Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007373.1 Hibiscus syriacus cultivar Beakdansim tig00019789_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: 561090
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:214476 original size:10 final size:9
Alignment explanation
Indices: 214442--214489 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
214432 CCGTTGACCC
214442 GACC-CGTT
1 GACCACGTT
214450 GA-C-CGTT
1 GACCACGTT
214457 GACC-CGTT
1 GACCACGTT
214465 GACCCACGTT
1 GA-CCACGTT
214475 GACCACTGTT
1 GACCAC-GTT
214485 GACCA
1 GACCA
214490 AAACTTTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 9 0.25
9 6 0.17
10 14 0.39
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (9 bp):
GACCACGTT
Found at i:215741 original size:18 final size:18
Alignment explanation
Indices: 215715--215755 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
215705 ATTGTTCGAA
* *
215715 AAGACTGAAGTAAATGAT
1 AAGATTGAAGTAAATAAT
*
215733 AAGATTGAATTAAATAAT
1 AAGATTGAAGTAAATAAT
215751 AAGAT
1 AAGAT
215756 CGGATGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.27
Consensus pattern (18 bp):
AAGATTGAAGTAAATAAT
Found at i:216737 original size:47 final size:47
Alignment explanation
Indices: 216682--216780 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
216672 ATAACTGATG
216682 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
1 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
216729 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
1 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
216776 ATTCT
1 ATTCT
216781 ATCGGTATAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (47 bp):
ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
Found at i:217024 original size:24 final size:24
Alignment explanation
Indices: 216903--217017 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
216893 TCGATTTGAT
216903 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
216927 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
216951 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
216975 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
216998 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
217018 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:217040 original size:24 final size:24
Alignment explanation
Indices: 216954--217027 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
216944 ACATGGATTC
* * *
216954 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
216978 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
217002 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
217026 TG
1 TG
217028 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:220760 original size:30 final size:30
Alignment explanation
Indices: 220725--220786 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
220715 ACCATTTTGA
220725 GGGAGAAATTTTTGGAGAACAATAGTCATT
1 GGGAGAAATTTTTGGAGAACAATAGTCATT
220755 GGGAGAAATTTTTGGAGAACAATAGTCATT
1 GGGAGAAATTTTTGGAGAACAATAGTCATT
220785 GG
1 GG
220787 CTAGGCCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (30 bp):
GGGAGAAATTTTTGGAGAACAATAGTCATT
Found at i:224816 original size:14 final size:14
Alignment explanation
Indices: 224797--224844 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
224787 ATTTAGATTT
224797 TTAAAATTACATTA
1 TTAAAATTACATTA
224811 TT-AAA--A-ATTA
1 TTAAAATTACATTA
*
224821 TTAAAAATACATTA
1 TTAAAATTACATTA
224835 TTGAAAATTA
1 TT-AAAATTA
224845 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
10 6 0.21
11 4 0.14
13 4 0.14
14 8 0.29
15 6 0.21
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (14 bp):
TTAAAATTACATTA
Found at i:224822 original size:10 final size:10
Alignment explanation
Indices: 224807--224871 Score: 55
Period size: 10 Copynumber: 6.3 Consensus size: 10
224797 TTAAAATTAC
224807 ATTATTAAAA
1 ATTATTAAAA
224817 ATTATTAAAAATA
1 ATTATT--AAA-A
*
224830 CATTATTGAAA
1 -ATTATTAAAA
224841 ATTA-T-AAA
1 ATTATTAAAA
224849 ATT-TTAAAA
1 ATTATTAAAA
224858 ATATATTAAAA
1 AT-TATTAAAA
224869 ATT
1 ATT
224872 CTATAATACA
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
8 7 0.15
9 6 0.13
10 12 0.26
11 9 0.20
12 5 0.11
13 1 0.02
14 6 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:224831 original size:24 final size:24
Alignment explanation
Indices: 224797--224849 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
224787 ATTTAGATTT
*
224797 TTAAAATTACATTATTAAAAATTA
1 TTAAAAATACATTATTAAAAATTA
*
224821 TTAAAAATACATTATTGAAAATTA
1 TTAAAAATACATTATTAAAAATTA
224845 -TAAAA
1 TTAAAA
224850 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
TTAAAAATACATTATTAAAAATTA
Found at i:224998 original size:6 final size:7
Alignment explanation
Indices: 224977--225019 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
224967 ATTTGTAGTT
224977 AACCCTA
1 AACCCTA
224984 AACCCTA
1 AACCCTA
224991 AA-CCTA
1 AACCCTA
* *
224997 AATCATA
1 AACCCTA
225004 AACCCTA
1 AACCCTA
*
225011 ATCCCTA
1 AACCCTA
225018 AA
1 AA
225020 TCCGATTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:225007 original size:20 final size:21
Alignment explanation
Indices: 224982--225021 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
224972 TAGTTAACCC
224982 TAAACCCTAA-ACCTAAATCA
1 TAAACCCTAATACCTAAATCA
*
225002 TAAACCCTAATCCCTAAATC
1 TAAACCCTAATACCTAAATC
225022 CGATTATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAATACCTAAATCA
Found at i:226462 original size:17 final size:18
Alignment explanation
Indices: 226440--226473 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
226430 TATGTGGTCT
226440 AAATATAAAAAA-ATAAA
1 AAATATAAAAAATATAAA
226457 AAATATAAAAAATATAA
1 AAATATAAAAAATATAA
226474 TATGCTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATATAAAAAATATAAA
Found at i:226464 original size:9 final size:9
Alignment explanation
Indices: 226440--226473 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
226430 TATGTGGTCT
226440 AAATATAAA
1 AAATATAAA
226449 AAA-ATAAA
1 AAATATAAA
226457 AAATATAAA
1 AAATATAAA
226466 AAATATAA
1 AAATATAA
226474 TATGCTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATATAAA
Found at i:226602 original size:27 final size:27
Alignment explanation
Indices: 226569--226621 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
226559 AAATAAGAAA
*
226569 TAAATCAGTGACCTAATTATAAAATAC
1 TAAATCAGTGACCTAAATATAAAATAC
226596 TAAATCAGTGACCTAAATATAAAATA
1 TAAATCAGTGACCTAAATATAAAATA
226622 TGAATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAATCAGTGACCTAAATATAAAATAC
Found at i:226879 original size:20 final size:18
Alignment explanation
Indices: 226837--226879 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
226827 ATTTGGAGGA
*
226837 CTAAAAACCTAAATTATC
1 CTAAAAACCTAAATTAAC
226855 CTAAAAACCTAATATATAAC
1 CTAAAAACCTAA-AT-TAAC
226875 CTAAA
1 CTAAA
226880 TAGAACACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (18 bp):
CTAAAAACCTAAATTAAC
Found at i:228131 original size:56 final size:55
Alignment explanation
Indices: 227977--228395 Score: 429
Period size: 55 Copynumber: 7.6 Consensus size: 55
227967 CAAATGATAA
* * * *
227977 GTCTGTTCCCTATTCCTTCAGGGAGTATA-AGACTCGAACAATCTTAAATAAACGA
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAACGG
* * * *
228032 GTTTGCTCCCTATTCGTTCAGGGAGTATA-AGACTTGAACAATCTTCAATAAAACGG
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAAT-AAACGG
* * * *
228088 GTCCGCTCTCTATTCCTTCAGAGATTATAGAACTCGAAAAATCTTCAATAAACGG
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACGG
* * * * *
228143 GTCTGCTCCCTATTCGTTCAGGGAGTATA-AGACTCGAATAACCTTCAATAAAACAG
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAAT-AAACGG
* *
228199 GTCCT-CTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAAC-G
1 GT-CTGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACGG
* * * *
228253 GTCTGCTCCCTATT--TTCAGGGAGTATAGAACTCGAACAATCTTCAACAAATGT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACGG
* * * * ** **
228306 GTCTGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTCGACGAACTT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACGG
* * *
228361 TTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGAACTC
228396 AATCTTCAAC
Statistics
Matches: 310, Mismatches: 44, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
52 33 0.11
53 16 0.05
54 12 0.04
55 157 0.51
56 88 0.28
57 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (55 bp):
GTCTGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACGG
Found at i:228150 original size:111 final size:111
Alignment explanation
Indices: 227986--228351 Score: 492
Period size: 111 Copynumber: 3.3 Consensus size: 111
227976 AGTCTGTTCC
* * * * *
227986 CTATTCCTTCAGGGAGTATA-AGACTCGAACAATCTTAAATAAACGAGTTTGCTCCCTATTCGTT
1 CTATTCCTTCAGAGAGTATAGA-ACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTT
*
228050 CAGGGAGTATAAGACTTGAACAATCTTCAATAAAACGGGTCCGCTCT
65 CAGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
*
228097 CTATTCCTTCAGAGATTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
* * * *
228162 AGGGAGTATAAGACTCGAATAACCTTCAATAAAACAGGTCCTCTCT
66 AGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
228208 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAAC-GGTCTGCTCCCTATT--TTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
* * * * *
228270 AGGGAGTAT-AGAACTCGAACAATCTTCAA-CAAATGTGTCTGCTCC
66 AGGGAGTATAAG-ACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
* * * *
228315 CTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTC
228352 GACGAACTTT
Statistics
Matches: 228, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
107 44 0.19
108 27 0.12
110 15 0.07
111 141 0.62
112 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (111 bp):
CTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTC
AGGGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCT
Found at i:229720 original size:14 final size:13
Alignment explanation
Indices: 229701--229849 Score: 99
Period size: 14 Copynumber: 10.9 Consensus size: 13
229691 TTTTTTCTAT
229701 TTTTTCATTTTTC
1 TTTTTCATTTTTC
229714 ATTTTTCATTTTTC
1 -TTTTTCATTTTTC
** *
229728 TCTTTTTGTTTTTG
1 T-TTTTCATTTTTC
229742 TTTTTCATTTTT-
1 TTTTTCATTTTTC
*
229754 TTCTTCCATTTTTTC
1 TT-TTTCA-TTTTTC
229769 TTTTTCTATTTTTC
1 TTTTTC-ATTTTTC
*
229783 ATTTTCATTTTT-
1 TTTTTCATTTTTC
**
229795 TTCATCATTTTTC
1 TTTTTCATTTTTC
229808 ATTTTTTCTCATTTTT-
1 ---TTTT-TCATTTTTC
*
229824 TTCTTC-TTTTTC
1 TTTTTCATTTTTC
229836 TTCTTTTCATTTTT
1 -T-TTTTCATTTTT
229850 TATTATTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
11 5 0.05
12 13 0.12
13 24 0.23
14 46 0.43
15 8 0.08
16 2 0.02
17 8 0.08
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.74
Consensus pattern (13 bp):
TTTTTCATTTTTC
Found at i:229739 original size:20 final size:19
Alignment explanation
Indices: 229700--229842 Score: 60
Period size: 20 Copynumber: 7.1 Consensus size: 19
229690 TTTTTTTCTA
229700 TTTTTTCATTTTTCAT-TTT
1 TTTTTTCATTTTTC-TCTTT
* *
229719 TCATTTTTCTCTTTTTGT-TTT
1 T--TTTTTC-ATTTTTCTCTTT
* *
229740 TGTTTTTCATTTTTTTCTTCCA
1 T-TTTTTCATTTTTCTCTT--T
*
229762 TTTTTTC-TTTTTCTATTT
1 TTTTTTCATTTTTCTCTTT
* * *
229780 TTCATTTTCATTTTTTTCATC
1 TT--TTTTCATTTTTCTCTTT
*
229801 ATTTTTCATTTTTTCTCATTT
1 TTTTTTCA-TTTTTCTC-TTT
229822 TTTTCTTC-TTTTTCTTCTTT
1 TTTT-TTCATTTTTC-TCTTT
229842 T
1 T
229843 CATTTTTTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 25
0.68 0.13 0.18
Matches are distributed among these distances:
18 2 0.02
19 13 0.14
20 38 0.41
21 31 0.33
22 9 0.10
ACGTcount: A:0.08, C:0.15, G:0.01, T:0.75
Consensus pattern (19 bp):
TTTTTTCATTTTTCTCTTT
Found at i:229753 original size:41 final size:39
Alignment explanation
Indices: 229690--229849 Score: 110
Period size: 40 Copynumber: 3.7 Consensus size: 39
229680 CCCCATTTTA
*
229690 TTTTTTTCTATTTTTTCATTTTTCATTTTTCATTTTTCTC
1 TTTTTTT-TTTTTTTTCATTTTTCATTTTTCATTTTTCTC
*
229730 TTTTTGTTTTTGTTTTTCATTTTT--TTCTTCCATTTTT-TC
1 TTTTT-TTTTT-TTTTTCATTTTTCATT-TTTCATTTTTCTC
229769 TTTTTCTATTTTTCATTTTCATTTTTTTCATCATTTTTCATTTTTTCTC
1 TTTTT-T-TTTTT--TTTTCA---TTTT--TCATTTTTCA-TTTTTCTC
* *
229818 ATTTTTTTCTTCTTTTTCTTCTTTTCATTTTT
1 -TTTTTTT-TTTTTTTTCAT-TTTTCATTTTT
229850 TATTATTTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 33
0.71 0.04 0.24
Matches are distributed among these distances:
39 11 0.11
40 20 0.21
41 20 0.21
43 8 0.08
44 5 0.05
45 3 0.03
46 1 0.01
47 9 0.09
48 8 0.08
49 6 0.06
50 5 0.05
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.75
Consensus pattern (39 bp):
TTTTTTTTTTTTTTTCATTTTTCATTTTTCATTTTTCTC
Found at i:229795 original size:61 final size:59
Alignment explanation
Indices: 229731--229868 Score: 135
Period size: 55 Copynumber: 2.4 Consensus size: 59
229721 ATTTTTCTCT
* *
229731 TTTTGTTTTTGTTTTTCATTTTTTTCTTCCATTTTTTCTTTTTCTATTTTTCATTTTCA
1 TTTTTTTTTTTTTTTTCATTTTTTTCTTCCATTTTTTCTTTTTCTATTTTTCATTTTCA
* ** * *
229790 TTTTTTTCATCATTTTTCA-TTTTTTC-T-CATTTTTTTCTTCTT-T-TTCTTC-TTTTCA
1 TTTTTTT-TTTTTTTTTCATTTTTTTCTTCCA-TTTTTTCTTTTTCTATTTTTCATTTTCA
* *
229845 TTTTTTATTATTTTTTCATTTTTT
1 TTTTTTTTTTTTTTTTCATTTTTT
229869 CAGAAAAGGA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
54 8 0.12
55 17 0.26
56 5 0.08
57 3 0.05
58 12 0.18
59 13 0.20
60 8 0.12
ACGTcount: A:0.09, C:0.14, G:0.01, T:0.75
Consensus pattern (59 bp):
TTTTTTTTTTTTTTTTCATTTTTTTCTTCCATTTTTTCTTTTTCTATTTTTCATTTTCA
Found at i:229824 original size:10 final size:9
Alignment explanation
Indices: 229685--229868 Score: 89
Period size: 9 Copynumber: 21.3 Consensus size: 9
229675 TTGAACCCCA
229685 TTTT-ATTT
1 TTTTCATTT
229693 TTTTC-TATT
1 TTTTCAT-TT
229702 TTTTCA--T
1 TTTTCATTT
229709 TTTTCA--T
1 TTTTCATTT
229716 TTTTCATTT
1 TTTTCATTT
*
229725 TTCTC-TTT
1 TTTTCATTT
*
229733 TTGTT-TTTGT
1 TT-TTCATT-T
229743 TTTTCATTT
1 TTTTCATTT
229752 TTTTC-TTCCAT
1 TTTTCATT---T
*
229763 TTTT--TCT
1 TTTTCATTT
*
229770 TTTTC-TAT
1 TTTTCATTT
229778 TTTTCA---
1 TTTTCATTT
229784 TTTTCATTT
1 TTTTCATTT
*
229793 TTTTCATCAT
1 TTTTCAT-TT
229803 TTTTCATTT
1 TTTTCATTT
229812 TTTCTCATTT
1 TTT-TCATTT
229822 TTTTC-TTCT
1 TTTTCATT-T
*
229831 TTTTC-TTC
1 TTTTCATTT
229839 TTTTCATTT
1 TTTTCATTT
*
229848 TTTATTA-TT
1 TTT-TCATTT
229857 TTTTCATTT
1 TTTTCATTT
229866 TTT
1 TTT
229869 CAGAAAAGGA
Statistics
Matches: 142, Mismatches: 11, Indels: 45
0.72 0.06 0.23
Matches are distributed among these distances:
6 6 0.04
7 19 0.13
8 28 0.20
9 59 0.42
10 25 0.18
11 5 0.04
ACGTcount: A:0.10, C:0.14, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTTCATTT
Found at i:229867 original size:7 final size:7
Alignment explanation
Indices: 229701--229813 Score: 80
Period size: 7 Copynumber: 16.7 Consensus size: 7
229691 TTTTTTCTAT
229701 TTTTTCA
1 TTTTTCA
229708 TTTTTCA
1 TTTTTCA
229715 TTTTTCA
1 TTTTTCA
229722 TTTTTC-
1 TTTTTCA
**
229728 TCTTTTTG
1 T-TTTTCA
*
229736 TTTTT-G
1 TTTTTCA
229742 TTTTTCA
1 TTTTTCA
229749 TTTTT--
1 TTTTTCA
*
229754 TTCTTCCA
1 TT-TTTCA
229762 TTTTTTC-
1 -TTTTTCA
229769 TTTTTCTA
1 TTTTTC-A
229777 TTTTTCA
1 TTTTTCA
229784 -TTTTCA
1 TTTTTCA
229790 TTTTT--
1 TTTTTCA
**
229795 TTCATCA
1 TTTTTCA
229802 TTTTTCA
1 TTTTTCA
229809 TTTTT
1 TTTTT
229814 TCTCATTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
5 5 0.06
6 21 0.24
7 48 0.56
8 10 0.12
9 2 0.02
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:241082 original size:10 final size:10
Alignment explanation
Indices: 241067--241094 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
241057 TATGTGGTCT
241067 AAATATAAAA
1 AAATATAAAA
241077 AAATATAAAA
1 AAATATAAAA
241087 AAATATAA
1 AAATATAA
241095 CATGCTAAAC
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATATAAAA
Found at i:241221 original size:27 final size:27
Alignment explanation
Indices: 241190--241243 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
241180 AAATCAGAAA
241190 TAAATCAGTGACCT-AATCATAAAATAC
1 TAAATCAGTGACCTAAAT-ATAAAATAC
241217 TAAATCAGTGACCTAAATATAAAATAC
1 TAAATCAGTGACCTAAATATAAAATAC
241244 GCATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (27 bp):
TAAATCAGTGACCTAAATATAAAATAC
Found at i:241502 original size:20 final size:18
Alignment explanation
Indices: 241460--241502 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
241450 ATTTGGAGGA
*
241460 CTAAAAACCTAAATTATC
1 CTAAAAACCTAAATTAAC
241478 CTAAAAACCTAATATATAAC
1 CTAAAAACCTAA-AT-TAAC
241498 CTAAA
1 CTAAA
241503 TAGAACACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (18 bp):
CTAAAAACCTAAATTAAC
Found at i:246800 original size:3 final size:3
Alignment explanation
Indices: 246792--246845 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
246782 TTTTAAAATT
* * *
246792 TTA TTA TTA CTA -TA ATA TTA TTA TTA TTA ATA TTA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
246837 TTA TTA TTA
1 TTA TTA TTA
246846 AATAAATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:246836 original size:25 final size:26
Alignment explanation
Indices: 246796--246846 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
246786 AAAATTTTAT
246796 TATTACTATAATATTATTATTATTAA
1 TATTACTATAATATTATTATTATTAA
*
246822 TATTA-TATATTATTATTATTATTAA
1 TATTACTATAATATTATTATTATTAA
246847 ATAAATTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTACTATAATATTATTATTATTAA
Found at i:248269 original size:25 final size:23
Alignment explanation
Indices: 248241--248308 Score: 57
Period size: 25 Copynumber: 2.7 Consensus size: 23
248231 TTTATTACTT
248241 TTTAATTTTATTTATTTTAGTCATG
1 TTTAATTTTATTTATTTTA-T-ATG
248266 TTT-ATTTATATTTTAATTTTATATG
1 TTTAATTT-TA-TTT-ATTTTATATG
*
248291 TTTATATATTTAATTATT
1 TTTA-AT-TTTATTTATT
248309 ATTTTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
24 4 0.11
25 14 0.39
26 6 0.17
27 10 0.28
28 2 0.06
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTAATTTTATTTATTTTATATG
Found at i:248270 original size:35 final size:35
Alignment explanation
Indices: 248210--248287 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
248200 TAATTTTAAT
248210 ATTTTAATTTATTTTACAAGTTTTA-TTACT-TTTTA
1 ATTTT-ATTTATTTTACAAGTTTTATTTA-TATTTTA
*
248245 ATTTTATTTATTTTAGTCATG-TTTATTTATATTTTA
1 ATTTTATTTATTTTA--CAAGTTTTATTTATATTTTA
248281 ATTTTAT
1 ATTTTAT
248288 ATGTTTATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
34 10 0.26
35 10 0.26
36 18 0.47
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (35 bp):
ATTTTATTTATTTTACAAGTTTTATTTATATTTTA
Found at i:248692 original size:138 final size:138
Alignment explanation
Indices: 248443--248693 Score: 378
Period size: 138 Copynumber: 1.8 Consensus size: 138
248433 TAATCATATT
* *
248443 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGTTGTCTTAAAGAACCTAGAAGTCTTTTTC
1 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGAACCTAGAAGTCATTTTC
* * * *** *
248508 TGATATTCTTAAATAAATAAATATCTTATTTTTATAAGTTATATATATTAATTATTTTTAGAGAA
66 TGATATTCTTAAATAAATAAATATCTAATTTATAAAAAAAAGATATATTAATTATTTTTAGAGAA
248573 ACGTTATA
131 ACGTTATA
* *
248581 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTATAAGTCATTTTC
1 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGAACCTAGAAGTCATTTTC
*
248646 TGATATT-TCTAAGTAAATAAATATCTAATTTATAAAAAAAAGATATAT
66 TGATATTCT-TAAATAAATAAATATCTAATTTATAAAAAAAAGATATAT
248694 ATATTAATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 1 0.01
138 99 0.99
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (138 bp):
TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGAACCTAGAAGTCATTTTC
TGATATTCTTAAATAAATAAATATCTAATTTATAAAAAAAAGATATATTAATTATTTTTAGAGAA
ACGTTATA
Found at i:248732 original size:138 final size:136
Alignment explanation
Indices: 248443--248732 Score: 354
Period size: 138 Copynumber: 2.1 Consensus size: 136
248433 TAATCATATT
* * *
248443 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGTTGTCTTAAAGAACCTAGAAGTCTTTTTC
1 TTAATA-TAATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGAACCTAGAAGTCATTTTC
* * * * *
248508 TGATATTCTTAAATAAATAAATATCTTATTTTTATAAGTTATATATATTAATTATTTTTAGAGAA
65 TGATATTCTTAAATAAATAAATATCTAATTTTAAAAAGATATATATATTAATTATTTTCAGAGAA
248573 ACGTTATA
130 AC-TTATA
* * *
248581 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTATAAGTCATTTTC
1 TTAATA-TAATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGAACCTAGAAGTCATTTTC
*
248646 TGATATT-TCTAAGTAAATAAATATCTAATTTATAAAAAAAAGATATATATATTAATATATTTTC
65 TGATATTCT-TAAATAAATAAATATCTAATTT-T---AAAAAGATATATATATTAAT-TATTTTC
*
248710 ATA-AAA-TTATA
124 AGAGAAACTTATA
248721 TTAATA-AATTTA
1 TTAATATAATTTA
248733 AATAACAGGA
Statistics
Matches: 134, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
137 1 0.01
138 93 0.69
139 1 0.01
140 11 0.08
142 20 0.15
143 8 0.06
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (136 bp):
TTAATATAATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGAACCTAGAAGTCATTTTCT
GATATTCTTAAATAAATAAATATCTAATTTTAAAAAGATATATATATTAATTATTTTCAGAGAAA
CTTATA
Found at i:255917 original size:23 final size:22
Alignment explanation
Indices: 255878--255930 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
255868 TATTTTAGTC
255878 ATTGTTTATTTATATTTATATT-TT
1 ATTGTTTA--TATATTTA-ATTATT
255902 ATATGTTTATATATTTAATTATT
1 AT-TGTTTATATATTTAATTATT
255925 ATTGTT
1 ATTGTT
255931 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 2 0.07
25 6 0.22
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (22 bp):
ATTGTTTATATATTTAATTATT
Found at i:258292 original size:20 final size:20
Alignment explanation
Indices: 258267--258310 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
258257 TATAACAAAT
258267 TGCCCCCTTAATTGAGGGAG
1 TGCCCCCTTAATTGAGGGAG
258287 TGCCCCCTTAATTGAGGGAG
1 TGCCCCCTTAATTGAGGGAG
258307 TGCC
1 TGCC
258311 ATAAAGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.25
Consensus pattern (20 bp):
TGCCCCCTTAATTGAGGGAG
Found at i:262486 original size:45 final size:45
Alignment explanation
Indices: 262436--262681 Score: 341
Period size: 45 Copynumber: 5.4 Consensus size: 45
262426 TGAATAAAAT
* * * *
262436 AATGCATATGGGTGTATTATTGGCATGAAATGATGCCATAATTGA
1 AATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
* * *
262481 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCTATAATTGA
1 AATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
*
262526 AATGCATATGGGTGCATTATCGACATAAAAGGATGCCATAATTGA
1 AATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
* *
262571 AATGCATATGGGTGCACTATCGACATGAAATGATGCCATAATTGA
1 AATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
* * * *
262616 AATGCATATGGGTGCATTATCAACATGAAAAGATGCTAAAATTGAA
1 AATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTG-A
262662 AATGCATAAT-GGTGCATTAT
1 AATGCAT-ATGGGTGCATTAT
262682 AAGCATGAAT
Statistics
Matches: 184, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
45 164 0.89
46 18 0.10
47 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
Found at i:269031 original size:15 final size:15
Alignment explanation
Indices: 269008--269037 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
268998 ATGTACCAGA
*
269008 ATGTCAAAATGGTAT
1 ATGTAAAAATGGTAT
269023 ATGTAAAAATGGTAT
1 ATGTAAAAATGGTAT
269038 CGATACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (15 bp):
ATGTAAAAATGGTAT
Found at i:269666 original size:45 final size:45
Alignment explanation
Indices: 269609--269865 Score: 282
Period size: 45 Copynumber: 5.7 Consensus size: 45
269599 TAAAATAATT
* * *
269609 CATATGGGTGCATTATTAGCATTAAAGGATGCCATAATTAAAATG
1 CATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGAAATG
* ** * *
269654 CATATGAGTGCATTATTGGCATGAAAGGGTGCCATAATTGAAATA
1 CATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGAAATG
* * * * *
269699 CATAAGGGTGTATTATCGGTATGAAAGGATGCAATAATTGAAATG
1 CATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGAAATG
* * * *
269744 CATATGGGTGTATTATCGGCATGAAAGGAAGACATAATTGAAATG
1 CATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGAAATG
* * *
269789 CATATGGGTGCATTATCAACATGAAAGGATGCTAAAATTGAAAATG
1 CATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTG-AAATG
* * *
269835 CATAAT-GGTACATTATAAGCATGAATGGATG
1 CAT-ATGGGTGCATTATCAGCATGAAAGGATG
269866 TTATTAAGGA
Statistics
Matches: 180, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
45 149 0.83
46 29 0.16
47 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (45 bp):
CATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGAAATG
Found at i:270729 original size:32 final size:31
Alignment explanation
Indices: 270693--270768 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
270683 GGGGCCGTGA
*
270693 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
** **
270725 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
270756 AGCCTACCTAAGA
1 GGCCTACCTAAGA
270769 GTCACATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:270751 original size:63 final size:63
Alignment explanation
Indices: 270645--270768 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
270635 CCCTAAGGGA
* * *
270645 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAGAAC
* *
270708 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
270769 GTCACATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 49 0.92
64 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:271670 original size:17 final size:17
Alignment explanation
Indices: 271648--271704 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
271638 CAACGGTCAC
271648 GGTCAAAGGTCGGGTCG
1 GGTCAAAGGTCGGGTCG
*
271665 GGTCAACGGTCGGGTCG
1 GGTCAAAGGTCGGGTCG
271682 GGTCAACA-GTCGGGTCG
1 GGTCAA-AGGTCGGGTCG
271699 GGTCAA
1 GGTCAA
271705 CCCGGTTCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.18, C:0.21, G:0.44, T:0.18
Consensus pattern (17 bp):
GGTCAAAGGTCGGGTCG
Found at i:271705 original size:17 final size:17
Alignment explanation
Indices: 271656--271705 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
271646 ACGGTCAAAG
*
271656 GTCGGGTCGGGTCAACG
1 GTCGGGTCGGGTCAACA
271673 GTCGGGTCGGGTCAACA
1 GTCGGGTCGGGTCAACA
271690 GTCGGGTCGGGTCAAC
1 GTCGGGTCGGGTCAAC
271706 CCGGTTCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.14, C:0.24, G:0.44, T:0.18
Consensus pattern (17 bp):
GTCGGGTCGGGTCAACA
Found at i:271729 original size:9 final size:9
Alignment explanation
Indices: 271699--271765 Score: 62
Period size: 9 Copynumber: 7.1 Consensus size: 9
271689 AGTCGGGTCG
*
271699 GGTCAACCC
1 GGTCAAACC
*
271708 GGTTCAGACC
1 GG-TCAAACC
271718 GGTCAAACC
1 GGTCAAACC
*
271727 GGTTCGAACC
1 GG-TCAAACC
271737 GGTCAAACC
1 GGTCAAACC
* *
271746 GTTCAAAACT
1 GGTC-AAACC
271756 GGTCAAACC
1 GGTCAAACC
271765 G
1 G
271766 TTTTCCAGCA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
9 24 0.52
10 22 0.48
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:271766 original size:19 final size:18
Alignment explanation
Indices: 271699--271767 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
271689 AGTCGGGTCG
* *
271699 GGTCAACCCGGTTCAGACC
1 GGTCAAACC-GTTCAAACC
*
271718 GGTCAAACCGGTTCGAACC
1 GGTCAAACC-GTTCAAACC
*
271737 GGTCAAACCGTTCAAAACT
1 GGTCAAACCGTTC-AAACC
271756 GGTCAAACCGTT
1 GGTCAAACCGTT
271768 TTCCAGCAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
18 4 0.09
19 40 0.91
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (18 bp):
GGTCAAACCGTTCAAACC
Found at i:280019 original size:3 final size:3
Alignment explanation
Indices: 280005--280074 Score: 131
Period size: 3 Copynumber: 23.0 Consensus size: 3
279995 AACACATCTT
280005 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
280051 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
280075 AGTCAAATAT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:281500 original size:20 final size:20
Alignment explanation
Indices: 281467--281531 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
281457 TAACAATTCA
*
281467 ACTCAGTTCAGTTCGAGTTG
1 ACTCAATTCAGTTCGAGTTG
**
281487 ACTCAATTTTGTTCGAGTTG
1 ACTCAATTCAGTTCGAGTTG
* *
281507 ACTCAGTTCAGTTCAAGTTG
1 ACTCAATTCAGTTCGAGTTG
281527 ACTCA
1 ACTCA
281532 CTTCGGTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
ACTCAATTCAGTTCGAGTTG
Found at i:290853 original size:24 final size:24
Alignment explanation
Indices: 290821--290866 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
290811 CACTGGATTG
*
290821 TGGTCTCTT-TTTCTTTTTATTCAT
1 TGGTCTCTTCTTT-TTCTTATTCAT
*
290845 TGGTTTCTTCTTTTTCTTATTC
1 TGGTCTCTTCTTTTTCTTATTC
290867 TTCAAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.07, C:0.17, G:0.09, T:0.67
Consensus pattern (24 bp):
TGGTCTCTTCTTTTTCTTATTCAT
Found at i:295219 original size:95 final size:94
Alignment explanation
Indices: 295101--295318 Score: 210
Period size: 95 Copynumber: 2.3 Consensus size: 94
295091 ATTTAATCAG
* * * * *
295101 TATCGATACCGAT-G-AGGTAGTATCGATACCAGATAATATC-GATCCTAATTTTGGTATCGATA
1 TATCGATACC-ATGGTAGG-AGTATCGATACAAGACAATATCAAAT-CAAATTTTGGTACCGATA
* *
295163 CCAGAAGGGGGTATCGATAACATAATATAATAG
63 CCAGAA-GGGGTATCGATAACATAATAGAATAA
* * * *
295196 TATCGATACCATGGTAAGG-GTATCAATACAAGGCCATATCAAATCAAATTTTGGTACCGATACT
1 TATCGATACCATGGT-AGGAGTATCGATACAAGACAATATCAAATCAAATTTTGGTACCGATACC
* * ** **
295260 GGAAGGGGTATCGATACCATTGTAGGGTAA
65 AGAAGGGGTATCGATAACATAATAGAATAA
295290 TATCGATACCATGGTAGGAGTATCGATAC
1 TATCGATACCATGGTAGGAGTATCGATAC
295319 TGAAGAACCA
Statistics
Matches: 100, Mismatches: 18, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
93 3 0.03
94 45 0.45
95 47 0.47
96 2 0.02
97 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (94 bp):
TATCGATACCATGGTAGGAGTATCGATACAAGACAATATCAAATCAAATTTTGGTACCGATACCA
GAAGGGGTATCGATAACATAATAGAATAA
Found at i:295315 original size:20 final size:22
Alignment explanation
Indices: 295267--295318 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
295257 ACTGGAAGGG
*
295267 GTATCGATACCATTGTAGGGTA
1 GTATCGATACCATGGTAGGGTA
*
295289 ATATCGATACCATGGTA-GG-A
1 GTATCGATACCATGGTAGGGTA
295309 GTATCGATAC
1 GTATCGATAC
295319 TGAAGAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 10 0.37
21 2 0.07
22 15 0.56
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATGGTAGGGTA
Found at i:295712 original size:59 final size:59
Alignment explanation
Indices: 295642--296111 Score: 674
Period size: 59 Copynumber: 8.0 Consensus size: 59
295632 ATTACCAAAT
* * *
295642 GGCACTAAGTGTGCTAAAATATTAAGAAATTCATACTAAGTGTATGAATTTTTGTATAG
1 GGCACTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
* * *
295701 GGCACTTAGTGTGCTAAGATGTTAAGAAATTCATACTAAGTGTATAAATTTCCGTATAG
1 GGCACTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
* * * * *
295760 GGCACTTCGTGTGCCAAAATGTTAAGAAATTCATACTAAGTGTATAAATTTCAGTATAT
1 GGCACTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
** * *
295819 GGTGCTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATTAATTTCTGTATAG
1 GGCACTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
* * *
295878 GGCACTTTGTATGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAG
1 GGCACTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
* * * *
295937 GGCACTTCGTGTGCTAAAATTTTAAGAAATTCATACTAAGTGTATGAATTTATGTATTG
1 GGCACTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
*
295996 GGCACCTTA-TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTG
1 GGCA-CTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
* * *
296055 GGCACCTT-GTGTGCTAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 GGCA-CTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTAT
296112 GAGAAATATG
Statistics
Matches: 374, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
59 371 0.99
60 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (59 bp):
GGCACTTAGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAG
Found at i:302348 original size:19 final size:18
Alignment explanation
Indices: 302324--302359 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
302314 CGAGGAGGTA
302324 GTATCGATACCATGGTAAG
1 GTATCGATACCA-GGTAAG
302343 GTATCGATACCAGGTAA
1 GTATCGATACCAGGTAA
302360 CATCGAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (18 bp):
GTATCGATACCAGGTAAG
Found at i:302423 original size:22 final size:20
Alignment explanation
Indices: 302397--302450 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
302387 CAGAAAGAGG
302397 GTATCGATACCATAGTATAGTA
1 GTATCGATACCATAGTA-AG-A
* * *
302419 GTATCGATGCCATGGTAAGG
1 GTATCGATACCATAGTAAGA
302439 GTATCGATACCA
1 GTATCGATACCA
302451 GGCCAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.39
21 2 0.07
22 15 0.54
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (20 bp):
GTATCGATACCATAGTAAGA
Found at i:302528 original size:94 final size:96
Alignment explanation
Indices: 302320--302537 Score: 293
Period size: 94 Copynumber: 2.3 Consensus size: 96
302310 GTACCGAGGA
*
302320 GGTAGTATCGATACCATGGTAA-GGTATCGATACCAGGTAACATCGAACCTAATTTTTGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAATTTTTGTATCGA
*
302384 AACCAGAAAGAGGGTATCGATACCATAGTAT
66 AACCAGAAAGAGGGTATCGATACCATAGTAG
* * *
302415 AGTAGTATCGATGCCATGGTAAGGGTATCGATACCAGGCCAA-ATCGAATCTAA-TTTTGTTATC
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGG-CAACATCGAACCTAATTTTTG-TATC
* *
302478 GATACC-GGAAG-GGGTATCGATACCATAGTAG
64 GAAACCAGAAAGAGGGTATCGATACCATAGTAG
* * *
302509 GGTAGTATCGATACTATGGTTAGAGTATC
1 GGTAGTATCGATACCATGGTAAGGGTATC
302538 AATATTGAAG
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
94 43 0.40
95 29 0.27
96 34 0.31
97 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (96 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAATTTTTGTATCGA
AACCAGAAAGAGGGTATCGATACCATAGTAG
Found at i:302961 original size:59 final size:59
Alignment explanation
Indices: 302880--303025 Score: 211
Period size: 59 Copynumber: 2.5 Consensus size: 59
302870 TTAAGTGAGC
* *
302880 TAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCCGTATAAGGTACTTTGTGTGA
1 TAAAATGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATAAGGTACTTTGTGTGA
* * * * ** *
302939 TAAAATTTTAATAAATTCATACTAAGTATATGAATTTCCTTATAGGGTGTTTTGTGTGC
1 TAAAATGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATAAGGTACTTTGTGTGA
302998 TAAAATGTTAAGAAATTCATACTAAGTA
1 TAAAATGTTAAGAAATTCATACTAAGTA
303026 AAAATGCTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 76 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (59 bp):
TAAAATGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATAAGGTACTTTGTGTGA
Found at i:309231 original size:19 final size:18
Alignment explanation
Indices: 309191--309276 Score: 77
Period size: 19 Copynumber: 4.7 Consensus size: 18
309181 TTGGGTATGC
* *
309191 AATAAAAAT-ATAAATGA
1 AATAAAAATAAAAAATAA
*
309208 AATAAAGATAAAAAACTAA
1 AATAAAAATAAAAAA-TAA
*
309227 AATAAAAATAAATTAGATAA
1 AATAAAAATAAA--AAATAA
* *
309247 AAT-AAAATAAAATAGAA
1 AATAAAAATAAAAAATAA
309264 AATAAAAATAAAA
1 AATAAAAATAAAA
309277 GTAATGGGCG
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
17 15 0.26
18 13 0.23
19 21 0.37
20 6 0.11
21 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (18 bp):
AATAAAAATAAAAAATAA
Found at i:309251 original size:5 final size:5
Alignment explanation
Indices: 309195--309276 Score: 53
Period size: 5 Copynumber: 15.8 Consensus size: 5
309185 GTATGCAATA
* *
309195 AAAAT ATAAAT GAAAT AAAGAT -AAA- AAACT AAAAT AAAA- ATAAAT
1 AAAAT A-AAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT A-AAAT
* *
309240 TAGAT AAAAT AAAAT AAAAT AGAAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT --AAAAT -AAAAT AAAA
309277 GTAATGGGCG
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
4 4 0.07
5 40 0.67
6 11 0.18
7 5 0.08
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:309267 original size:7 final size:6
Alignment explanation
Indices: 309191--309276 Score: 56
Period size: 6 Copynumber: 14.2 Consensus size: 6
309181 TTGGGTATGC
* * *
309191 AATAAA AATATA AAT-GA AATAAA GATAAA AA-ACTAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATA--AA AATAAA AATAAA
309239 TTAGAT-AA AAT-AA AAT-AA AATAGAA AATAAA AATAAA A
1 --A-ATAAA AATAAA AATAAA AATA-AA AATAAA AATAAA A
309277 GTAATGGGCG
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
5 17 0.26
6 33 0.50
7 10 0.15
8 4 0.06
9 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:309956 original size:235 final size:228
Alignment explanation
Indices: 309470--310184 Score: 801
Period size: 235 Copynumber: 3.1 Consensus size: 228
309460 TTGGAAATAA
* * * * * *
309470 TTTTCTCATTTTTTGGAAAATCATGCGAGAACATCTTGCTCGAAGGAT-TTATGGATTACTTGAA
1 TTTTCTCATTTTTT-AAAAAACATGTGAAAACATCTTACTCGAAGG-TCTTATGGAGT-CTTGAA
* * * * *
309534 TGACTTATCATCTTGCTCAAAAGGCTTATAGATGAACCAAATGATTTAAGCATCATGCTT-GAAA
63 GGACTTATCATCTTGCTCGAAA-GATTACAGATG-ACCAAATGATTTAAGCATCATG-TTCAAAA
* ** *
309598 GACTTATTGATGGCCCGAAGGACTTACCAAATTTGGGAATAGTTTCTAAGTAAGAAACTTTTCTT
125 GACTTATTGATGG-CCGAAGGACTTACCAATTTTGAAAATAGTTTCTAGGTAAGAAACTTTTCTT
309663 ACTTTTCAAAAAAAAAAATCAATTTTCAGATTTAAATGAGAAAC
189 ACTTTTC----AAAAAAATCAATTTTCAGATTTAAATGAGAAAC
309707 TTTTCTCA-TTTTTAAAAAACATGTGAAAACATCTTACTCGAAGGTCTTATGGACGTCTTGAAGG
1 TTTTCTCATTTTTTAAAAAACATGTGAAAACATCTTACTCGAAGGTCTTATGGA-GTCTTGAAGG
* * * * *
309771 GCTTATCATCTTGCTCTCGAAAGATATACAAATGACTCGAATGATTTATGTATCATGTTCAAAAG
65 ACTTATCATCTTG--CTCGAAAGAT-TACAGATGAC-CAAATGATTTAAGCATCATGTTCAAAAG
* * * * *
309836 ACTTATTGATGTCTCGAAGGACTTAGCAATTTTGAAAATAATTTGCTAGGTAATAAACTTTTTTT
126 ACTTATTGATGGC-CGAAGGACTTACCAATTTTGAAAATAGTTT-CTAGGTAAGAAACTTTTCTT
* * *
309901 ACTTTTCAAAATATTCAATTTTCAGATTTAAATAAGAAAC
189 ACTTTTCAAAAAAATCAATTTTCAGATTTAAATGAGAAAC
* * * * *
309941 TTTTCTCATTTTTTAAAAAACATGTGAAAACATCTTTCCCAAAGGTCTTATGGATGGCTCGAAGG
1 TTTTCTCATTTTTTAAAAAACATGTGAAAACATCTTACTCGAAGGTCTTATGGA-GTCTTGAAGG
* * *
310006 ACTTATCATCTTGCTCGAAAGACTTACAGATGACCTAAAGGATTTAAGCATCATGCTCAAAAGAG
65 ACTTATCATCTTGCTCGAAAGA-TTACAGATGACC-AAATGATTTAAGCATCATGTTCAAAAGAC
* * * *
310071 TTA-CGATGGCCTGAATGACTAACCAATTTTGTAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
128 TTATTGATGGCC-GAAGGACTTACCAATTTTGAAAATAGTTT-CTAGGTAAGAAACTTTTCTTAC
* * *
310135 -TTTAAAAAAAATCAATTTTTATATTTAAATGAGAAAC
191 TTTTCAAAAAAATCAATTTTCAGATTTAAATGAGAAAC
310172 TTTTCTCATTTTT
1 TTTTCTCATTTTT
310185 CTCAGAAGAC
Statistics
Matches: 407, Mismatches: 58, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
231 45 0.11
232 50 0.12
233 44 0.11
234 40 0.10
235 114 0.28
236 13 0.03
237 77 0.19
238 24 0.06
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (228 bp):
TTTTCTCATTTTTTAAAAAACATGTGAAAACATCTTACTCGAAGGTCTTATGGAGTCTTGAAGGA
CTTATCATCTTGCTCGAAAGATTACAGATGACCAAATGATTTAAGCATCATGTTCAAAAGACTTA
TTGATGGCCGAAGGACTTACCAATTTTGAAAATAGTTTCTAGGTAAGAAACTTTTCTTACTTTTC
AAAAAAATCAATTTTCAGATTTAAATGAGAAAC
Found at i:317873 original size:22 final size:22
Alignment explanation
Indices: 317838--317888 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
317828 CTGAGTGGCA
*
317838 TATGAGATTTGTCCCAAAGGACC
1 TATGA-ATATGTCCCAAAGGACC
317861 TATGAATATGTCCCAAAGGACC
1 TATGAATATGTCCCAAAGGACC
317883 TATGAA
1 TATGAA
317889 ACCCTCAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (22 bp):
TATGAATATGTCCCAAAGGACC
Found at i:347119 original size:15 final size:15
Alignment explanation
Indices: 347099--347130 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
347089 TTAGGGTAAG
347099 CTATATGGACTTGGA
1 CTATATGGACTTGGA
347114 CTATATGGACTTGGA
1 CTATATGGACTTGGA
347129 CT
1 CT
347131 TACGGGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (15 bp):
CTATATGGACTTGGA
Found at i:367505 original size:18 final size:18
Alignment explanation
Indices: 367482--367546 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
367472 GTATATTAGT
*
367482 ACTATGTGTACTACATGC
1 ACTATGTGTGCTACATGC
*
367500 ACTATGTGTGCTA-GTGGC
1 ACTATGTGTGCTACAT-GC
* *
367518 ACTATGGGTGCTACAGGC
1 ACTATGTGTGCTACATGC
367536 ACTATGTGTGC
1 ACTATGTGTGC
367547 AAACCTACAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.03
18 38 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (18 bp):
ACTATGTGTGCTACATGC
Found at i:367680 original size:54 final size:54
Alignment explanation
Indices: 367529--367685 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 54
367519 CTATGGGTGC
* * * *
367529 TACAGGCACTATGTGTGCAAACCTACAGAATTCATAATTAGTTGATGAATAACCA
1 TACAGGCACGATGTGTGC-AACCCACAAAATTCATCATTAGTTGATGAATAACCA
* * * * *
367584 TATAGGCACGATATGTACAACCCACATAATTCATCATTAGTTGATGAATAACTA
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATTAGTTGATGAATAACCA
* * *
367638 TACAGGCACGATGTGTGCAACCCACAAAATTCAGCATGAGTTGGTGAA
1 TACAGGCACGATGTGTGCAACCCACAAAATTCATCATTAGTTGATGAA
367686 CTACCGTATA
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 73 0.84
55 14 0.16
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
TACAGGCACGATGTGTGCAACCCACAAAATTCATCATTAGTTGATGAATAACCA
Found at i:368078 original size:80 final size:81
Alignment explanation
Indices: 367934--368349 Score: 507
Period size: 81 Copynumber: 5.1 Consensus size: 81
367924 GTGCAAACTA
* * *
367934 TTGAGTAAAAGATTAATAGCCTAGTTGTACATTT-A-ATGTAAATGTGTCAATTATG-TCAATTA
1 TTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACA-G-AAAGGTGTCAATTATGCT-AGTTA
367996 GATGAAAGGTTAAATACCT
63 GATGAAAGGTTAAATACCT
* * * * * *
368015 TTGACT-AAATATTAATAGCCTAGTTATACATTTGACAGAAAGGTGCCATTTATGCTAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGAT
368079 GAAAGGTTAAATACCT
66 GAAAGGTTAAATACCT
* *
368095 TTGAGTAAAAGACTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGAT
368160 GAAAGGTTAAATACCT
66 GAAAGGTTAAATACCT
** ** * * * * *
368176 TTGAGTAAAAGATTAATAGTGTAGCGGTGCACTTAACAGAAAGGTATCAATTATCCCAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGAT
368241 GAAAGGTTAAATACCT
66 GAAAGGTTAAATACCT
* * * * * * *
368257 TTGAGTAAAAGACTAATAGCCTATTTGTGCATTTGGCAAAAAGGTGTCAATCATGCAAGTTGGAT
1 TTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGAT
* *
368322 GAAAGGCTAAATGCCT
66 GAAAGGTTAAATACCT
*
368338 TTGGGTAAAAGA
1 TTGAGTAAAAGA
368350 CTAAAGGAAT
Statistics
Matches: 289, Mismatches: 42, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
80 66 0.23
81 222 0.77
82 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
TTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGAT
GAAAGGTTAAATACCT
Found at i:373066 original size:18 final size:18
Alignment explanation
Indices: 373043--373079 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
373033 ACTATTTGTA
373043 CTACAGGCACAATGTGTG
1 CTACAGGCACAATGTGTG
*
373061 CTACAGGCACTATGTGTG
1 CTACAGGCACAATGTGTG
373079 C
1 C
373080 AAACCTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (18 bp):
CTACAGGCACAATGTGTG
Found at i:373179 original size:54 final size:53
Alignment explanation
Indices: 373065--373189 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 53
373055 TGTGTGCTAC
*
373065 AGGCACTATGTGTGCAAACCTACATAATTCATCATTAGTTGATGAATAACCATAT
1 AGGCACTATGTGTGC-AACC-ACATAATTCATCATGAGTTGATGAATAACCATAT
* * * *
373120 TGGCACGATGTGTGCAACC-CATGAAATTCATCATGAGTTGGTGAACT-ACCGTAT
1 AGGCACTATGTGTGCAACCACAT--AATTCATCATGAGTTGATGAA-TAACCATAT
*
373174 AGGCACTACGTGTGCA
1 AGGCACTATGTGTGCA
373190 TCTAAATAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
52 3 0.05
54 42 0.71
55 14 0.24
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (53 bp):
AGGCACTATGTGTGCAACCACATAATTCATCATGAGTTGATGAATAACCATAT
Found at i:373551 original size:81 final size:81
Alignment explanation
Indices: 373416--374397 Score: 1182
Period size: 81 Copynumber: 12.1 Consensus size: 81
373406 GTGCAAAGTA
*
373416 TTGAGTAAAAGATTAATAGCCTA-ATTGTGCATTTTACAGAAAGGTGTCAATTATGCCAGTTAGA
1 TTGAGTAAAAGATTAATAGCCTAGA-TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGA
373480 TGAAAGGTTAAATACCT
65 TGAAAGGTTAAATACCT
* * * *
373497 TTGAGTAAAACATTAATAGCCCAGATGTGCATTTTACAGAAATGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
373562 GAAAGGTTAAATACCT
66 GAAAGGTTAAATACCT
* * * * *
373578 TTGAGTAAAAAATTAATAGCCTAGCTTTGCATTTGACAGAAAGATGTCAATTATGCTAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
* *
373643 GAACGGTTAAATGCCT
66 GAAAGGTTAAATACCT
* * * * * *
373659 TTGAGTAAAAGACTAATAGCCTAGTTGTGCATTTGACATAAATGTGTCAATTATACTAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
*
373724 GAAATGTTAAATACCT
66 GAAAGGTTAAATACCT
** * * *** *** * ** * *
373740 TTGAGTAAAAGGCTAACATCCTTTCTACACATTTGACAAAAAGGTGTCTTTTATGCTAGTTTGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
*
373805 GAAAGGTT--ATAACT
66 GAAAGGTTAAATACCT
* * * * *
373819 TTGAGTAAAACATTAATAGCCCAGATTTGCATTTTACAGAAAGGTGTCAATTATGCCATTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
373884 GAAAGGTTAAATACCT
66 GAAAGGTTAAATACCT
* * * *
373900 TTGAGTAAAAGACTAATAGCCTAGCTATACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
* * *
373965 TAATGGTTACATACCT
66 GAAAGGTTAAATACCT
* * * * * * *
373981 TTTAGTAAAATATTAATAGCCTA-ACGGTGCATTTGACATAAAGGTTTCAATTATCCCAATTAGA
1 TTGAGTAAAAGATTAATAGCCTAGA-TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGA
374045 TGAAAGGTTAAATACCT
65 TGAAAGGTTAAATACCT
* * * * *
374062 TTGAGTAAAACATTAATAGCCCAGATGTGCATTTTACAGAAATGTGTCAATTATGCCATTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
374127 GAAAGGTTAAATACCT
66 GAAAGGTTAAATACCT
* * *
374143 TTGAGTAAAAGACTAATAGCCTAGCTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
* * *
374208 TAATGGTTACATACCT
66 GAAAGGTTAAATACCT
* * ** * *
374224 TTTAGTAAAATATTAATAGCCTAGCGGTGCATTTGACATAAAGGTGTCAATTATCCCAGTTAGAT
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
374289 GAAAGGTTAAATACCT
66 GAAAGGTTAAATACCT
* * * * *
374305 TTGAGTAAAAGATTAATATCCTAGATGTGCATTTGGA-AGAAAGGTGTTAATCATGCAAGTTGGA
1 TTGAGTAAAAGATTAATAGCCTAGATGTGCATTT-GACAGAAAGGTGTCAATTATGCCAGTTAGA
* * *
374369 TTAAAGGCTAAATGCCT
65 TGAAAGGTTAAATACCT
*
374386 TTGGGTAAAAGA
1 TTGAGTAAAAGA
374398 CTAAATGAAT
Statistics
Matches: 763, Mismatches: 132, Indels: 12
0.84 0.15 0.01
Matches are distributed among these distances:
79 59 0.08
81 700 0.92
82 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (81 bp):
TTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
GAAAGGTTAAATACCT
Found at i:379201 original size:93 final size:92
Alignment explanation
Indices: 378816--379447 Score: 516
Period size: 93 Copynumber: 6.8 Consensus size: 92
378806 ACAAACTGAG
* * * * * *
378816 GAGGTTAACTTATTCAAGTTGTTGCATTAATGGAGGGAAGTTTAAATGGA-GTTAAAATGGCTTA
1 GAGGTTAACTTATTCAAGTTGTTACATTAATGGA-TGAAGTTTGAAT-AACGTTGAAATGTCTTA
* ** **
378880 GCTAAACACTTTGATGTTTACCGACAAAA
64 ACTAAACACTTTGATGTTTATGGATTAAA
* ** * * * * *
378909 AACTTTTACTTCTCCAAGTTTTTACATTAGTGGATGAAAGTTTGAATAACGTTGAAATGTCTTAA
1 GAGGTTAACTTATTCAAGTTGTTACATTAATGGATG-AAGTTTGAATAACGTTGAAATGTCTTAA
* * * *
378974 CTAAATAATTTGGTGTTTATGGA-TAAG
65 CTAAACACTTTGATGTTTATGGATTAAA
* * * * * * ** * *
379001 GAGGTTAACGTATCCAACTTGTAACATTATTGGATAGAAGTTTTAATAGTGTTTAAATGTCTTTA
1 GAGGTTAACTTATTCAAGTTGTTACATTAATGGAT-GAAGTTTGAATAACGTTGAAATGTCTTAA
** * *
379066 CTAAA-ACTTTGATGTTTATAAACTAAT
65 CTAAACACTTTGATGTTTATGGATTAAA
* * * * * *
379093 TAGGTTAACTTATTCAAGTTGTTACAATAATGGATAGAAGTTTAAATAACATTGACATGTCTTGA
1 GAGGTTAACTTATTCAAGTTGTTACATTAATGGAT-GAAGTTTGAATAACGTTGAAATGTCTTAA
* * *
379158 CTAAATATTTTGATGTTTATGAATTAAA
65 CTAAACACTTTGATGTTTATGGATTAAA
* * * * * * *
379186 GAGGTTAGCTTATTCAAGTTGTTTCGTTAAAGGATGAAAGTTTGAATAATGTTGAAATGTCTCAC
1 GAGGTTAACTTATTCAAGTTGTTACATTAATGGATG-AAGTTTGAATAACGTTGAAATGTCTTAA
* *
379251 CTAAACATTTTGATGTTTACGGATTAAA
65 CTAAACACTTTGATGTTTATGGATTAAA
** * * * * * *
379279 TTGGTTAACTTATCCAAGTTGATACATTAATTGATGGAAGTTTGAATAATGTTAAAATATCTTAA
1 GAGGTTAACTTATTCAAGTTGTTACATTAATGGAT-GAAGTTTGAATAACGTTGAAATGTCTTAA
*
379344 CTAAACACTTTGATGTTTACGGATTAAA
65 CTAAACACTTTGATGTTTATGGATTAAA
* * * * * **
379372 GAGGTTAACTTA-TCTAAGTTGCTACATTAATGGATTGATGTTTGAATAGCATTTAAATACCTTA
1 GAGGTTAACTTATTC-AAGTTGTTACATTAATGGA-TGAAGTTTGAATAACGTTGAAATGTCTTA
379436 ACTAAACACTTT
64 ACTAAACACTTT
379448 CAGATGTTCC
Statistics
Matches: 429, Mismatches: 101, Indels: 18
0.78 0.18 0.03
Matches are distributed among these distances:
91 13 0.03
92 118 0.28
93 296 0.69
94 2 0.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (92 bp):
GAGGTTAACTTATTCAAGTTGTTACATTAATGGATGAAGTTTGAATAACGTTGAAATGTCTTAAC
TAAACACTTTGATGTTTATGGATTAAA
Found at i:382173 original size:22 final size:19
Alignment explanation
Indices: 382123--382176 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 19
382113 TTCAAAAATG
*
382123 GTATCGGTACCATAATAGA
1 GTATCGATACCATAATAGA
*
382142 GTATCAATACCATAGTATAGTA
1 GTATCGATACCATA--ATAG-A
382164 GTATCGATACCAT
1 GTATCGATACCAT
382177 GGTGGGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
21 4 0.14
22 13 0.45
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (19 bp):
GTATCGATACCATAATAGA
Found at i:382967 original size:81 final size:81
Alignment explanation
Indices: 382863--383339 Score: 582
Period size: 81 Copynumber: 5.9 Consensus size: 81
382853 TCTAAGATTG
* ** * * * * ***
382863 AAAGATAAATGGCCTAGATGTGCATTTGGTGGAAAGATGTAAATTATGCAAATTAAATGAACAAA
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGT
*
382928 TAAATACTGTTGAGTA
66 TAAATACCGTTGAGTA
* * *
382944 AAATATAAATGGCCTAGTTGTGCATTTGGCAGAACTG-TGTCAATTATGCCAGTTAGATG-ACGG
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAA-AGATGTCAATTATGCCAGTTAGATGAACGG
383007 TTAAATACCGTTGAGTA
65 TTAAATACCGTTGAGTA
* * * * *
383024 AAAGATAAATGGCTTAG-TCGTGCATTTCGTAGAAATATGTCAATTATGCCAGTTAGATGAATGG
1 AAAGATAAATGGCCTAGCT-GTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGG
*
383088 TTAAATACCATTGAGTA
65 TTAAATACCGTTGAGTA
* *
383105 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAATGATGTCAATTATGCCAGTTATATGAACGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGT
383170 TAAATACCGTTGAGTA
66 TAAATACCGTTGAGTA
* * * * * * *
383186 AAAGACAAATGGCCTAGCTGTTCATTTTGCAGAAAGGTGTCAATTATGCCAATTAGATGAATGAT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGT
*
383251 TAAATACCATTGAGTA
66 TAAATACCGTTGAGTA
* * * * * *
383267 AAAGATAAATGGCCTAGCTCTGCATTTGGCAGATATATGTCAATTTTGCCAATTAGATGAATGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGT
*
383332 TACATACC
66 TAAATACC
383340 ATTGGTTGTT
Statistics
Matches: 342, Mismatches: 49, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
79 1 0.00
80 67 0.20
81 272 0.80
82 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (81 bp):
AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGT
TAAATACCGTTGAGTA
Found at i:383198 original size:242 final size:243
Alignment explanation
Indices: 382863--383343 Score: 669
Period size: 242 Copynumber: 2.0 Consensus size: 243
382853 TCTAAGATTG
**
382863 AAAGATAAATGGCCTAGATGTGCATTTGGTGGAAAGATGTAAATTATGCAAATTAAATGAACAAA
1 AAAGATAAATGGCCTAGATGTGCATTTGGCAGAAAGATGTAAATTATGCAAATTAAATGAACAAA
* * * * **
382928 TAAATACTGTTGAGTAAAATATAAATGGCCTAGTTGTGCATTTGGCAGAACTGTGTCAATTATGC
66 TAAATACCGTTGAGTAAAAGACAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGC
* * * * *
382993 CAGTTAGATG-ACGGTTAAATACCGTTGAGTAAAAGATAAATGGCTTAG-TCGTGCATTTCGTAG
131 CAATTAGATGAACGATTAAATACCATTGAGTAAAAGATAAATGGCCTAGCTC-TGCATTTCGCAG
*
383056 AAATATGTCAATTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTA
195 AAATATGTCAATTATGCCAATTAGATGAATGGTTAAATACCATTGAGTA
* * * * * * ***
383105 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAATGATGTCAATTATGCCAGTTATATGAACGGT
1 AAAGATAAATGGCCTAGATGTGCATTTGGCAGAAAGATGTAAATTATGCAAATTAAATGAACAAA
* *
383170 TAAATACCGTTGAGTAAAAGACAAATGGCCTAGCTGTTCATTTTGCAGAAAGGTGTCAATTATGC
66 TAAATACCGTTGAGTAAAAGACAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGC
* *
383235 CAATTAGATGAATGATTAAATACCATTGAGTAAAAGATAAATGGCCTAGCTCTGCATTTGGCAGA
131 CAATTAGATGAACGATTAAATACCATTGAGTAAAAGATAAATGGCCTAGCTCTGCATTTCGCAGA
* * *
383300 TATATGTCAATTTTGCCAATTAGATGAATGGTTACATACCATTG
196 AATATGTCAATTATGCCAATTAGATGAATGGTTAAATACCATTG
383344 GTTGTTCATT
Statistics
Matches: 207, Mismatches: 30, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
242 120 0.58
243 85 0.41
244 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (243 bp):
AAAGATAAATGGCCTAGATGTGCATTTGGCAGAAAGATGTAAATTATGCAAATTAAATGAACAAA
TAAATACCGTTGAGTAAAAGACAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGC
CAATTAGATGAACGATTAAATACCATTGAGTAAAAGATAAATGGCCTAGCTCTGCATTTCGCAGA
AATATGTCAATTATGCCAATTAGATGAATGGTTAAATACCATTGAGTA
Found at i:383256 original size:162 final size:161
Alignment explanation
Indices: 382863--383339 Score: 645
Period size: 162 Copynumber: 3.0 Consensus size: 161
382853 TCTAAGATTG
* * * * * ** *
382863 AAAGATAAATGGCCTAGATGTGCATTTGGTGGAAAGATGTAAATTATGCAAATTAAATGAACAAA
1 AAAGATAAATGGCCTAG-TGTGCATTTCGTAGAAAGATGTCAATTATGCCAATTAGATGAATGAT
** * *
382928 TAAATACTGTTGAGTAAAATATAAATGGCCTAGTTGTGCATTTGGCAGAACTG-TGTCAATTATG
65 TAAATACCATTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAA-TGATGTCAATTATG
382992 CCAGTTAGATG-ACGGTTAAATACCGTTGAGTA
129 CCAGTTAGATGAACGGTTAAATACCGTTGAGTA
* * * *
383024 AAAGATAAATGGCTTAGTCGTGCATTTCGTAGAAATATGTCAATTATGCCAGTTAGATGAATGGT
1 AAAGATAAATGGCCTAGT-GTGCATTTCGTAGAAAGATGTCAATTATGCCAATTAGATGAATGAT
383089 TAAATACCATTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAATGATGTCAATTATGC
65 TAAATACCATTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAATGATGTCAATTATGC
*
383154 CAGTTATATGAACGGTTAAATACCGTTGAGTA
130 CAGTTAGATGAACGGTTAAATACCGTTGAGTA
* * * * *
383186 AAAGACAAATGGCCTAGCTGTTCATTTTGCAGAAAGGTGTCAATTATGCCAATTAGATGAATGAT
1 AAAGATAAATGGCCTAG-TGTGCATTTCGTAGAAAGATGTCAATTATGCCAATTAGATGAATGAT
* *
383251 TAAATACCATTGAGTAAAAGATAAATGGCCTAGCTCTGCATTTGGCAGATAT-ATGTCAATTTTG
65 TAAATACCATTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGA-ATGATGTCAATTATG
* * *
383315 CCAATTAGATGAATGGTTACATACC
129 CCAGTTAGATGAACGGTTAAATACC
383340 ATTGGTTGTT
Statistics
Matches: 279, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
160 3 0.01
161 118 0.42
162 155 0.56
163 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (161 bp):
AAAGATAAATGGCCTAGTGTGCATTTCGTAGAAAGATGTCAATTATGCCAATTAGATGAATGATT
AAATACCATTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAATGATGTCAATTATGCC
AGTTAGATGAACGGTTAAATACCGTTGAGTA
Found at i:384340 original size:24 final size:24
Alignment explanation
Indices: 384308--384355 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
384298 AAATGACAAA
384308 AAGAAATTACATGCCATTGAGATT
1 AAGAAATTACATGCCATTGAGATT
384332 AAGAAATTACATGCCATTGAGATT
1 AAGAAATTACATGCCATTGAGATT
384356 GTCAAGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (24 bp):
AAGAAATTACATGCCATTGAGATT
Found at i:385378 original size:113 final size:113
Alignment explanation
Indices: 385180--385405 Score: 452
Period size: 113 Copynumber: 2.0 Consensus size: 113
385170 TCATCTTTTA
385180 ATGAGCTTGTATTTGTAATAGTTGAACCTTGATCTATGCACTCATACATTAGTACAAAGTTGGCT
1 ATGAGCTTGTATTTGTAATAGTTGAACCTTGATCTATGCACTCATACATTAGTACAAAGTTGGCT
385245 AGAGCTAGAGGAATTCCTGTAGAATCAATCTTGATTAACATGATAGCT
66 AGAGCTAGAGGAATTCCTGTAGAATCAATCTTGATTAACATGATAGCT
385293 ATGAGCTTGTATTTGTAATAGTTGAACCTTGATCTATGCACTCATACATTAGTACAAAGTTGGCT
1 ATGAGCTTGTATTTGTAATAGTTGAACCTTGATCTATGCACTCATACATTAGTACAAAGTTGGCT
385358 AGAGCTAGAGGAATTCCTGTAGAATCAATCTTGATTAACATGATAGCT
66 AGAGCTAGAGGAATTCCTGTAGAATCAATCTTGATTAACATGATAGCT
385406 GTAAACCTTA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (113 bp):
ATGAGCTTGTATTTGTAATAGTTGAACCTTGATCTATGCACTCATACATTAGTACAAAGTTGGCT
AGAGCTAGAGGAATTCCTGTAGAATCAATCTTGATTAACATGATAGCT
Found at i:388034 original size:81 final size:81
Alignment explanation
Indices: 387791--388460 Score: 803
Period size: 81 Copynumber: 8.3 Consensus size: 81
387781 ATTATAAGAT
* * * * *
387791 TAAAAGATAAATGGCCTAGTTGTGCATTTGACAGAAACGTGTCATTTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
387856 GTTATATA-CGTTGAG
66 GTTAAATACCGTTGAG
* * * * *
387871 TAAAAGATAAATGGCCTAGCTGTGCTTTTGGCATAATGGTGTCAATTATG-CAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
387935 ATTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* * * * * **
387951 TAAAGGATAAATGCCCTAGCCATGCATATGGCAGAAATGTGTCAATTATATCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
388016 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* * * * *
388032 TAAAAGATAAATGGTCTAGCTTTGCATTTAGCAGAAAGGTGTCAATTAT-CCAAGTTATATGAAT
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCC-AGTTAGATGAAC
*
388096 GATTAAATACCGTTGAG
65 GGTTAAATACCGTTGAG
** * * *
388113 TAAAAGATAAATTCCCTAGCTATGCATTTAGCACAAAGGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
388178 GTTAAATACCATTGAG
66 GTTAAATACCGTTGAG
* * * * *
388194 TAAAAGATAAATGGCCTAGTTGTGTATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* *
388259 GTTAAATATCGTTGAT
66 GTTAAATACCGTTGAG
* * * * *
388275 TAAAAGATAAATGGCCTAGCTATGTATTTTGTAGAAAGGTGTCAATTATGCCAGTTAGACGAACA
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
388340 GTTAAATACCGTTGAA
66 GTTAAATACCGTTGAG
* * * * * * *
388356 T-AAA-A-AAATGGCCTAGTTGTGCATTTAGCACAAAGGTGTCAATTATGCTAGTTAGATGGACT
1 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
388418 GTTAAATACCATTGAG
66 GTTAAATACCGTTGAG
* *
388434 TAAAAGATAAATGACCTAGTTATGCAT
1 TAAAAGATAAATGGCCTAGCTATGCAT
388461 AAGACTAATG
Statistics
Matches: 506, Mismatches: 77, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
78 62 0.12
79 23 0.05
80 95 0.19
81 324 0.64
82 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
GTTAAATACCGTTGAG
Found at i:389310 original size:17 final size:16
Alignment explanation
Indices: 389290--389328 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
389280 TTTAAGTAAG
*
389290 TAGTTCATTTATTAAAC
1 TAGTTCA-TTATCAAAC
*
389307 TAGTTCATTGTCAAAC
1 TAGTTCATTATCAAAC
389323 TAGTTC
1 TAGTTC
389329 TTTCAAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (16 bp):
TAGTTCATTATCAAAC
Found at i:392885 original size:17 final size:17
Alignment explanation
Indices: 392865--392970 Score: 72
Period size: 17 Copynumber: 6.1 Consensus size: 17
392855 TTTAACTAAG
392865 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* * * *
392882 TAGTTAATTCATCAAAG
1 TAGTTCATTAATTAAAC
* *
392899 TAGTTCTTTCAA-TATTA-
1 TAGTTCATT-AATTA-AAC
*
392916 TAAGTTCATTGATTAAAC
1 T-AGTTCATTAATTAAAC
* *
392934 TTAGATAATTAATTAAAC
1 -TAGTTCATTAATTAAAC
*
392952 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
392969 TA
1 TA
392971 ACTCTAATTG
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
17 40 0.62
18 24 0.37
19 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:396773 original size:39 final size:39
Alignment explanation
Indices: 396730--396827 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
396720 CTCGGCTTTA
*
396730 TGCTCAGGGTAAGTCCTTACCGCAGGCTCCTTGGCTATG
1 TGCTCAGGGTAAGTCCTTACCGCAGGCTACTTGGCTATG
* *
396769 TGCTCAGGGTAAGTCCTTATCGCAGGCTACTTTGCTATG
1 TGCTCAGGGTAAGTCCTTACCGCAGGCTACTTGGCTATG
* * *
396808 TG-TAAGGATAAGACCTTACC
1 TGCTCAGGGTAAGTCCTTACC
396828 ATTTGCCCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
38 14 0.27
39 38 0.73
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (39 bp):
TGCTCAGGGTAAGTCCTTACCGCAGGCTACTTGGCTATG
Found at i:396899 original size:45 final size:45
Alignment explanation
Indices: 396812--396923 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
396802 GCTATGTGTA
* * * *
396812 AGGATAAGACCTTACCATTTGCCCAGGCTCCTCTGCTGTGTGCAC
1 AGGATAAGACCTTACCATTTTCCCAGGCTCCACTACTCTGTGCAC
* *
396857 AGGATAAGACCTTACCATTTTCCCAGGCTCGACTATTCTGTGCAC
1 AGGATAAGACCTTACCATTTTCCCAGGCTCCACTACTCTGTGCAC
* * *
396902 ATGAAAAGACCTTACAATTTTC
1 AGGATAAGACCTTACCATTTTC
396924 TAGGCTCTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
AGGATAAGACCTTACCATTTTCCCAGGCTCCACTACTCTGTGCAC
Found at i:401475 original size:16 final size:16
Alignment explanation
Indices: 401454--401510 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
401444 AGGGTAAATA
401454 TGTTTTAAACTGCTAC
1 TGTTTTAAACTGCTAC
401470 TGTTTTAAACTGCTAC
1 TGTTTTAAACTGCTAC
* *
401486 TGTTTTAAATTGCTAT
1 TGTTTTAAACTGCTAC
401502 TGTTTTAAA
1 TGTTTTAAA
401511 AATATTTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.49
Consensus pattern (16 bp):
TGTTTTAAACTGCTAC
Found at i:403774 original size:17 final size:17
Alignment explanation
Indices: 403752--403874 Score: 88
Period size: 17 Copynumber: 7.2 Consensus size: 17
403742 ATCATACCAG
*
403752 TAGTTCATTGATTAAAC
1 TAGTTCATTAATTAAAC
* *
403769 TAGTTCATTAATTCAAG
1 TAGTTCATTAATTAAAC
* * **
403786 TAGTTAATTCAAGTCTAC
1 TAGTTCATT-AATTAAAC
* *
403804 AAGTTCATTGAA-TAAAGT
1 TAGTTCATT-AATTAAA-C
403822 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
403839 TAGTTCATTCATTTAAC
1 TAGTTCATTAATTAAAC
* *
403856 TAG-TAAATAATTAAAC
1 TAGTTCATTAATTAAAC
403872 TAG
1 TAG
403875 CATTTAATAC
Statistics
Matches: 82, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
16 12 0.15
17 44 0.54
18 26 0.32
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:404678 original size:89 final size:89
Alignment explanation
Indices: 404526--404688 Score: 290
Period size: 89 Copynumber: 1.8 Consensus size: 89
404516 TAGCACACCT
*
404526 TTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTAATTAAATCTATATT
404591 TAATTAATTGGAATTTAATAATCC
66 TAATTAATTGGAATTTAATAATCC
* * *
404615 TTTTATATCTAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTAATTAAATTTATATT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTAATTAAATCTATATT
404680 TAATTAATT
66 TAATTAATT
404689 TAAATTAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (89 bp):
TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTATTATTTCAAATTAATTAAATCTATATT
TAATTAATTGGAATTTAATAATCC
Found at i:411511 original size:90 final size:89
Alignment explanation
Indices: 411354--411519 Score: 287
Period size: 90 Copynumber: 1.9 Consensus size: 89
411344 CCTAACACAC
**
411354 CCTTTTATAGCCAAGTTACCCTCGTCATATTAGGGTTTTATTAATTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTAATTCAAATTAATTAAATCTATA
411419 TTTAATTAATTAGAATTTAGTAAT
66 TTTAATTAATTAGAATTTAGTAAT
* *
411443 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTAATTCAAATTAATTAAATCTAT
411508 ATTTAATTAATT
65 ATTTAATTAATT
411520 GAAATTAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 32 0.44
90 40 0.56
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTAATTCAAATTAATTAAATCTATA
TTTAATTAATTAGAATTTAGTAAT
Found at i:412951 original size:12 final size:12
Alignment explanation
Indices: 412934--412963 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
412924 GTATTCAAGT
412934 GCATTAAGATGA
1 GCATTAAGATGA
412946 GCATTAAGATGA
1 GCATTAAGATGA
412958 GCATTA
1 GCATTA
412964 CTCTTTCTTT
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:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (12 bp):
GCATTAAGATGA
Found at i:424974 original size:81 final size:81
Alignment explanation
Indices: 424875--425527 Score: 851
Period size: 81 Copynumber: 8.1 Consensus size: 81
424865 AAAATGGCAA
* * *
424875 ATTAATGGCCTAGCTGTGCATTTGGCAGAATGATGTCAATATTGCCAATTAGATGAAAGGCTAAA
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAA
*
424940 AGCCTTTGAGTAAAAG
66 TGCCTTTGAGTAAAAG
* * *
424956 AATAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATATTGCCAATTAGATGAAAGGCTAAA
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAA
*
425021 TGCCTTTAAGTAAAAG
66 TGCCTTTGAGTAAAAG
* * * * * *
425037 ATTAATGGCCTAGATGTTCACTTGTCAGAAAGGTGTCCATATTGCCAGTTAGATGAAAGGATAAA
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAA
425102 TGCCTTTGAGTAAAAG
66 TGCCTTTGAGTAAAAG
* * * * * * *
425118 ATTAATGGCCTAGCTGTGTATTTGGCATAAAAGTGCCAATATTACTAGTTAGATGAAAGGGTAAA
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAA
425183 TGCCTTTGAGTAAAAG
66 TGCCTTTGAGTAAAAG
* * * * **
425199 ATTAATGGCCTAGTTGTGCATTTGGTAGAAATGTGTCAATATTTCCAGTTAGATGAAACACTAAA
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAA
*
425264 TGACTTTGAGTAAAAG
66 TGCCTTTGAGTAAAAG
* * * *
425280 ATTAATGGCCTAGCTGTGCATTAGGCAAAAAGGTATCAATATTGCTAGTTAGATGACAA-GCTAA
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGA-AAGGCTAA
* *
425344 ATACCTTTGAGTAAAAT
65 ATGCCTTTGAGTAAAAG
* * * * ** *
425361 ATTATTAGCATAGTTGTGCATTTGGCAGAAAGGTGTCAATATTGTTAGTTAGATGAAATGG-TAG
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAA-GGCTAA
*
425425 ATGCCTTTGAGTAAAAT
65 ATGCCTTTGAGTAAAAG
* * * * *
425442 ATTATTGGCCTAGTTGTGCATTTGGCAGAAAGGTGGCAATATTGTCAGTTAGATGAAAGGCAAAA
1 ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAA
425507 TGCCTTTGAGTAAAAG
66 TGCCTTTGAGTAAAAG
425523 ATTAA
1 ATTAA
425528 ATTCTTAACA
Statistics
Matches: 498, Mismatches: 70, Indels: 8
0.86 0.12 0.01
Matches are distributed among these distances:
80 4 0.01
81 491 0.99
82 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (81 bp):
ATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAA
TGCCTTTGAGTAAAAG
Found at i:428179 original size:46 final size:44
Alignment explanation
Indices: 428112--428210 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 44
428102 CAACCCAATG
* * *
428112 GTATCGACACCCTTCAAGGAGTATCGATACTACTATACATATAGCA
1 GTATCGATACCATCCAAGGAGTATCGATACTACTAT-CA-ATAGCA
* * *
428158 GTATCGATACCATCCAAGGAGTATTGATACTACTATGAATAGTA
1 GTATCGATACCATCCAAGGAGTATCGATACTACTATCAATAGCA
428202 GTATCGATA
1 GTATCGATA
428211 TCGAACAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 14 0.30
45 1 0.02
46 32 0.68
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (44 bp):
GTATCGATACCATCCAAGGAGTATCGATACTACTATCAATAGCA
Found at i:428327 original size:20 final size:20
Alignment explanation
Indices: 428302--428353 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
428292 GCATTCGATG
428302 TAAGGGGGTATCGATACTGA
1 TAAGGGGGTATCGATACTGA
*
428322 TAAGGGGTTATCGATACTGA
1 TAAGGGGGTATCGATACTGA
*
428342 TAAGGGAGTATC
1 TAAGGGGGTATC
428354 AGTACTACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.27
Consensus pattern (20 bp):
TAAGGGGGTATCGATACTGA
Found at i:428965 original size:16 final size:16
Alignment explanation
Indices: 428940--428974 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
428930 TAATTAACCA
* *
428940 AAACATCCAAATATTC
1 AAACAACCAAATATCC
428956 AAACAACCAAATATCC
1 AAACAACCAAATATCC
428972 AAA
1 AAA
428975 TCATTCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACAACCAAATATCC
Found at i:455634 original size:45 final size:45
Alignment explanation
Indices: 455573--455899 Score: 474
Period size: 45 Copynumber: 7.2 Consensus size: 45
455563 TATTTATTAT
* * *
455573 TTTCAGTTATGCCATCCTTTCATTCCTTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
* *
455618 TTTCATTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
* *
455663 TTTCATTTATGGCATCCTTTCATGCCTTTAATGTATCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
*
455708 TTTCATTTATGGCATCCTTTCATGCCTTTAAATGTACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTT-AATGCACCATTATGCA
*** * * * *
455754 TTTCATTTATATAATCCTTTCATACATTTAATGCATCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
455799 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
* * *
455844 TTTCATTCATGGCATCCTTTCATGCCATTAAATGCACCTTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCC-TTTAATGCACCATTATGCA
455890 TTTCATTTAT
1 TTTCATTTAT
455900 TCATTCGTTT
Statistics
Matches: 251, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
45 186 0.74
46 65 0.26
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
Found at i:455796 original size:91 final size:90
Alignment explanation
Indices: 455573--455899 Score: 456
Period size: 91 Copynumber: 3.6 Consensus size: 90
455563 TATTTATTAT
* * * *
455573 TTTCAGTTATGCCATCCTTTCATTCCTTTAATGCACCATTATGCATTTCATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATACATTTAATGCACCATTATGCATTTCATTTATGGCATCCTTT
* *
455638 CATGCCATTAATGCACCGTTATGCA
66 CATGCCTTTAATGCACCATTATGCA
* * * *
455663 TTTCATTTATGGCATCCTTTCATGCCTTTAATGTATCATTATGCATTTCATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATACATTTAATGCACCATTATGCATTTCATTTATGGCATCCTTT
*
455728 CATGCCTTTAAATGTACCATTATGCA
66 CATGCCTTT-AATGCACCATTATGCA
*** * *
455754 TTTCATTTATATAATCCTTTCATACATTTAATGCATCGTTATGCATTTCATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATACATTTAATGCACCATTATGCATTTCATTTATGGCATCCTTT
455819 CATGCCTTTAATGCACCATTATGCA
66 CATGCCTTTAATGCACCATTATGCA
* * * *
455844 TTTCATTCATGGCATCCTTTCATGCCATTAAATGCACCTTTATGCATTTCATTTAT
1 TTTCATTTATGGCATCCTTTCAT-ACATTTAATGCACCATTATGCATTTCATTTAT
455900 TCATTCGTTT
Statistics
Matches: 211, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
90 102 0.48
91 109 0.52
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (90 bp):
TTTCATTTATGGCATCCTTTCATACATTTAATGCACCATTATGCATTTCATTTATGGCATCCTTT
CATGCCTTTAATGCACCATTATGCA
Found at i:455816 original size:136 final size:136
Alignment explanation
Indices: 455573--455899 Score: 505
Period size: 136 Copynumber: 2.4 Consensus size: 136
455563 TATTTATTAT
* * * * *
455573 TTTCAGTTATGCCATCCTTTCATTCCTTT-AATGCACCATTATGCATTTCATTTATGGCATCCTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAAATGCACCATTATGCATTTCATTTATAGAATCCTT
* * *
455637 TCATGCCATTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGTATCAT
66 TCATGACATTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCAT
455702 TATGCA
131 TATGCA
* *
455708 TTTCATTTATGGCATCCTTTCATGCCTTTAAATGTACCATTATGCATTTCATTTATATAATCCTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAAATGCACCATTATGCATTTCATTTATAGAATCCTT
*
455773 TCAT-ACATTTAATGCATCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCA
66 TCATGACA-TTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCA
455837 TTATGCA
130 TTATGCA
* * *
455844 TTTCATTCATGGCATCCTTTCATGCCATTAAATGCACCTTTATGCATTTCATTTAT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAAATGCACCATTATGCATTTCATTTAT
455900 TCATTCGTTT
Statistics
Matches: 175, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
135 28 0.16
136 147 0.84
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (136 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAAATGCACCATTATGCATTTCATTTATAGAATCCTT
TCATGACATTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCAT
TATGCA
Found at i:456515 original size:95 final size:95
Alignment explanation
Indices: 456323--456522 Score: 219
Period size: 95 Copynumber: 2.1 Consensus size: 95
456313 TACTACCATG
* *
456323 GTATCGATACTTCTATACTATGGTACCGATACCCCCATTCAATATCGATACCATTTCTACATTCT
1 GTATCGATACTACTATACTATGGTACCAATACCCCCATTCAATATCGATACCATTTCTACATTCT
* *
456388 GTGATACATGGTATCAATACCTTTCTCTTA
66 GTGATACATAGAATCAATACCTTTCTCTTA
* * *** * *
456418 GTATCGATACTACTATACTATGTTACCAATACTCTTTTTCAGTATCGATACCATTT-TGGCATTC
1 GTATCGATACTACTATACTATGGTACCAATACCCCCATTCAATATCGATACCATTTCT-ACATTC
* *
456482 TG-GATCCATAGAATCGATA-CTTTAC-CTTATA
65 TGTGATACATAGAATCAATACCTTT-CTC-T-TA
456513 GTATCGATAC
1 GTATCGATAC
456523 AAATCTGTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
93 5 0.06
94 16 0.18
95 67 0.76
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (95 bp):
GTATCGATACTACTATACTATGGTACCAATACCCCCATTCAATATCGATACCATTTCTACATTCT
GTGATACATAGAATCAATACCTTTCTCTTA
Found at i:457852 original size:24 final size:24
Alignment explanation
Indices: 457821--457866 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
457811 AATCAAAATT
457821 AAAAGAAAA-ATCAAAAAGAAATGC
1 AAAAGAAAATA-CAAAAAGAAATGC
*
457845 AAAAGAAAATACAAAAATAAAT
1 AAAAGAAAATACAAAAAGAAAT
457867 ACATTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.74, C:0.07, G:0.09, T:0.11
Consensus pattern (24 bp):
AAAAGAAAATACAAAAAGAAATGC
Found at i:464136 original size:23 final size:23
Alignment explanation
Indices: 464102--464146 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
464092 AAGTTTCATT
* *
464102 GGTTTACTTGAGATAGTGAATAA
1 GGTTTACATGAGATAGTAAATAA
464125 GGTTTACATGAGATAGTAAATA
1 GGTTTACATGAGATAGTAAATA
464147 TATATGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (23 bp):
GGTTTACATGAGATAGTAAATAA
Found at i:468769 original size:31 final size:31
Alignment explanation
Indices: 468734--468794 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
468724 GCCACCATCT
*
468734 TCATCAACTATCTTTCGTAGTGGACTCTATA
1 TCATCAACGATCTTTCGTAGTGGACTCTATA
468765 TCATCAACGATCTTTCGTAGTGGACTCTAT
1 TCATCAACGATCTTTCGTAGTGGACTCTAT
468795 CTCTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (31 bp):
TCATCAACGATCTTTCGTAGTGGACTCTATA
Found at i:469911 original size:175 final size:177
Alignment explanation
Indices: 469619--469970 Score: 690
Period size: 175 Copynumber: 2.0 Consensus size: 177
469609 ATTCTTATTA
469619 CTATCCATGTCTCAAAGCCCTCCCAAATAAAATACATGTCGATCGAACTTACAATTACAAGCATT
1 CTATCCATGTCTCAAAGCCCTCCCAAATAAAATACATGTCGATCGAACTTACAATTACAAGCATT
469684 AATTAGTGAATTGATACAAATGTTTCGTGAAGAGTTTGATGTTCTACATGAAATTATGGATCAAC
66 AATTAGTGAATTGATACAAATGTTTCGTGAAGAGTTTGATGTTCTACATGAAATTATGGATCAAC
469749 AATAAGGATCACAACAAGAAAAAACAATGGTGTCCCT-AAAGACAAC
131 AATAAGGATCACAACAAGAAAAAACAATGGTGTCCCTAAAAGACAAC
469795 CTATCCATGTCTCAAAGCCCTCCC-AATAAAATACATGTCGATCGAACTTACAATTACAAGCATT
1 CTATCCATGTCTCAAAGCCCTCCCAAATAAAATACATGTCGATCGAACTTACAATTACAAGCATT
469859 AATTAGTGAATTGATACAAATGTTTCGTGAAGAGTTTGATGTTCTACATGAAATTATGGATCAAC
66 AATTAGTGAATTGATACAAATGTTTCGTGAAGAGTTTGATGTTCTACATGAAATTATGGATCAAC
469924 AATAAGGATCACAACAAGAAAAAACAATGGTGTCCCTAAAAGACAAC
131 AATAAGGATCACAACAAGAAAAAACAATGGTGTCCCTAAAAGACAAC
469971 AACCTCTTCA
Statistics
Matches: 175, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
175 142 0.81
176 33 0.19
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (177 bp):
CTATCCATGTCTCAAAGCCCTCCCAAATAAAATACATGTCGATCGAACTTACAATTACAAGCATT
AATTAGTGAATTGATACAAATGTTTCGTGAAGAGTTTGATGTTCTACATGAAATTATGGATCAAC
AATAAGGATCACAACAAGAAAAAACAATGGTGTCCCTAAAAGACAAC
Found at i:474329 original size:81 final size:81
Alignment explanation
Indices: 474210--474958 Score: 804
Period size: 81 Copynumber: 9.4 Consensus size: 81
474200 TAACTTAACA
* * * **
474210 TTTCTGCC-AATTCACAGTTAGGCCA-T--TCTTTTACTCAAACTTATTTAACCTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
474271 TAGAATAATTAACACC
66 TAGCATAATTGACACC
* * * * * * * * *
474287 TTTATGCCAAATGCACAACTAGACCACTAATATTTTATTCAAAGGTATCTAACATTTCCTATAAC
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
474352 T-GCACAATTGTCACC
66 TAGCATAATTGACACC
* * * *
474367 TTTCTGCCAAATACACAGCTAGGTCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATATAAC
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
474432 TAGCATAATTGACACG
66 TAGCATAATTGACACC
474448 TTTCTGCCAAATGCACAGCTAGGCCATT-A-ATTTTACTCAAAGGTATTTAACC-TT--TCTAA-
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* * *
474507 TTGACATGATTGCCACC
66 TAG-CATAATTGACACC
* * * *
474524 TTTCTGCCAAATGCATAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAATCTTTCATCTAAG
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* * * *
474589 TGGCGTTATTAACACC
66 TAGCATAATTGACACC
* * * *
474605 TTTCTGCCAAAAGCAGAGCTAGGCCATTAATTTTTTACTCAAAAGGTATTTAACTTTTCATCTAA
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTC-AAAGGTATTTAACCTTTCATCTAA
* * **
474670 TTGGCATAATTGACATA
65 CTAGCATAATTGACACC
*** * * * *
474687 TTTCTTATAAATGCACAACTAGTCCATTAATATTTTACTCAAAGG--TTTAGCATTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
474750 TAGTATAATTGACACC
66 TAGCATAATTGACACC
* * * * *
474766 TTTCTGCCAAATGCACAACTAGGACATTAATCTTTTACTGAAAGGTATTTAACGTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
474831 AAGCATAATTGACACC
66 TAGCATAATTGACACC
* * * * *
474847 TTTATGCCAAATGCATACCTAGGCCATTAATATTTTACTCAAAGGTATTTAACATTTCATCTAAG
1 TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
474912 TGGCATAATTGACATC
66 TAGCATAATTGACACC
* *
474928 TTTTTGCCAAATGCACTGCTAGGCCATTAAT
1 TTTCTGCCAAATGCACAGCTAGGCCATTAAT
474959 CATTAATTTT
Statistics
Matches: 558, Mismatches: 99, Indels: 26
0.82 0.14 0.04
Matches are distributed among these distances:
75 2 0.00
76 41 0.07
77 8 0.01
78 36 0.06
79 90 0.16
80 66 0.12
81 248 0.44
82 67 0.12
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (81 bp):
TTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAAC
TAGCATAATTGACACC
Found at i:474813 original size:242 final size:238
Alignment explanation
Indices: 474228--474958 Score: 794
Period size: 242 Copynumber: 3.1 Consensus size: 238
474218 AATTCACAGT
* ** * *
474228 TAGGCCATT-CTTTTACTCAAACTTATTTAACCTTTCATCTAACTAGAATAATTAACACCTTTAT
1 TAGGCCATTAATTTTACTCAAA-GGATTTAA-CTTTCATCTAACTAGAATAATTGACACCTTTCT
* * * * * *
474292 GCCAAATGCACAACTA-GACCACTAATATTTTATTCAAAGGTATCTAACATTTCCTATAACTGCA
64 GCCAAATGCACAACTAGGA-CATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGCA
* * * *
474356 CAATTGTCACCTTTCTGCCAAATA-CACAGCTAGGTCATTAATCTTTTACTCAAAGGTATTTAAC
128 TAATTGACACCTTTCTGCCAAA-AGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAAC
* * * ** * *
474420 CTTTCATATAACTAGCATAATTGACACGTTTCTGCCAAATGCACAGC
192 ATTTCATCTAACTGGCATAATTGACATATTTCTGACAAATGCACAAC
* * * *
474467 TAGGCCATTAATTTTACTCAAAGGTATTTAACCTT--TCTAA-TTGACATGATTGCCACCTTTCT
1 TAGGCCATTAATTTTACTCAAAGG-ATTTAACTTTCATCTAACTAGA-ATAATTGACACCTTTCT
* * * *
474529 GCCAAATGCATAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAATC-TTTCATCTAAGTGGC
64 GCCAAATGCACAACTAGGACATTAATCTTTTACTCAAAGGTATTTAA-CATTTCATCTAACT-GC
* * * * *
474593 GTTATTAACACCTTTCTGCCAAAAGCAGAGCTAGGCCATTAATTTTTTACTCAAAAGGTATTTAA
127 ATAATTGACACCTTTCTGCCAAAAGCACAGCTAGGCCATTAATATTTTACTC-AAAGGTATTTAA
* * * *
474658 CTTTTCATCTAATTGGCATAATTGACATATTTCTTATAAATGCACAAC
191 CATTTCATCTAACTGGCATAATTGACATATTTCTGACAAATGCACAAC
* * *
474706 TAGTCCATTAATATTTTACTCAAAGG-TTTAGCATTTCATCTAACTAGTATAATTGACACCTTTC
1 TAGGCCATT-A-ATTTTACTCAAAGGATTTAAC-TTTCATCTAACTAGAATAATTGACACCTTTC
* * *
474770 TGCCAAATGCACAACTAGGACATTAATCTTTTACTGAAAGGTATTTAACGTTTCATCTAACAAGC
63 TGCCAAATGCACAACTAGGACATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAAC-TGC
* * * *
474835 ATAATTGACACCTTTATGCCAAATGCATACCTAGGCCATTAATATTTTACTCAAAGGTATTTAAC
127 ATAATTGACACCTTTCTGCCAAAAGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAAC
* * * * **
474900 ATTTCATCTAAGTGGCATAATTGACATCTTTTTGCCAAATGCACTGC
192 ATTTCATCTAACTGGCATAATTGACATATTTCTGACAAATGCACAAC
474947 TAGGCCATTAAT
1 TAGGCCATTAAT
474959 CATTAATTTT
Statistics
Matches: 408, Mismatches: 68, Indels: 32
0.80 0.13 0.06
Matches are distributed among these distances:
236 3 0.01
237 66 0.16
238 46 0.11
239 77 0.19
240 21 0.05
241 74 0.18
242 119 0.29
243 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (238 bp):
TAGGCCATTAATTTTACTCAAAGGATTTAACTTTCATCTAACTAGAATAATTGACACCTTTCTGC
CAAATGCACAACTAGGACATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGCATAA
TTGACACCTTTCTGCCAAAAGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACATTT
CATCTAACTGGCATAATTGACATATTTCTGACAAATGCACAAC
Found at i:485793 original size:55 final size:55
Alignment explanation
Indices: 485732--486086 Score: 377
Period size: 55 Copynumber: 6.5 Consensus size: 55
485722 AGTACCTCTC
** *
485732 CGGTGATTCATCAACGAATTATGAACTTCGTGAATATGCACACGAA-GTGCCTGTA
1 CGGTGATTCATCAACTCATGATGAA-TTCGTGAATATGCACACGAAGGTGCCTGTA
* * * * * *
485787 CAGTGATTCATCAACTCATGATGAATTCCATGGATTTGTACAC-AAGGTGCCCGTA
1 CGGTGATTCATCAACTCATGATGAATT-CGTGAATATGCACACGAAGGTGCCTGTA
* *
485842 CGGTGA-T--TCAACTCATGATGAATTTCATGAATATGCACACGAA-GTTCCTGTA
1 CGGTGATTCATCAACTCATGATGAA-TTCGTGAATATGCACACGAAGGTGCCTGTA
* *
485894 CGGTGATTCATCAACTCATGATGAATTCTGTGGATTTGCACAC-AAGGTGCCTGTA
1 CGGTGATTCATCAACTCATGATGAATTC-GTGAATATGCACACGAAGGTGCCTGTA
* * * *
485949 CGGTGATTCATCAACTCATGATGAATTCCGTGGATTTGTACA-GAAGGTGCTTGTA
1 CGGTGATTCATCAACTCATGATGAATT-CGTGAATATGCACACGAAGGTGCCTGTA
* * * * *
486004 CGGTGATTCGTCAACTCATGTTGAATTCTGTGAATATACACACGAA-GTGTCTATA
1 CGGTGATTCATCAACTCATGATGAATTC-GTGAATATGCACACGAAGGTGCCTGTA
**
486059 CAATGATTCATCAACTCATGATGAATTC
1 CGGTGATTCATCAACTCATGATGAATTC
486087 TATGGATTAG
Statistics
Matches: 253, Mismatches: 34, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
52 40 0.16
53 5 0.02
54 11 0.04
55 193 0.76
56 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (55 bp):
CGGTGATTCATCAACTCATGATGAATTCGTGAATATGCACACGAAGGTGCCTGTA
Found at i:485883 original size:107 final size:109
Alignment explanation
Indices: 485687--486031 Score: 396
Period size: 107 Copynumber: 3.2 Consensus size: 109
485677 ACGACAATTT
* ** * * **
485687 ATCAACTCATGATGAATTCCGTGG-GCTGCACACATA-GTACCTC-TCCGGTGATTCATCAACGA
1 ATCAACTCATGATGAATTCCATGGATTTGCACACA-AGGTGCC-CGTACGGTGATT-ATCAACTC
* * *
485749 ATTATGAACTTCGTGAATATGCACACGAAGTGCCTGTACAGTGATTC
63 ATGATGAATTTCGTGAATATGCACACGAAGTGCCTGTACGGTGATTC
*
485796 ATCAACTCATGATGAATTCCATGGATTTGTACACAAGGTGCCCGTACGGTGA-T-TCAACTCATG
1 ATCAACTCATGATGAATTCCATGGATTTGCACACAAGGTGCCCGTACGGTGATTATCAACTCATG
* *
485859 ATGAATTTCATGAATATGCACACGAAGTTCCTGTACGGTGATTC
66 ATGAATTTCGTGAATATGCACACGAAGTGCCTGTACGGTGATTC
** *
485903 ATCAACTCATGATGAATTCTGTGGATTTGCACACAAGGTGCCTGTACGGTGATTCATCAACTCAT
1 ATCAACTCATGATGAATTCCATGGATTTGCACACAAGGTGCCCGTACGGTGATT-ATCAACTCAT
* * * * *
485968 GATGAATTCCGTGGATTTGTACA-GAAGGTGCTTGTACGGTGATTC
65 GATGAATTTCGTGAATATGCACACGAA-GTGCCTGTACGGTGATTC
* *
486013 GTCAACTCATGTTGAATTC
1 ATCAACTCATGATGAATTC
486032 TGTGAATATA
Statistics
Matches: 203, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
107 95 0.47
108 1 0.00
109 29 0.14
110 78 0.38
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (109 bp):
ATCAACTCATGATGAATTCCATGGATTTGCACACAAGGTGCCCGTACGGTGATTATCAACTCATG
ATGAATTTCGTGAATATGCACACGAAGTGCCTGTACGGTGATTC
Found at i:485957 original size:162 final size:164
Alignment explanation
Indices: 485732--486105 Score: 499
Period size: 162 Copynumber: 2.3 Consensus size: 164
485722 AGTACCTCTC
** * * *
485732 CGGTGATTCATCAACGAATTATGAACTTC-GTGAATATGCACACGAA-GTGCCTGTACAGTGATT
1 CGGTGATTCATCAACTCATGATGAA-TTCTGTGGATTTGCACAC-AAGGTGCCTGTACAGTGATT
485795 CATCAACTCATGATGAATTCCATGGATTTGTACACAAGGTGCCCGTACGGTGA-T-TCAACTCAT
64 CATCAACTCATGATGAATTCCATGGATTTGTACACAAGGTGCCCGTACGGTGATTCTCAACTCAT
* *
485858 GATGAATT-TCATGAATATGCACACGAAGT-TCCTGTA
129 GATGAATTCT-ATGAATATACACACGAAGTGT-CTATA
*
485894 CGGTGATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAGGTGCCTGTACGGTGATTCA
1 CGGTGATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAGGTGCCTGTACAGTGATTCA
* * **
485959 TCAACTCATGATGAATTCCGTGGATTTGTACAGAAGGTGCTTGTACGGTGATTCGTCAACTCATG
66 TCAACTCATGATGAATTCCATGGATTTGTACACAAGGTGCCCGTACGGTGATTC-TCAACTCATG
* *
486024 TTGAATTCTGTGAATATACACACGAAGTGTCTATA
130 ATGAATTCTATGAATATACACACGAAGTGTCTATA
** * *
486059 CAATGATTCATCAACTCATGATGAATTCTATGGATTAGCACACAAGG
1 CGGTGATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAGG
486106 ATGGATTAGC
Statistics
Matches: 187, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
161 5 0.03
162 99 0.53
163 1 0.01
165 80 0.43
166 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (164 bp):
CGGTGATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAGGTGCCTGTACAGTGATTCA
TCAACTCATGATGAATTCCATGGATTTGTACACAAGGTGCCCGTACGGTGATTCTCAACTCATGA
TGAATTCTATGAATATACACACGAAGTGTCTATA
Found at i:486029 original size:110 final size:109
Alignment explanation
Indices: 485687--486086 Score: 434
Period size: 110 Copynumber: 3.7 Consensus size: 109
485677 ACGACAATTT
** * * * **
485687 ATCAACTCATGATGAATTCCGTGG-GCTGCACACATAGTACCTCTCCGGTGATTCATCAACGAAT
1 ATCAACTCATGATGAATTCCGTGGATTTGCACACA-AGTGCCTGTACGGTGATTCATCAACTCAT
* *
485751 TATGAACTT-CGTGAATATGCACACGAAGTGCCTGTACAGTGATTC
65 GATGAA-TTCCGTGAATATGCACACGAAGTGCCTGTACGGTGATTC
* * *
485796 ATCAACTCATGATGAATTCCATGGATTTGTACACAAGGTGCCCGTACGGTGA-T--TCAACTCAT
1 ATCAACTCATGATGAATTCCGTGGATTTGCACACAA-GTGCCTGTACGGTGATTCATCAACTCAT
* * *
485858 GATGAATTTCATGAATATGCACACGAAGTTCCTGTACGGTGATTC
65 GATGAATTCCGTGAATATGCACACGAAGTGCCTGTACGGTGATTC
*
485903 ATCAACTCATGATGAATTCTGTGGATTTGCACACAAGGTGCCTGTACGGTGATTCATCAACTCAT
1 ATCAACTCATGATGAATTCCGTGGATTTGCACACAA-GTGCCTGTACGGTGATTCATCAACTCAT
* * * *
485968 GATGAATTCCGTGGATTTGTACA-GAAGGTGCTTGTACGGTGATTC
65 GATGAATTCCGTGAATATGCACACGAA-GTGCCTGTACGGTGATTC
* * * * * * * * **
486013 GTCAACTCATGTTGAATTCTGTGAATATACACACGAAGTGTCTATACAATGATTCATCAACTCAT
1 ATCAACTCATGATGAATTCCGTGGATTTGCACAC-AAGTGCCTGTACGGTGATTCATCAACTCAT
486078 GATGAATTC
65 GATGAATTC
486087 TATGGATTAG
Statistics
Matches: 249, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
106 2 0.01
107 93 0.37
108 1 0.00
109 28 0.11
110 123 0.49
111 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (109 bp):
ATCAACTCATGATGAATTCCGTGGATTTGCACACAAGTGCCTGTACGGTGATTCATCAACTCATG
ATGAATTCCGTGAATATGCACACGAAGTGCCTGTACGGTGATTC
Found at i:486101 original size:55 final size:55
Alignment explanation
Indices: 485687--486101 Score: 352
Period size: 55 Copynumber: 7.6 Consensus size: 55
485677 ACGACAATTT
** ** * * *
485687 ATCAACTCATGATGAATTCCGTGGGCT-GCACAC-ATAGTACCTCTCCGGTGATTC
1 ATCAACTCATGATGAATTCTATGGATTAGCACACGA-AGTGCCTGTACGGTGATTC
** * * * *
485741 ATCAACGAATTATGAACTTC-GT-GAATATGCACACGAAGTGCCTGTACAGTGATTC
1 ATCAACTCATGATGAA-TTCTATGGATTA-GCACACGAAGTGCCTGTACGGTGATTC
* * * *
485796 ATCAACTCATGATGAATTCCATGGATTTGTACAC-AAGGTGCCCGTACGGTGA-T-
1 ATCAACTCATGATGAATTCTATGGATTAGCACACGAA-GTGCCTGTACGGTGATTC
* *
485849 -TCAACTCATGATGAATT-TCAT-GAATATGCACACGAAGTTCCTGTACGGTGATTC
1 ATCAACTCATGATGAATTCT-ATGGATTA-GCACACGAAGTGCCTGTACGGTGATTC
* *
485903 ATCAACTCATGATGAATTCTGTGGATTTGCACAC-AAGGTGCCTGTACGGTGATTC
1 ATCAACTCATGATGAATTCTATGGATTAGCACACGAA-GTGCCTGTACGGTGATTC
** * * *
485958 ATCAACTCATGATGAATTCCGTGGATTTGTACA-GAAGGTGCTTGTACGGTGATTC
1 ATCAACTCATGATGAATTCTATGGATTAGCACACGAA-GTGCCTGTACGGTGATTC
* * * * * * **
486013 GTCAACTCATGTTGAATTCTGTGAATATA-CACACGAAGTGTCTATACAATGATTC
1 ATCAACTCATGATGAATTCTATGGAT-TAGCACACGAAGTGCCTGTACGGTGATTC
486068 ATCAACTCATGATGAATTCTATGGATTAGCACAC
1 ATCAACTCATGATGAATTCTATGGATTAGCACAC
486102 AAGGATGGAT
Statistics
Matches: 295, Mismatches: 46, Indels: 39
0.78 0.12 0.10
Matches are distributed among these distances:
51 3 0.01
52 37 0.13
53 5 0.02
54 25 0.08
55 213 0.72
56 12 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (55 bp):
ATCAACTCATGATGAATTCTATGGATTAGCACACGAAGTGCCTGTACGGTGATTC
Found at i:486111 original size:18 final size:18
Alignment explanation
Indices: 486088--486123 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
486078 GATGAATTCT
486088 ATGGATTAGCACACAAGG
1 ATGGATTAGCACACAAGG
486106 ATGGATTAGCACACAAGG
1 ATGGATTAGCACACAAGG
486124 TGCCTGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (18 bp):
ATGGATTAGCACACAAGG
Found at i:486207 original size:128 final size:128
Alignment explanation
Indices: 485992--486233 Score: 351
Period size: 128 Copynumber: 1.9 Consensus size: 128
485982 ATTTGTACAG
* * * *
485992 AAGGTGCTTGTACGGTGATTCGTCAACTCATGTTGAATTCTGTGAATATACACACGAAGTGTCTA
1 AAGGTGCCTGTACGGTGATTCATCAACTCATGATGAATTATGTGAATATACACACGAAGTGTCTA
* *
486057 TACAATGATTCATCAACTCATGATGAATTCTATGGATTAGCACACAAGGATGGATTAGCACAC
66 TACAATGATTCATCAACTCATGATGAATTCCAAGGATTAGCACACAAGGATGGATTAGCACAC
* *
486120 AAGGTGCCTGTATGGTGATTCATCAACTCATGATGAATTATGTGAATATGCACACGAAGTG-CAT
1 AAGGTGCCTGTACGGTGATTCATCAACTCATGATGAATTATGTGAATATACACACGAAGTGTC-T
* ** * *
486184 GTACGGTGATTCATCAACTCATGATGAATTCCAAGGATTTGCGCACAAGG
65 ATACAATGATTCATCAACTCATGATGAATTCCAAGGATTAGCACACAAGG
486234 TGCTTGTAGT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 1 0.01
128 99 0.99
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (128 bp):
AAGGTGCCTGTACGGTGATTCATCAACTCATGATGAATTATGTGAATATACACACGAAGTGTCTA
TACAATGATTCATCAACTCATGATGAATTCCAAGGATTAGCACACAAGGATGGATTAGCACAC
Found at i:486752 original size:75 final size:74
Alignment explanation
Indices: 486590--486745 Score: 192
Period size: 75 Copynumber: 2.1 Consensus size: 74
486580 TTCTACTACT
** *
486590 CCTAGTATCGATACTTA-TATACTATGATACCGATACCCCTTCGAGTATCGATACCAAAAATAGG
1 CCTAGTATCGATAC-TACCCTACTATGATACCGATACCCCTTCGAGTATCGATACCAAAAATAGA
486654 TTCGATGTTG
65 TTCGATGTTG
* * * *
486664 CCTGGTATCGATACTACCCTACTATGGTACCGATACCCCCTATTGA-TATCGATACCAAAATTAG
1 CCTAGTATCGATACTACCCTACTATGATACCGATA-CCCCT-TCGAGTATCGATACCAAAAATAG
486728 ATTCGATGTT-
64 ATTCGATGTTG
486738 CCTTAGTA
1 CC-TAGTA
486746 ATGATACCCC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
73 2 0.03
74 30 0.43
75 35 0.50
76 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (74 bp):
CCTAGTATCGATACTACCCTACTATGATACCGATACCCCTTCGAGTATCGATACCAAAAATAGAT
TCGATGTTG
Found at i:498723 original size:95 final size:95
Alignment explanation
Indices: 498556--498778 Score: 287
Period size: 95 Copynumber: 2.3 Consensus size: 95
498546 TATTGATGAG
*
498556 GTAGTATCGATACCATGTTGAGGGTATCGATACCAAGTAACATCGAACCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGTAACATCGAACCTAATTTTGGTATCGAT
498621 ACCGGAAGGGGGTATCAGTACCCTAGCATA
66 ACCGGAAGGGGGTATCAGTACCCTAGCATA
* *
498651 GTAGTATCGATATCATGGTGATGGTATCGATACCAAG-ACACATCGAAGCC-AATTTTGGTATCG
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGTA-ACATCGAA-CCTAATTTTGGTATCG
* *
498714 ATACTGGAAGGGGGTATC-GATACCATA--ATA
64 ATACCGGAAGGGGGTATCAG-TACCCTAGCATA
* *
498744 GGGTAGTATCGATACGATGAT-AGAGGTATCGATAC
1 --GTAGTATCGATACCATGGTGAG-GGTATCGATAC
498779 TGAAAGGGCC
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
93 3 0.03
94 3 0.03
95 105 0.93
96 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGTAACATCGAACCTAATTTTGGTATCGAT
ACCGGAAGGGGGTATCAGTACCCTAGCATA
Found at i:498774 original size:20 final size:20
Alignment explanation
Indices: 498726--498778 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
498716 ACTGGAAGGG
*
498726 GGTATCGATACCATAATAGG
1 GGTATCGATACCATAATAGA
* *
498746 GTAGTATCGATACGATGATAGA
1 G--GTATCGATACCATAATAGA
498768 GGTATCGATAC
1 GGTATCGATAC
498779 TGAAAGGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATAATAGA
Found at i:499372 original size:108 final size:108
Alignment explanation
Indices: 499102--499401 Score: 325
Period size: 108 Copynumber: 2.8 Consensus size: 108
499092 TTACCCAATA
* * * * *
499102 GGCACTAAATGTGCCTTTCACAGAATTCATCCA-ATGTGGATGAATAACCGTTTCGACACTAAGC
1 GGCACTAAGTGTGCATTTCACAGAATTCAT-CATATGTGGATGAATAACCGTTTTGGCACTAAGT
*** * *
499166 GTGCATTTCATGGAATTCATCCTATGTGGATGAATAATCATTTT
65 GTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCATTTC
* * * * ** *
499210 AGCACTAAGTGTACATTTCACATAATTAAT-ACTATGTGGATGAATAACTATTTTGGTACTAAGT
1 GGCACTAAGTGTGCATTTCACAGAATTCATCA-TATGTGGATGAATAACCGTTTTGGCACTAAGT
** *
499274 GTGTGTTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTC
65 GTGCATTTCACAAAATTCATCCTATGTGGATGAATAACCATTTC
** * *
499318 GGCACTAAGTGTGCATTTCATGGAATTCATCATATGAGGATGAATAACCGTTTTGGCACTACGTG
1 GGCACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTTTTGGCACTAAGTG
** *
499383 TGCAAATCACGAAATTCAT
66 TGCATTTCACAAAATTCAT
499402 AATTTACTTA
Statistics
Matches: 153, Mismatches: 36, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
106 1 0.01
108 151 0.99
109 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (108 bp):
GGCACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTTTTGGCACTAAGTG
TGCATTTCACAAAATTCATCCTATGTGGATGAATAACCATTTC
Found at i:499399 original size:54 final size:54
Alignment explanation
Indices: 499102--499401 Score: 293
Period size: 54 Copynumber: 5.6 Consensus size: 54
499092 TTACCCAATA
* * *
499102 GGCACTAAATGTGCCTTTCAC-AGAATTCATCCA-ATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGA-AATTCAT-CATATGTGGATGAATAACCGTTTT
* * * * * * *
499156 GACACTAAGCGTGCATTTCATGGAATTCATCCTATGTGGATGAATAATCATTTT
1 GGCACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTT
* * * **
499210 AGCACTAAGTGTACATTTCAC-ATAATTAAT-ACTATGTGGATGAATAACTATTTT
1 GGCACTAAGTGTGCATTTCACGA-AATTCATCA-TATGTGGATGAATAACCGTTTT
* ** * * *
499264 GGTACTAAGTGTGTGTTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTT
* * *
499318 GGCACTAAGTGTGCATTTCATGGAATTCATCATATGAGGATGAATAACCGTTTT
1 GGCACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTT
* **
499372 GGCACTACGTGTGCAAATCACGAAATTCAT
1 GGCACTAAGTGTGCATTTCACGAAATTCAT
499402 AATTTACTTA
Statistics
Matches: 196, Mismatches: 44, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
53 1 0.01
54 194 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTT
Found at i:504239 original size:308 final size:308
Alignment explanation
Indices: 503681--504285 Score: 1201
Period size: 308 Copynumber: 2.0 Consensus size: 308
503671 CTCAATGAAT
503681 AAATATGCTGAGTTGTATATAAAAGAGATAGTTAGACTACATGGAGTACCGATATCGATATTGTC
1 AAATATGCTGAGTTGTATATAAAAGAGATAGTTAGACTACATGGAGTACCGATATCGATATTGTC
503746 CGATCGAGACCCAGGATTTACTTCAAGATTTTGGAAATCCTTTCATGAGGCATTGGGTACTCGAT
66 CGATCGAGACCCAGGATTTACTTCAAGATTTTGGAAATCCTTTCATGAGGCATTGGGTACTCGAT
503811 TAAACTTTAGTACAACATCTCATCATCAGACAGATGGGTAGTTAGAGCAAGTTATTCAAATACTG
131 TAAACTTTAGTACAACATCTCATCATCAGACAGATGGGTAGTTAGAGCAAGTTATTCAAATACTG
*
503876 GAGGATATGGTTAGGGCATGTGTGATTGAATTTATGGGATCGTAAGAAAAGTATTTACCATTAAC
196 GAGGATATGGTTAGGGCATGTGTGATTGAATTTATGGGATCGTAAGAAAAGTATTTACCATTAAA
503941 AAAATTCACGTATAACAATAGTTATCAATCAAGTATTTACCATTAACA
261 AAAATTCACGTATAACAATAGTTATCAATCAAGTATTTACCATTAACA
503989 AAATATGCTGAGTTGTATATAAAAGAGATAGTTAGACTACATGGAGTACCGATATCGATATTGTC
1 AAATATGCTGAGTTGTATATAAAAGAGATAGTTAGACTACATGGAGTACCGATATCGATATTGTC
504054 CGATCGAGACCCAGGATTTACTTCAAGATTTTGGAAATCCTTTCATGAGGCATTGGGTACTCGAT
66 CGATCGAGACCCAGGATTTACTTCAAGATTTTGGAAATCCTTTCATGAGGCATTGGGTACTCGAT
504119 TAAACTTTAGTACAACATCTCATCATCAGACAGATGGGTAGTTAGAGCAAGTTATTCAAATACTG
131 TAAACTTTAGTACAACATCTCATCATCAGACAGATGGGTAGTTAGAGCAAGTTATTCAAATACTG
504184 GAGGATATGGTTAGGGCATGTGTGATTGAATTTATGGGATCGTAAGAAAAGTATTTACCATTAAA
196 GAGGATATGGTTAGGGCATGTGTGATTGAATTTATGGGATCGTAAGAAAAGTATTTACCATTAAA
504249 AAAATTCACGTATAACAATAGTTATCAATCAAGTATT
261 AAAATTCACGTATAACAATAGTTATCAATCAAGTATT
504286 AAGATGGCCC
Statistics
Matches: 296, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
308 296 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (308 bp):
AAATATGCTGAGTTGTATATAAAAGAGATAGTTAGACTACATGGAGTACCGATATCGATATTGTC
CGATCGAGACCCAGGATTTACTTCAAGATTTTGGAAATCCTTTCATGAGGCATTGGGTACTCGAT
TAAACTTTAGTACAACATCTCATCATCAGACAGATGGGTAGTTAGAGCAAGTTATTCAAATACTG
GAGGATATGGTTAGGGCATGTGTGATTGAATTTATGGGATCGTAAGAAAAGTATTTACCATTAAA
AAAATTCACGTATAACAATAGTTATCAATCAAGTATTTACCATTAACA
Found at i:505896 original size:94 final size:93
Alignment explanation
Indices: 505798--505978 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 93
505788 ATACCTGGTA
* * *
505798 ACATCAAACCTAATTTTGGTATCGATATC-GAAAGAGGGTATCGGTACCC-AGCATA-GTATTAT
1 ACATCAAACCTAATTTTGGTAACGATATCAG-AAG-GGGTATCGATACCCTA--ATAGGTAGTAT
*
505860 CGATGCCATGGT-GAGGGTATCGATACGAAGAC
62 CGATACCATGGTAGA-GGTATCGATACGAAGAC
* *
505892 ACATCGAATCTAATTTTGGTAACGATATCAGAAGGGGTATCGATACCCTAATAGGGTAGTATCGA
1 ACATCAAACCTAATTTTGGTAACGATATCAGAAGGGGTATCGATACCCTAATA-GGTAGTATCGA
505957 TACCATGGTAGAGGTATCGATA
65 TACCATGGTAGAGGTATCGATA
505979 GTGAAGGGCC
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
92 3 0.04
93 13 0.17
94 57 0.75
95 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (93 bp):
ACATCAAACCTAATTTTGGTAACGATATCAGAAGGGGTATCGATACCCTAATAGGTAGTATCGAT
ACCATGGTAGAGGTATCGATACGAAGAC
Found at i:506373 original size:54 final size:54
Alignment explanation
Indices: 506302--506473 Score: 213
Period size: 54 Copynumber: 3.2 Consensus size: 54
506292 TTACCCAATA
*
506302 GGCACTTAA-TGTGCATTTCACTGAATTAATCCTATGTGGATGAATAACCGTTTT
1 GGCAC-TAAGTGTGCATTTCACTGAATTAATCCTATGTGGATGAATAACCGTTTC
* * * * ****
506356 GGCTCTAAGTGTGCATTTCCCAGAATTTATCCTATGTGGATGAATAGTTATTTC
1 GGCACTAAGTGTGCATTTCACTGAATTAATCCTATGTGGATGAATAACCGTTTC
* *
506410 GGCACTAAGTGTGCATTTCA-TGGAATTCACCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACT-GAATTAATCCTATGTGGATGAATAACCGTTTC
506464 GGCACTAAGT
1 GGCACTAAGT
506474 ATGTGATAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.03
54 95 0.97
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACTGAATTAATCCTATGTGGATGAATAACCGTTTC
Found at i:509944 original size:21 final size:21
Alignment explanation
Indices: 509918--509959 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
509908 AAACTAGATG
509918 GTAAAGGTAGATAAATTCATA
1 GTAAAGGTAGATAAATTCATA
509939 GTAAAGGTAGATAAATTCATA
1 GTAAAGGTAGATAAATTCATA
509960 TTTCCAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (21 bp):
GTAAAGGTAGATAAATTCATA
Found at i:511018 original size:17 final size:19
Alignment explanation
Indices: 510983--511021 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
510973 TACTGATACA
*
510983 ACCCTCTTATGGTATCGAT
1 ACCCTCTTATGGTACCGAT
511002 ACCC-CTTA-GGTACCGAT
1 ACCCTCTTATGGTACCGAT
511019 ACC
1 ACC
511022 ATTTTTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (19 bp):
ACCCTCTTATGGTACCGAT
Found at i:517517 original size:54 final size:54
Alignment explanation
Indices: 517457--517577 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 54
517447 TTTATCCCAT
* * * *
517457 GTGGATGAAT-AGTCGTTTCGGCACTAAGTGTACATTTCGC-AGAATTCAACCTAG
1 GTGGATGAATAACT-GTTTCAGCACTAAGTGTACATTTCACGA-AATTCAACCTAC
* **
517511 GTGGATGAATAACTGTTTCAGTACTAAGTGTGTATTTCACGAAATTCAACCTAC
1 GTGGATGAATAACTGTTTCAGCACTAAGTGTACATTTCACGAAATTCAACCTAC
*
517565 GAGGATGAATAAC
1 GTGGATGAATAAC
517578 CATTTTGGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
54 54 0.95
55 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (54 bp):
GTGGATGAATAACTGTTTCAGCACTAAGTGTACATTTCACGAAATTCAACCTAC
Found at i:521949 original size:288 final size:288
Alignment explanation
Indices: 521428--522002 Score: 803
Period size: 288 Copynumber: 2.0 Consensus size: 288
521418 TCAACTTCCC
** * *
521428 CATTGTCAACAACAAGCATGGTGTTCATATTGAGAGATTAAGTTGTAACATGAACTATCCCAATG
1 CATTGTCAACAACAAGCATGGTGTTCATAAAGAGACATTAAGTTGCAACATGAACTATCCCAATG
* * * *
521493 CAATGGAAACATTTAAAGTGTAGTGACCTTTCAAAATTTTTCAGCTATTTCACTTTTCCTTTATT
66 CAATGGAAACATTTAAAGTCTAGTGACCTTTCAAAATTTTTCAGCTACTACACTTTGCCTTTATT
* * *
521558 AATTCCACCATTGGTTGTATTACTTTAAATGGCTTGGCATTATCCTTGACATGTGTAGGATATTA
131 AATTCAACCATTGGTTATATTACTTTAAATGGCTTGGCATTATCCTTGACATCTGTAGGATATTA
*
521623 TTTTCTATAATTATTTCCTTGACTCCACTTCCTTGAAGAGTTGTTGACTAGGTTTACTTGCTTTC
196 TTTTCTATAATTATTTACTTGACTCCACTTCCTTGAAGAGTTGTTGACTAGGTTTACTTGCTTTC
521688 TTTTCAACTATCTCTCCAATTTTATCAT
261 TTTTCAACTATCTCTCCAATTTTATCAT
* *
521716 CATTGTCAACAACAAGTATGGTGTTCCTACAAG-GACATTAAGTTGCAACATGAACTATCCCAAT
1 CATTGTCAACAACAAGCATGGTGTTCATA-AAGAGACATTAAGTTGCAACATGAACTATCCCAAT
* * *
521780 GCAGTGGAAACATTTAAAGTCTCGTGACCTTTTAGAAA-TTTTCAGCTACTACACTTTGCCTTTA
65 GCAATGGAAACATTTAAAGTCTAGTGACCTTTCA-AAATTTTTCAGCTACTACACTTTGCCTTTA
* * ** * * *
521844 TTAATTCAACCATTTGTTATCTTGTTTTAGATGGCTTGGCATTGTCCTTGACATCTGTATGATAT
129 TTAATTCAACCATTGGTTATATTACTTTAAATGGCTTGGCATTATCCTTGACATCTGTAGGATAT
* * * * * ** *
521909 TGTTTTTTGTAGTTATTTACTTTACTCCACTTGGTTGAAGAGTTGTTGACTCGGTTTACTTGCTT
194 TATTTTCTATAATTATTTACTTGACTCCACTTCCTTGAAGAGTTGTTGACTAGGTTTACTTGCTT
* * *
521974 TCTTTTTAATTGTCTCTCCAATTTTATCA
259 TCTTTTCAACTATCTCTCCAATTTTATCA
522003 CCATGTGCAC
Statistics
Matches: 250, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
288 246 0.98
289 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (288 bp):
CATTGTCAACAACAAGCATGGTGTTCATAAAGAGACATTAAGTTGCAACATGAACTATCCCAATG
CAATGGAAACATTTAAAGTCTAGTGACCTTTCAAAATTTTTCAGCTACTACACTTTGCCTTTATT
AATTCAACCATTGGTTATATTACTTTAAATGGCTTGGCATTATCCTTGACATCTGTAGGATATTA
TTTTCTATAATTATTTACTTGACTCCACTTCCTTGAAGAGTTGTTGACTAGGTTTACTTGCTTTC
TTTTCAACTATCTCTCCAATTTTATCAT
Found at i:527549 original size:10 final size:10
Alignment explanation
Indices: 527509--527550 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
527499 GAACCTATCG
527509 AAACTGGTC-
1 AAACTGGTCA
*
527518 AAACCGGTCA
1 AAACTGGTCA
527528 AAACTGGTTCA
1 AAACTGG-TCA
527539 AAACTGGTCA
1 AAACTGGTCA
527549 AA
1 AA
527551 CCGGTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 8 0.28
10 11 0.38
11 10 0.34
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (10 bp):
AAACTGGTCA
Found at i:534758 original size:7 final size:7
Alignment explanation
Indices: 534733--534777 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
534723 GGTCAAAGGA
534733 GGTCAAC
1 GGTCAAC
534740 GGTC-AC
1 GGTCAAC
534746 GGTCAAC
1 GGTCAAC
*
534753 GTTCAAC
1 GGTCAAC
*
534760 GGTTAAC
1 GGTCAAC
534767 GGTCAAC
1 GGTCAAC
534774 GGTC
1 GGTC
534778 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (7 bp):
GGTCAAC
Found at i:553752 original size:22 final size:21
Alignment explanation
Indices: 553722--553763 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
553712 AATACAAGTG
*
553722 CAATAGTTACGTGCATTCATC
1 CAATAGTTACGTACATTCATC
553743 CAATAAGTTACGTACATTCAT
1 CAAT-AGTTACGTACATTCAT
553764 TAAATAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
CAATAGTTACGTACATTCATC
Found at i:553769 original size:22 final size:22
Alignment explanation
Indices: 553726--553770 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
553716 CAAGTGCAAT
* *
553726 AGTTACGTGCATTCATCCAATA
1 AGTTACGTACATTCATCAAATA
*
553748 AGTTACGTACATTCATTAAATA
1 AGTTACGTACATTCATCAAATA
553770 A
1 A
553771 TGCATATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (22 bp):
AGTTACGTACATTCATCAAATA
Done.