACCCCTGCA
*
167944 GGCTAGGAATGTAACCC-TGCGGAGATGACATATGAACTGGTG
1 GGCTAGGAATGTAACCCTTGCAGAGATGACATATGAACTGGTG
* * * *
167986 GGCTTGGAATAT-ACCCTTGCAGAGATGGCATCTGAACTGGTG
1 GGCTAGGAATGTAACCCTTGCAGAGATGACATATGAACTGGTG
* *
168028 GGCTGGGCATGTA
1 GGCTAGGAATGTA
168041 CCTCTGTGGC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
41 4 0.09
42 41 0.91
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.24
Consensus pattern (43 bp):
GGCTAGGAATGTAACCCTTGCAGAGATGACATATGAACTGGTG
Found at i:169810 original size:13 final size:13
Alignment explanation
Indices: 169785--169818 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
169775 TTAATAAAAA
169785 ATAAAATATTATTT
1 ATAAAA-ATTATTT
*
169799 TTAAAAATTATTT
1 ATAAAAATTATTT
169812 ATAAAAA
1 ATAAAAA
169819 AATATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTATTT
Found at i:169820 original size:36 final size:36
Alignment explanation
Indices: 169764--169842 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
169754 AATAATTATG
* *
169764 TAAATATTATTTTAATAAAAA-ATAAAATATTATTTT
1 TAAAAATTATTTTAATAAAAATATAAAA-ACTATTTT
*
169800 TAAAAATTATTTATAA-AAAAATATAACAACTATTTT
1 TAAAAATTATTT-TAATAAAAATATAAAAACTATTTT
*
169836 AAAAAAT
1 TAAAAAT
169843 ATAGTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 29 0.78
37 8 0.22
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (36 bp):
TAAAAATTATTTTAATAAAAATATAAAAACTATTTT
Found at i:172461 original size:3 final size:3
Alignment explanation
Indices: 172455--172584 Score: 251
Period size: 3 Copynumber: 43.3 Consensus size: 3
172445 GACATCATCG
172455 TAA TAA TAA TAA TAA 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
*
172503 TAA TAA TAA TAA TAG 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
172551 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
172585 GAAACATAGA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 125 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:173448 original size:15 final size:15
Alignment explanation
Indices: 173428--173464 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
173418 TAAAGTAACC
173428 TTTTAATATTTATCA
1 TTTTAATATTTATCA
173443 TTTTAATATTTATCA
1 TTTTAATATTTATCA
173458 TTTTAAT
1 TTTTAAT
173465 TCAAAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATATTTATCA
Found at i:174229 original size:2 final size:2
Alignment explanation
Indices: 174222--174295 Score: 132
Period size: 2 Copynumber: 37.5 Consensus size: 2
174212 ACCCTAATCC
*
174222 AT AT AT AT AT AT AG A- 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
174263 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 A
174296 GAAACAACAT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:175030 original size:31 final size:31
Alignment explanation
Indices: 174992--175060 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
174982 TTCTCAGTTT
174992 GGCGCTTCTAACTGAAGCTTGGAAATCATTA
1 GGCGCTTCTAACTGAAGCTTGGAAATCATTA
*
175023 GGCGCTTCTAACTGAAGCTTGGAAGTCATTA
1 GGCGCTTCTAACTGAAGCTTGGAAATCATTA
175054 GGCGCTT
1 GGCGCTT
175061 AACGAGTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (31 bp):
GGCGCTTCTAACTGAAGCTTGGAAATCATTA
Found at i:175217 original size:18 final size:17
Alignment explanation
Indices: 175187--175225 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
175177 GATAGGAAAG
175187 TTATATAACATAAATTA
1 TTATATAACATAAATTA
*
175204 TTATGATAATATAAATTA
1 TTAT-ATAACATAAATTA
175222 TTAT
1 TTAT
175226 TTAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TTATATAACATAAATTA
Found at i:178737 original size:19 final size:19
Alignment explanation
Indices: 178713--178749 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
178703 ATGACCAACA
*
178713 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
178732 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
178750 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:178948 original size:19 final size:21
Alignment explanation
Indices: 178905--178949 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
178895 TTTGCGATTT
**
178905 TCCAAATTCGTGTAGTGATTT
1 TCCAAATTCGTGTAGTGATAG
178926 TCCAAATTCGT-T-GTGATAG
1 TCCAAATTCGTGTAGTGATAG
178945 TCCAA
1 TCCAA
178950 GTAGAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (21 bp):
TCCAAATTCGTGTAGTGATAG
Found at i:179385 original size:19 final size:19
Alignment explanation
Indices: 179361--179397 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
179351 TTATTTTGGA
179361 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
179380 TTTTTCACTATCGCAACA
1 TTTTTCACTATCGCAACA
179398 ACACGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:185714 original size:15 final size:15
Alignment explanation
Indices: 185694--185723 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
185684 GTCTCTCTCT
185694 CTTACATACACAAAA
1 CTTACATACACAAAA
185709 CTTACATACACAAAA
1 CTTACATACACAAAA
185724 AAGCTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
CTTACATACACAAAA
Found at i:189091 original size:47 final size:46
Alignment explanation
Indices: 188950--189094 Score: 118
Period size: 47 Copynumber: 3.0 Consensus size: 46
188940 AAAAAGTTGG
*
188950 ATGAGGTATGTTTTCTCGTGTGATGGTTAGCATGTTTTGTTTAGAGAA
1 ATGAGG-ATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGA-AA
** * * * *
188998 AT-TTGATCTTTTCATGAATGTTGAT--TT-GTCATTTTTTCTTGATAGAAA
1 ATGAGGATGTTTTC-T-CATG-TGATGGTTAG-CATGTTTTGTT--TAGAAA
189046 ATGAGGCATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGAAA
1 ATGAGG-ATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGAAA
189093 AT
1 AT
189095 TTTGATATTT
Statistics
Matches: 73, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
46 8 0.11
47 25 0.34
48 11 0.15
49 21 0.29
50 8 0.11
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (46 bp):
ATGAGGATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGAAA
Found at i:189142 original size:96 final size:96
Alignment explanation
Indices: 188950--189143 Score: 300
Period size: 96 Copynumber: 2.0 Consensus size: 96
188940 AAAAAGTTGG
* * *
188950 ATGAGGTATGTTTTCTCGTGTGATGGTTAGCATGTTTTGTTTAGAGAAATTTGATCTTTTCATGA
1 ATGAGGCATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGAGAAATTTGATATTTTCATGA
* * *
189015 ATGTTGATTTGTCATTTTTTCTTGATAGAAA
66 ATGTTGATTTGTCATTCTCTCTTAATAGAAA
189046 ATGAGGCATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGA-AAATTTTGATATTTTCATG
1 ATGAGGCATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGAGAAA-TTTGATATTTTCATG
* *
189110 AATGTTGATTTGTTATTCTCTCTTAATTGAAA
65 AATGTTGATTTGTCATTCTCTCTTAATAGAAA
189142 AT
1 AT
189144 ACATAGTGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 3 0.03
96 86 0.97
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (96 bp):
ATGAGGCATGTTTTCTCATGTGATGGTTAGCATGTTTTGTTTAGAGAAATTTGATATTTTCATGA
ATGTTGATTTGTCATTCTCTCTTAATAGAAA
Found at i:202450 original size:31 final size:32
Alignment explanation
Indices: 202396--202455 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
202386 TTATTTTTAA
202396 TAAAATTTGTGACTTCTTTAAAATAATTGATT
1 TAAAATTTGTGACTTCTTTAAAATAATTGATT
* * *
202428 TAAAATTTGTTA-TTTTTTAAAATTATTG
1 TAAAATTTGTGACTTCTTTAAAATAATTG
202456 TGAATTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (32 bp):
TAAAATTTGTGACTTCTTTAAAATAATTGATT
Found at i:203091 original size:6 final size:7
Alignment explanation
Indices: 203073--203097 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
203063 AAGAAGAGAT
203073 TAAAAAG
1 TAAAAAG
203080 TAAAAAG
1 TAAAAAG
203087 TAAAAAG
1 TAAAAAG
203094 TAAA
1 TAAA
203098 TATGAGCTTT
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:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (7 bp):
TAAAAAG
Found at i:206775 original size:56 final size:55
Alignment explanation
Indices: 206714--206866 Score: 200
Period size: 56 Copynumber: 2.7 Consensus size: 55
206704 CTATTGTCTT
* *
206714 GATATATTCGATTTCGGAACTCCTATTTTTATGCTTCTTAATGGCAACAATTGATA
1 GATATACTCGATTTCGG-ACTCCTATTTTTATGCTTCTTAATGGCAACAACTGATA
* * * *
206770 TATATACTCAATTTTGGAGTCTCTATTTTTATGCTTCTTAATGGCAACAACTGATA
1 GATATACTCGATTTCGGACTC-CTATTTTTATGCTTCTTAATGGCAACAACTGATA
* *
206826 GATATACTCGATTTCAGGGC-CCTATTTTTATGCTTATTAAT
1 GATATACTCGATTTC-GGACTCCTATTTTTATGCTTCTTAAT
206867 AGCCACCCTC
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
55 22 0.27
56 59 0.71
57 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (55 bp):
GATATACTCGATTTCGGACTCCTATTTTTATGCTTCTTAATGGCAACAACTGATA
Found at i:208480 original size:18 final size:19
Alignment explanation
Indices: 208422--208481 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
208412 TAAAATAAAA
**
208422 ATTGTTATTTTTTAAAATT
1 ATTGTTATTTTTTTGAATT
* *
208441 ATTGTGAATTTTTTGTATATT
1 ATTGTTATTTTTTTG-A-ATT
208462 ATT-TTATTTTTTTGAATT
1 ATTGTTATTTTTTTGAATT
208480 AT
1 AT
208482 AACTGAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 5 0.15
19 12 0.36
20 10 0.30
21 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
ATTGTTATTTTTTTGAATT
Found at i:214354 original size:33 final size:33
Alignment explanation
Indices: 214307--214369 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
214297 AGTTGAAATG
* *
214307 GAGGAAGGTAAGTTCTTCCCAAATGGGGATCTT
1 GAGGAAGGTAAGTTCTTACCAAATGAGGATCTT
*
214340 GAGGAAGGTGAGTTCTTACCAAATGAGGAT
1 GAGGAAGGTAAGTTCTTACCAAATGAGGAT
214370 TTTACTGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (33 bp):
GAGGAAGGTAAGTTCTTACCAAATGAGGATCTT
Found at i:217532 original size:38 final size:38
Alignment explanation
Indices: 217490--217568 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
217480 GAATAAGTCG
* *
217490 AATATTGGATGGTCAAAGT-TTCATATCCGAATTATCAA
1 AATATTGGATAGTCAAA-TATTCATATCCAAATTATCAA
* * *
217528 AATATTGGATATTCAAATATTCATGTCTAAATTATCAA
1 AATATTGGATAGTCAAATATTCATATCCAAATTATCAA
217566 AAT
1 AAT
217569 TCATTGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (38 bp):
AATATTGGATAGTCAAATATTCATATCCAAATTATCAA
Found at i:219712 original size:23 final size:22
Alignment explanation
Indices: 219688--219732 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
219678 CTTCGATATT
219688 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
219712 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
219733 TTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:221161 original size:3 final size:3
Alignment explanation
Indices: 221153--221203 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
221143 TATTTATTTG
221153 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
221198 TAA TAA
1 TAA TAA
221204 ACAAAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:221527 original size:123 final size:122
Alignment explanation
Indices: 221390--221658 Score: 371
Period size: 123 Copynumber: 2.2 Consensus size: 122
221380 TCTTCAGAAG
* * *
221390 AGTTCTTCTCATTATGAACTTTCCGCTGG-TGATGATGTTGACCTATTTCCTTCTGTGTGATAGA
1 AGTTCTTCTCATTATGAACTTTCCGCTGGAAGATGATGATGACCTATCTCCTTC--TGTGATAGA
*
221454 GTCAAACAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATA
64 GTCAAACAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATA
* * *
221513 AGTTCTTCTCATTATGAACTTT-CTCTGGAAAAGTTGATGATGATCTATCTCCTTCTGTGATAGA
1 AGTTCTTCTCATTATGAACTTTCCGCTGG--AAGATGATGATGACCTATCTCCTTCTGTGATAGA
** * * *
221577 GTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATA
64 GTCAAACAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATA
*
221636 AGTTCTTCTTATTATGAACTTTC
1 AGTTCTTCTCATTATGAACTTTC
221659 TGGAAATGTT
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
122 5 0.04
123 105 0.81
125 19 0.15
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (122 bp):
AGTTCTTCTCATTATGAACTTTCCGCTGGAAGATGATGATGACCTATCTCCTTCTGTGATAGAGT
CAAACAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATA
Found at i:221887 original size:113 final size:113
Alignment explanation
Indices: 221686--222237 Score: 842
Period size: 113 Copynumber: 4.9 Consensus size: 113
221676 CGATCAAACT
* *
221686 AAAGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
221750 TGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAA
66 TGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAGCAA
* *
221798 AAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
** * * **
221863 TGAACTTTCTCTGGAAAAACTGATCCATCAAGTGATGGATTTGAGCAA
66 TGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAGCAA
221911 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
221976 TGAACTTGAC-CTGGTAATGTTGATCCATCAAATGATGAATTCAAGCAA
66 TGAACTT-TCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAGCAA
* *
222024 AAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCCTTA
1 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
222089 TGAACTTTCTCT-GATAATGTTGATCCATCAAATGATGAATTCAAGCGA
66 TGAACTTTCTCTGGA-AAAGTTGATCCATCAAATGATGAATTCAAGCAA
*
222137 AAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* **
222202 TGAACTTTCTCT-GAAATGTTGATCCATTGAATGATG
66 TGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATG
222238 GATTTGAACT
Statistics
Matches: 406, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
112 59 0.15
113 346 0.85
114 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGAATTCAAGCAA
Found at i:222670 original size:22 final size:22
Alignment explanation
Indices: 222645--222699 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
222635 GATAAAGCTT
*
222645 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
222667 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
222689 TCATCTTTGAA
1 TCATCTTTGAA
222700 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:227625 original size:21 final size:22
Alignment explanation
Indices: 227601--227663 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
227591 CTTGATTCAA
227601 TTTTTTTCTTTTTCTTTTT-TG
1 TTTTTTTCTTTTTCTTTTTGTG
* * *
227622 TTTTGTTTTTTTTTGTTTTTGTT
1 TTTT-TTTCTTTTTCTTTTTGTG
227645 TTCTTTTTCTTCTTTCTTT
1 TT-TTTTTCTT-TTTCTTT
227664 GCTAGATGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
23 8 0.24
24 8 0.24
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (22 bp):
TTTTTTTCTTTTTCTTTTTGTG
Found at i:230911 original size:14 final size:14
Alignment explanation
Indices: 230878--230931 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
230868 ATGACATAAA
* *
230878 AAATGCAAAGATGCC
1 AAATGTAAATATG-C
230893 AAATGTAAATATGC
1 AAATGTAAATATGC
* *
230907 AAATGTAAAAATGT
1 AAATGTAAATATGC
230921 AAATGTAAATA
1 AAATGTAAATA
230932 CAAACGTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 23 0.68
15 11 0.32
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (14 bp):
AAATGTAAATATGC
Found at i:233045 original size:23 final size:22
Alignment explanation
Indices: 233021--233065 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
233011 CTTCGATATT
233021 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
233045 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
233066 TTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:234501 original size:3 final size:3
Alignment explanation
Indices: 234493--234539 Score: 76
Period size: 3 Copynumber: 15.0 Consensus size: 3
234483 TATTTATTTG
234493 TAA TAA TAA TAA TAA TAA TAA GTAA TAA TATA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA
234540 ACAAAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 36 0.86
4 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:234555 original size:26 final size:26
Alignment explanation
Indices: 234498--234561 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
234488 ATTTGTAATA
** *
234498 ATAATAATAATAATAAGTAATAATAT
1 ATAATAATAATAATAAACAATAAAAT
234524 ATAATAATAATAATAAACAA-AAAAT
1 ATAATAATAATAATAAACAATAAAAT
234549 ATCAATAA-AATAA
1 AT-AATAATAATAA
234562 AATAAATGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.32
26 23 0.68
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (26 bp):
ATAATAATAATAATAAACAATAAAAT
Found at i:239557 original size:174 final size:175
Alignment explanation
Indices: 239267--239616 Score: 693
Period size: 174 Copynumber: 2.0 Consensus size: 175
239257 AATTCTAGTT
239267 ATGAATTTATGATATTTACTAGTGAGTGGTAAGTTAGATAGAGAAATGTTGATAGGAGTAAATTT
1 ATGAATTTATGATATTTACTAGTGAGTGGTAAGTTAGATAGAGAAATGTTGATAGGAGTAAATTT
239332 TCCTTTGTGAAGCTTTCATATCTTCAAATATTTTTTCTTTGGAATGTTTCGAGTGTTGAGCTTAG
66 TCCTTTGTGAAGCTTTCATATCTTCAAATATTTTTTCTTTGGAATGTTTCGAGTGTTGAGCTTAG
239397 AGCCTCGA-TTTTTTCCTTTTCTGCCTAAATGATCCTAGTAATTG
131 AGCCTCGATTTTTTTCCTTTTCTGCCTAAATGATCCTAGTAATTG
239441 ATGAATTTATGATATTTACTAGTGAGTGGTAAGTTAGATAGAGAAATGTTGATAGGAGTAAATTT
1 ATGAATTTATGATATTTACTAGTGAGTGGTAAGTTAGATAGAGAAATGTTGATAGGAGTAAATTT
239506 TCCTTTGTGAAGCTTTCATATCTTCAAATATTTTTTCTTTGGAATGTTTCGAGTGTTGAGCTTAG
66 TCCTTTGTGAAGCTTTCATATCTTCAAATATTTTTTCTTTGGAATGTTTCGAGTGTTGAGCTTAG
239571 AGCCTCGATTTTTTTCCTTTTCTGCCTAAATGATCCTAGTAATTG
131 AGCCTCGATTTTTTTCCTTTTCTGCCTAAATGATCCTAGTAATTG
239616 A
1 A
239617 CTGTTGAAAG
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
174 138 0.79
175 37 0.21
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (175 bp):
ATGAATTTATGATATTTACTAGTGAGTGGTAAGTTAGATAGAGAAATGTTGATAGGAGTAAATTT
TCCTTTGTGAAGCTTTCATATCTTCAAATATTTTTTCTTTGGAATGTTTCGAGTGTTGAGCTTAG
AGCCTCGATTTTTTTCCTTTTCTGCCTAAATGATCCTAGTAATTG
Found at i:243711 original size:2 final size:2
Alignment explanation
Indices: 243704--243728 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
243694 CGGCGATCTC
243704 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 A
243729 GTTAAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:257467 original size:60 final size:59
Alignment explanation
Indices: 257340--257472 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 59
257330 TTTTTAATAT
* * ** *
257340 TTTAATTTTATCCTCAAACTATGATACTCATTCTAAATTAGTCCTTAGACATTTGAACA
1 TTTAATTTCATCCTCAAACTATGACACTCATTCTAAATTAGTCCCCAGACATTTAAACA
* * * * *
257399 TTTCAATTTCATCCTCAAACTATGACCCTCATTCTACATTGGTCCCCAGACTTTTAAACC
1 TTT-AATTTCATCCTCAAACTATGACACTCATTCTAAATTAGTCCCCAGACATTTAAACA
257459 TTCTAATTTCATCC
1 TT-TAATTTCATCC
257473 CCAATTTCAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 3 0.05
60 58 0.94
61 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (59 bp):
TTTAATTTCATCCTCAAACTATGACACTCATTCTAAATTAGTCCCCAGACATTTAAACA
Found at i:258448 original size:12 final size:12
Alignment explanation
Indices: 258431--258498 Score: 86
Period size: 12 Copynumber: 5.7 Consensus size: 12
258421 GAGAACCGAG
258431 TAAATGAGTCGA
1 TAAATGAGTCGA
*
258443 TAAATGAG-CTTA
1 TAAATGAGTC-GA
258455 TAAATGAGTCGA
1 TAAATGAGTCGA
*
258467 TAAATGAG-CTTA
1 TAAATGAGTC-GA
258479 TAAATGAGTCGA
1 TAAATGAGTCGA
258491 TAAATGAG
1 TAAATGAG
258499 CTTGTTCGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (12 bp):
TAAATGAGTCGA
Found at i:258461 original size:24 final size:24
Alignment explanation
Indices: 258431--258501 Score: 142
Period size: 24 Copynumber: 3.0 Consensus size: 24
258421 GAGAACCGAG
258431 TAAATGAGTCGATAAATGAGCTTA
1 TAAATGAGTCGATAAATGAGCTTA
258455 TAAATGAGTCGATAAATGAGCTTA
1 TAAATGAGTCGATAAATGAGCTTA
258479 TAAATGAGTCGATAAATGAGCTT
1 TAAATGAGTCGATAAATGAGCTT
258502 GTTCGTGAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (24 bp):
TAAATGAGTCGATAAATGAGCTTA
Done.