Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002391.1 Hibiscus syriacus cultivar Beakdansim tig00004890_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: 196058
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:4169 original size:24 final size:24
Alignment explanation
Indices: 4141--4190 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4131 TGGTGGTTGG
*
4141 TTTAATGG-ATTTTTAAACTTTATT
1 TTTAATGGTATGTTT-AACTTTATT
*
4165 TTTAATGGTATGTTTAAGTTTATT
1 TTTAATGGTATGTTTAACTTTATT
4189 TT
1 TT
4191 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATGTTTAACTTTATT
Found at i:6016 original size:23 final size:21
Alignment explanation
Indices: 5982--6060 Score: 86
Period size: 23 Copynumber: 3.6 Consensus size: 21
5972 CATGGCCTTG
5982 TGCATCGATGCACATTCAAGACA
1 TGCATCGATGCACATTCAAG--A
* * * *
6005 TGCATCGGTGCACCTTCATGG
1 TGCATCGATGCACATTCAAGA
*
6026 TGTATCGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAA-GA
6048 TGCATCGATGCAC
1 TGCATCGATGCAC
6061 TGTTAGGTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 15 0.33
22 13 0.29
23 17 0.38
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
TGCATCGATGCACATTCAAGA
Found at i:6036 original size:44 final size:42
Alignment explanation
Indices: 5985--6079 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
5975 GGCCTTGTGC
*
5985 ATCGATGCACATTCAAGACATGCATCGGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAAG-CATGCATCGATGCA-CTGTCA-GGTGT
* *
6029 ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGCATGCATCGATGCACTGTCAGGTGT
6071 ATCGATGCA
1 ATCGATGCA
6080 TTAAGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 16 0.34
43 14 0.30
44 17 0.36
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (42 bp):
ATCGATGCACATTCAAGCATGCATCGATGCACTGTCAGGTGT
Found at i:6076 original size:20 final size:21
Alignment explanation
Indices: 5985--6079 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 21
5975 GGCCTTGTGC
* *
5985 ATCGATGCACATTCAAGACATGC
1 ATCGATGCACATTCAAG--GTGT
* * *
6008 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
6029 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
6051 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
6071 ATCGATGCA
1 ATCGATGCA
6080 TTAAGCACAA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 11 0.19
21 21 0.36
22 13 0.22
23 14 0.24
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:12304 original size:90 final size:93
Alignment explanation
Indices: 12196--12366 Score: 244
Period size: 90 Copynumber: 1.9 Consensus size: 93
12186 AGTGCATCGG
*
12196 TGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAAT-AGCCA-GAGTGCATCG
1 TGCACTAAGAGTGCATCGATGCATAAAATACATTCGATG-TTCAAAATAAGCCATG-GTGCATCG
*
12259 ATGCATGG-TTTGTGCATAGATGCATCAAA
64 ATGCATGGATTGGTGCATAGATGCATCAAA
** *
12288 TGCACT-A-AGTGCATCGATGCATAAAATACATTCGATGTTCAATTTAATCCATGGTGCATCGAT
1 TGCACTAAGAGTGCATCGATGCATAAAATACATTCGATGTTCAAAATAAGCCATGGTGCATCGAT
12351 GCATGGATTGGTGCAT
66 GCATGGATTGGTGCAT
12367 CGGTGCCGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
89 6 0.08
90 49 0.69
91 10 0.14
92 6 0.08
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (93 bp):
TGCACTAAGAGTGCATCGATGCATAAAATACATTCGATGTTCAAAATAAGCCATGGTGCATCGAT
GCATGGATTGGTGCATAGATGCATCAAA
Found at i:12799 original size:30 final size:31
Alignment explanation
Indices: 12765--12822 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
12755 ATTGAAAATG
*
12765 GACTAAATGTTGGGG-ATTGTATTGCAAACT
1 GACTAAATGTTGGGGAACTGTATTGCAAACT
12795 GACTAAATGTTGGGGAACTGTATTGCAA
1 GACTAAATGTTGGGGAACTGTATTGCAA
12823 GTTTTAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (31 bp):
GACTAAATGTTGGGGAACTGTATTGCAAACT
Found at i:12979 original size:28 final size:28
Alignment explanation
Indices: 12921--13017 Score: 167
Period size: 28 Copynumber: 3.4 Consensus size: 28
12911 GTAGTTCGGT
* *
12921 TATGAAATTTCTATGAAAGTTGATTTATA
1 TATGAAATTTCCATG-AAGTTGATTTGTA
12950 TATGAAATTTCCATGAAGTTGATTTGTA
1 TATGAAATTTCCATGAAGTTGATTTGTA
12978 TATGAAATTTCCATGAAGTTGATTTGTA
1 TATGAAATTTCCATGAAGTTGATTTGTA
13006 TATGAAATTTCC
1 TATGAAATTTCC
13018 CATTGTTTCG
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
28 52 0.79
29 14 0.21
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (28 bp):
TATGAAATTTCCATGAAGTTGATTTGTA
Found at i:15517 original size:2 final size:2
Alignment explanation
Indices: 15510--15615 Score: 212
Period size: 2 Copynumber: 53.0 Consensus size: 2
15500 AACTAATCTG
15510 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15594 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
15616 TACTTGGATG
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 104 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16083 original size:24 final size:24
Alignment explanation
Indices: 16046--16108 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
16036 CATTTTCATC
*
16046 AAAATATTAATTATTAAAATATT-TA
1 AAAATA-TATTTATTAAAAT-TTCTA
*
16071 AAAATATATTTATTAATATTTCTA
1 AAAATATATTTATTAAAATTTCTA
*
16095 ATAATATATATTAT
1 AAAATATAT-TTAT
16109 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 2 0.06
24 21 0.64
25 10 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATTTATTAAAATTTCTA
Found at i:16110 original size:21 final size:21
Alignment explanation
Indices: 16076--16131 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
16066 ATTTAAAAAT
*
16076 ATATTTATTAATATTTCTAATA
1 ATATATATT-ATATTTCTAATA
*
16098 ATATATATTATATTTTTAATA
1 ATATATATTATATTTCTAATA
*
16119 GTATAATATTATA
1 ATAT-ATATTATA
16132 CTCACTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATATATTATATTTCTAATA
Found at i:16525 original size:25 final size:24
Alignment explanation
Indices: 16486--16533 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
16476 TTAAAATTTT
*
16486 ATAAATAATAATATTAAATTTTATG
1 ATAAATAACAATATT-AATTTTATG
* *
16511 ATAAATAACACTATTTATTTTAT
1 ATAAATAACAATATTAATTTTAT
16534 TTAATATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
ATAAATAACAATATTAATTTTATG
Found at i:19853 original size:21 final size:21
Alignment explanation
Indices: 19829--19873 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
19819 TAACATTTCT
19829 GGTAAGAAAAATAATGTTTTA
1 GGTAAGAAAAATAATGTTTTA
*
19850 GGT-AGTAAAATAATGTTTTA
1 GGTAAGAAAAATAATGTTTTA
19870 GGTA
1 GGTA
19874 GTACTTTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (21 bp):
GGTAAGAAAAATAATGTTTTA
Found at i:19861 original size:20 final size:20
Alignment explanation
Indices: 19836--19876 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19826 TCTGGTAAGA
19836 AAAATAATGTTTTAGGTAGT
1 AAAATAATGTTTTAGGTAGT
19856 AAAATAATGTTTTAGGTAGT
1 AAAATAATGTTTTAGGTAGT
19876 A
1 A
19877 CTTTACCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (20 bp):
AAAATAATGTTTTAGGTAGT
Found at i:20792 original size:64 final size:60
Alignment explanation
Indices: 20671--20886 Score: 195
Period size: 64 Copynumber: 3.4 Consensus size: 60
20661 TAATAATATC
* *
20671 TTTTAATTTGAAATATTCAAAAGATATAAACTCCTTTTACTATTCAAACTTAAATAGATATTA
1 TTTTAATTTGAAATATTCAAAAGATATATA-T-CTTTTAATATTCAAA-TTAAATAGATATTA
20734 TTTTAATTTGAAATATTCAAAAGTATATCAGTATCTTTTAATATTCAAAGTTAAATAGATAATAA
1 TTTTAATTTGAAATATTCAAAAG-ATAT-A-TATCTTTTAATATTCAAA-TTAAATAGAT-AT--
20799 ATAA
59 -T-A
* ** * *
20803 TTTTTAATTTGAAATATTTAAAAGA-ATAATTATCATACTAATATTCAAATTAAAGA-ATA-TC
1 -TTTTAATTTGAAATATTCAAAAGATAT-A-TATC-TTTTAATATTCAAATTAAATAGATATTA
*
20864 TTTTAATTTGTAATATTCAAAAG
1 TTTTAATTTGAAATATTCAAAAG
20887 GAATATGAAT
Statistics
Matches: 131, Mismatches: 12, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
60 21 0.16
62 1 0.01
63 23 0.18
64 28 0.21
65 4 0.03
66 2 0.02
67 2 0.02
68 14 0.11
69 14 0.11
70 22 0.17
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (60 bp):
TTTTAATTTGAAATATTCAAAAGATATATATCTTTTAATATTCAAATTAAATAGATATTA
Found at i:20797 original size:132 final size:129
Alignment explanation
Indices: 20637--20886 Score: 317
Period size: 133 Copynumber: 1.9 Consensus size: 129
20627 ACTATATATA
*
20637 TTTTAATATACAAATTTAAACAGATAAT-AAT-ATCTTTTAATTTGAAATATTCAAAAGATATAA
1 TTTTAATATACAAAGTTAAACAGATAATAAATAAT-TTTTAATTTGAAATATTCAAAAGA-ATAA
* ** * *
20700 -ACTCCTTTTACTATTCAAACTTAAATAGATATTATTTTAATTTGAAATATTCAAAAGTATATCA
64 TA-TCATACTAATATTCAAA-TTAAAGA-ATA-TATTTTAATTTGAAATATTCAAAAGTATATCA
20764 GTATC
125 GTATC
* * *
20769 TTTTAATATTCAAAGTTAAATAGATAATAAATAATTTTTAATTTGAAATATTTAAAAGAATAATT
1 TTTTAATATACAAAGTTAAACAGATAATAAATAATTTTTAATTTGAAATATTCAAAAGAATAA-T
* *
20834 ATCATACTAATATTCAAATTAAAGAATATCTTTTAATTTGTAATATTCAAAAG
65 ATCATACTAATATTCAAATTAAAGAATATATTTTAATTTGAAATATTCAAAAG
20887 GAATATGAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
130 23 0.22
131 3 0.03
132 35 0.34
133 39 0.38
134 3 0.03
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (129 bp):
TTTTAATATACAAAGTTAAACAGATAATAAATAATTTTTAATTTGAAATATTCAAAAGAATAATA
TCATACTAATATTCAAATTAAAGAATATATTTTAATTTGAAATATTCAAAAGTATATCAGTATC
Found at i:23067 original size:20 final size:21
Alignment explanation
Indices: 23028--23067 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23018 ATTCATCCAT
**
23028 TATCGATACTGTTTACCCTAG
1 TATCGATACTGTGAACCCTAG
23049 TATCGATACT-TGAACCCTA
1 TATCGATACTGTGAACCCTA
23068 AAATGGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (21 bp):
TATCGATACTGTGAACCCTAG
Found at i:23570 original size:16 final size:15
Alignment explanation
Indices: 23531--23571 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
23521 GAAAAAGAGA
*
23531 AAGAGAGAAGAAATG
1 AAGAGATAAGAAATG
23546 AAGAGGATAAGAAGATG
1 AAGA-GATAAGAA-ATG
23563 AAGAGATAA
1 AAGAGATAA
23572 TAAAGTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 12 0.52
17 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.10
Consensus pattern (15 bp):
AAGAGATAAGAAATG
Found at i:25703 original size:21 final size:21
Alignment explanation
Indices: 25677--25720 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
25667 ATTCTGGGCT
* *
25677 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
25698 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
25719 AG
1 AG
25721 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:25791 original size:23 final size:22
Alignment explanation
Indices: 25747--25791 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25737 AATGTCATGG
*
25747 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
25769 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
25792 AAATTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:27053 original size:18 final size:18
Alignment explanation
Indices: 27030--27065 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27020 AGGAATGATA
27030 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
27048 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
27066 ATATGTATTC
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:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:27088 original size:121 final size:121
Alignment explanation
Indices: 26927--27290 Score: 647
Period size: 121 Copynumber: 3.0 Consensus size: 121
26917 CGAGGGTCTA
* *
26927 TGTGGTCCTTCGGGACATATATGTATCCTTTGGAATATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
26992 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
27048 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
** *
27113 GATCTTTGGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
*
27169 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* **
27234 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
27290 T
1 T
27291 ATTATATGGC
Statistics
Matches: 231, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 231 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:27174 original size:18 final size:18
Alignment explanation
Indices: 27151--27186 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27141 AGGAATGATA
27151 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
27169 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
27187 ATATGTATTC
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:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:27188 original size:62 final size:62
Alignment explanation
Indices: 27001--27188 Score: 164
Period size: 62 Copynumber: 3.1 Consensus size: 62
26991 TGATCCCTAG
27001 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
* * * * * *
27063 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGT-CTGGT-GAGACACATACT-TGAT-CTT
1 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCCT--TCG-G-GACAT--TGTGGTCCTT
*
27119 -TGG-
58 CGGGA
27122 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
27184 CATAT
1 CATAT
27189 ATGTATTCTT
Statistics
Matches: 93, Mismatches: 14, Indels: 38
0.64 0.10 0.26
Matches are distributed among these distances:
57 6 0.06
58 7 0.08
59 16 0.17
60 15 0.16
61 15 0.16
62 21 0.23
63 7 0.08
64 6 0.06
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (62 bp):
CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
Found at i:27365 original size:23 final size:23
Alignment explanation
Indices: 27297--27357 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
27287 CATTATTATA
*
27297 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
27320 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
27343 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
27358 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:28128 original size:19 final size:19
Alignment explanation
Indices: 28107--28142 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
28097 AATATATTTA
28107 AAAACA-ATAAAATAAATT
1 AAAACATATAAAATAAATT
28125 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
28143 GACTAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAACATATAAAATAAATT
Found at i:29392 original size:3 final size:3
Alignment explanation
Indices: 29384--29510 Score: 182
Period size: 3 Copynumber: 41.7 Consensus size: 3
29374 TTATTTGTTA
* *
29384 AAT AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT ACT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT
* *
29431 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
29479 AAT AAT ATT AAT ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29511 AATGGATAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
3 104 0.95
4 6 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:29957 original size:113 final size:113
Alignment explanation
Indices: 29758--30044 Score: 425
Period size: 113 Copynumber: 2.5 Consensus size: 113
29748 GCTCTTGATG
29758 AGTTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC
1 AGTTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC
** * * * *
29822 CTGGCCATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
65 CTGGAAAAGATGATCCACCAAATGATGAATTCAAACAAAAAGTTGAACA
29871 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-
** *** *
29935 CTGGAAAAGATGATCCACCAAATGATGGGTTCAGGTAAAAGGTTGAACA
65 CTGGAAAAGATGATCCACCAAATGATGAATTCAAACAAAAAGTTGAACA
*
29984 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
30045 CTTCTTCCTT
Statistics
Matches: 159, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
112 1 0.01
113 157 0.99
114 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACC
TGGAAAAGATGATCCACCAAATGATGAATTCAAACAAAAAGTTGAACA
Found at i:30041 original size:40 final size:40
Alignment explanation
Indices: 29986--30237 Score: 232
Period size: 40 Copynumber: 6.5 Consensus size: 40
29976 GTTGAACAAA
29986 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
30026 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
*****
30066 TTCTTCTCATTATGAAC-T-TTC-T-CTGGAAAAGATGA-
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* ** ** * * ** ****** * **
30101 TCCACCAAATGATGGA-TTCAGGC-AAAAGGTTGA-ACAAG
1 TTCTTCTCATTATGAACTTC-TTCTTCCTTCTTCAGATGAG
30139 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
30179 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
30219 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
30238 TCTCTGGAAA
Statistics
Matches: 164, Mismatches: 40, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
35 10 0.06
36 8 0.05
37 4 0.02
38 16 0.10
39 7 0.04
40 119 0.73
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
Found at i:30043 original size:153 final size:153
Alignment explanation
Indices: 29871--30350 Score: 933
Period size: 153 Copynumber: 3.1 Consensus size: 153
29861 AAGTTGAACA
29871 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * *
29936 TGGAAAAGATGATCCACCAAATGATGGGTTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGA
66 TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGA
30001 ACTTCTTCTTCCTTCTTCAGATG
131 ACTTCTTCTTCCTTCTTCAGATG
30024 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
30089 TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGA
66 TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGA
30154 ACTTCTTCTTCCTTCTTCAGATG
131 ACTTCTTCTTCCTTCTTCAGATG
30177 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
30242 TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGA
66 TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGA
30307 ACTTCTTCTTCCTTCTTCAGATG
131 ACTTCTTCTTCCTTCTTCAGATG
30330 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTT
30351 TCTCTGGAAA
Statistics
Matches: 324, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 324 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (153 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATG
Found at i:30294 original size:113 final size:113
Alignment explanation
Indices: 30177--30836 Score: 1167
Period size: 113 Copynumber: 5.8 Consensus size: 113
30167 TCTTCAGATG
30177 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * *
30242 TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
30290 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * *
30355 TGGAAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAAGTTGAACA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
30403 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * * *
30468 TGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAATA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
30516 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
30581 TGGAAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
30629 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
30694 TGGAAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
30742 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
30807 TGGTAATGATGATCCATCAAATGATGAATT
66 TGGAAATGATGATCCATCAAATGATGAATT
30837 TGAATCTTTG
Statistics
Matches: 522, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 522 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
Found at i:30562 original size:266 final size:264
Alignment explanation
Indices: 29754--30576 Score: 927
Period size: 266 Copynumber: 3.1 Consensus size: 264
29744 ATAAGCTCTT
29754 GATGAGTTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GATGAGTTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
** * *
29818 TTAC-CTGGCCATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCA
65 TT-CTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCA
29882 TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATG
129 TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATG
* *
29947 ATCCACCAAATGATGGGTTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
194 ATCCACCAAATGATGGATTCAGG-AAAAGGTTGAA-TAATTCTTCTCATTATGAACTTCTTCTTC
30012 CTTCTTCA
257 CTTCTTCA
30020 GATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 GATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
* * * * * *
30085 TCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATT
66 TCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATT
*****
30150 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
131 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-TTC-T-CTGGAAAAGA
** * **** * * * ** * *
30215 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA-GATG-ATCCA--C--CAAATGATGGA-TTC
192 TGA--TCCAC-CA-AATGATGGAT-TCAGGAAAAGGTTGAAT-AATTCTTCTCATTATGAACTTC
** ****** *
30273 AGGC-AAAAGGTTGA
251 -TTCTTCCTTCTTCA
** * * ****
30287 -ACAAGTTCTTCTCATTATGAACTTCTTC-T-T-CCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 GATGAGTTC-T-TC-TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
30348 CTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTC
63 CTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTC
30413 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAT
128 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAT
30478 GATCCACCAAATGATGGATTCAGGCAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTT
193 GATCCACCAAATGATGGATTCAGG-AAAAGGTTGAATAA-TTCTTCTCATTATGAACTTCTTCTT
30543 CCTTCTTCA
256 CCTTCTTCA
30552 GATGAGTTCTTCTCATTATGAACTT
1 GATGAGTTCTTCTCATTATGAACTT
30577 TCTCTGGAAA
Statistics
Matches: 440, Mismatches: 90, Indels: 57
0.75 0.15 0.10
Matches are distributed among these distances:
257 4 0.01
258 9 0.02
259 6 0.01
260 5 0.01
262 9 0.02
263 8 0.02
264 13 0.03
265 9 0.02
266 312 0.71
267 10 0.02
268 14 0.03
269 9 0.02
270 9 0.02
272 5 0.01
273 5 0.01
274 9 0.02
275 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (264 bp):
GATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
TCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATT
ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGAT
CCACCAAATGATGGATTCAGGAAAAGGTTGAATAATTCTTCTCATTATGAACTTCTTCTTCCTTC
TTCA
Found at i:31472 original size:52 final size:52
Alignment explanation
Indices: 31394--32159 Score: 1380
Period size: 52 Copynumber: 14.7 Consensus size: 52
31384 CACTTCTTCG
* * *
31394 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAACA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAATCA
31446 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
31498 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
31550 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
31602 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
31654 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
31706 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
31758 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
*
31810 GATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
*
31862 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAATCA
*
31914 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAATCA
31966 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
*
32018 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAATCA
*
32070 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAATCA
32122 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
32160 TGAGCACATA
Statistics
Matches: 702, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
51 2 0.00
52 698 0.99
53 2 0.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (52 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
Found at i:44538 original size:19 final size:19
Alignment explanation
Indices: 44517--44552 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44507 AATATATTTA
44517 AAAACA-ATAAAATAAATT
1 AAAACATATAAAATAAATT
44535 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
44553 GACTAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAACATATAAAATAAATT
Found at i:45806 original size:3 final size:3
Alignment explanation
Indices: 45798--45927 Score: 188
Period size: 3 Copynumber: 42.7 Consensus size: 3
45788 TTATTTGTTA
*
45798 AAT AAT AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT
* * *
45845 ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
45893 AAT AAT AAT ATT AAT ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45928 AATGGATAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
3 107 0.95
4 6 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:47970 original size:31 final size:31
Alignment explanation
Indices: 47932--48025 Score: 129
Period size: 31 Copynumber: 3.0 Consensus size: 31
47922 CCCAAAGGAC
*
47932 CAGTCCATA-GATCCCAAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCAAAGAACATAGGTAAA
47963 CAGTCCATATGT-CCAGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCA-AAGAACATAGGTAAA
* *
47994 CAGTCCATATGTCCCGAAGAACATACGTAAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAAA
48025 C
1 C
48026 CCTCAACCCT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
30 3 0.05
31 51 0.89
32 3 0.05
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.18
Consensus pattern (31 bp):
CAGTCCATATGTCCCAAAGAACATAGGTAAA
Found at i:48815 original size:64 final size:64
Alignment explanation
Indices: 48682--48838 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 64
48672 TAATGAAGGT
* ***
48682 ATGCATCGATGCACTACTGATGCATC-AGTGCATAAAATGCATTCGATGTTGTATTATTACTGGC
1 ATGCATCGATGCACTACTTATGCATCGA-TGCATAAAATGCATTCGATGTTGTATTATTAAAAGC
* * * *
48746 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGGATTCGATGTATTTATT-TTAAAAG-
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGT-TGTATTATTAAAAGC
* * *
48809 AGTGCATCGATGCACTTCCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
48839 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 72 0.91
65 6 0.08
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAAGC
Found at i:49384 original size:3 final size:3
Alignment explanation
Indices: 49376--49428 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
49366 TCTCGTACAT
* *
49376 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA GAT
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
49424 GAA GA
1 GAA GA
49429 GAATATCTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:52531 original size:121 final size:121
Alignment explanation
Indices: 52299--52521 Score: 295
Period size: 121 Copynumber: 1.8 Consensus size: 121
52289 TATTTTAAGA
* ** *
52299 AAATATTTTAGTTATTTATTTATTTTTTAATGTTGAAGGAAAGAGTTGTCTTAAAGCAACTAGAA
1 AAATATTTTAGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGTTGTCTTAAAGCAACTAGAA
*
52364 GCCATTTTCTAAATATTTTTAAATAAATATCTTACTATATTAAAATAAATTTTTTT
66 GCCATTTTCTAAATATTTGTAAATAAATATCTTACTATATTAAAATAAATTTTTTT
* * * * *
52420 AAATGTTTTTGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGTTGTCTTAAGGTACCTAGAA
1 AAATATTTTAGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGTTGTCTTAAAGCAACTAGAA
* *
52485 GCCCTTTTCT-GATATTTCCAAGTAAATAAATATCTTA
66 GCCATTTTCTAAATATTT----GTAAATAAATATCTTA
52522 TTTATAAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
120 6 0.07
121 65 0.76
124 15 0.17
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (121 bp):
AAATATTTTAGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGTTGTCTTAAAGCAACTAGAA
GCCATTTTCTAAATATTTGTAAATAAATATCTTACTATATTAAAATAAATTTTTTT
Found at i:54717 original size:16 final size:16
Alignment explanation
Indices: 54696--54740 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
54686 CATTCACATA
54696 TTTACATTTGCATTTT
1 TTTACATTTGCATTTT
54712 TTTACATTTGCATTTT
1 TTTACATTTGCATTTT
54728 TTTACATTTGCAT
1 TTTACATTTGCAT
54741 ATTTCCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (16 bp):
TTTACATTTGCATTTT
Found at i:61054 original size:54 final size:54
Alignment explanation
Indices: 60972--61181 Score: 339
Period size: 54 Copynumber: 3.9 Consensus size: 54
60962 AGAAATCTTG
* * * * * *
60972 GCAGAAGCCACAGAAAAGGACGAATGTGTTGTCAAACGCTTTACGAACGTCTGA
1 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
61026 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
61080 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
* * *
61134 GCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAAC
1 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
61182 CTGCTATTCT
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
Found at i:61573 original size:22 final size:22
Alignment explanation
Indices: 61545--61604 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
61535 TCTACATCTA
*
61545 CACTCTTCAAAGATGATAGATT
1 CACTCTTCAAAGATGACAGATT
61567 CACTCTTCAAAGATGACAGATT
1 CACTCTTCAAAGATGACAGATT
* *
61589 CTCTTTTCAAAGATGA
1 CACTCTTCAAAGATGA
61605 AAGCTTTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (22 bp):
CACTCTTCAAAGATGACAGATT
Found at i:62393 original size:164 final size:164
Alignment explanation
Indices: 62122--62435 Score: 495
Period size: 164 Copynumber: 1.9 Consensus size: 164
62112 AAAAATAGCC
* * *
62122 TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAATGAT
1 TTATCTTAAGATTGAGGCATGTTACCCAATCAACATGATATTTTGAAAAATAACGAGAAAACGAT
** * *
62187 TTCCATAGTTTCTCATTTTATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
66 TTCCATAGTTTCTCATTCAATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCA
* *
62252 TAGTTTTTTACTTAGTAAACTACTTCCAACAACA
131 TAGTATCTTACTTAGTAAACTACTTCCAACAACA
* *
62286 TTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAACGAGAAAACGAT
1 TTATCTTAAGATTGAGGCATGTTACCCAATCAACATGATATTTTGAAAAATAACGAGAAAACGAT
* *
62351 TTTCA-AGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAATGATTTCC
66 TTCCATAGTTTCTCATTCAATCTTTTC-GAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
62415 ATAGTATCTTACTTAGTAAAC
130 ATAGTATCTTACTTAGTAAAC
62436 CATTTCCCAC
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
163 19 0.14
164 117 0.86
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (164 bp):
TTATCTTAAGATTGAGGCATGTTACCCAATCAACATGATATTTTGAAAAATAACGAGAAAACGAT
TTCCATAGTTTCTCATTCAATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCCA
TAGTATCTTACTTAGTAAACTACTTCCAACAACA
Found at i:62624 original size:73 final size:72
Alignment explanation
Indices: 62481--62687 Score: 335
Period size: 73 Copynumber: 2.8 Consensus size: 72
62471 GTTTTCAAAT
62481 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACT
1 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACT
62546 CGAAAC-
66 CGAAACG
* * *
62552 AGAACTTTATCTCACTTAAGATTGTTTTTCTTTAAACAAATTTTGTCTCGCTTGAGACAGTTTCA
1 A-AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-TTTGTCTCGCTTGAGACAGTTTCA
*
62617 CTTGAAACG
64 CTCGAAACG
62626 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTCGCTTGAGACAGTT
1 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AA-ATTTGTCTCGCTTGAGACAGTT
62688 ATTTCGAGTT
Statistics
Matches: 124, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
71 1 0.01
72 35 0.28
73 63 0.51
74 24 0.19
75 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (72 bp):
AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACT
CGAAACG
Found at i:62644 original size:37 final size:36
Alignment explanation
Indices: 62481--62692 Score: 174
Period size: 37 Copynumber: 5.8 Consensus size: 36
62471 GTTTTCAAAT
**
62481 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAAATTTATCTCACTTGAGACAGTTTTTCTTAAAAC
* * ** **
62517 -AAATTTGTCTCGCTTGAGACAGTTTCACTCGAAAC
1 AAAATTTATCTCACTTGAGACAGTTTTTCTTAAAAC
* * ** *
62552 AGAACTTTATCTCACTTAAGATTGTTTTTCTTTAAAC
1 A-AAATTTATCTCACTTGAGACAGTTTTTCTTAAAAC
* * * ** *
62589 AAATTTTGTCTCGCTTGAGACAGTTTCACTTGAAAC
1 AAAATTTATCTCACTTGAGACAGTTTTTCTTAAAAC
**
62625 GAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 -AAAATTTATCTCACTTGAGACAGTTTTTCTTAAAAC
* *
62662 AAAGATTTGTCTCGCTTGAGACAGTTATTTC
1 AAA-ATTTATCTCACTTGAGACAGTT-TTTC
62693 GAGTTATTTT
Statistics
Matches: 132, Mismatches: 39, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
35 27 0.20
36 29 0.22
37 72 0.55
38 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (36 bp):
AAAATTTATCTCACTTGAGACAGTTTTTCTTAAAAC
Found at i:62921 original size:76 final size:76
Alignment explanation
Indices: 62795--63025 Score: 390
Period size: 76 Copynumber: 3.0 Consensus size: 76
62785 TATTTCCCAT
62795 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
62860 GCCTTAGGGTC
66 GCCTTAGGGTC
* *
62871 ATCTGTAAGTCCTGCATTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
62936 GCCTTAGGGTC
66 GCCTTAGGGTC
* * * *
62947 ATTTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATATTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
63012 ACCTTCGGGTC
66 GCCTTAGGGTC
63023 ATC
1 ATC
63026 AGCATTACCA
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 144 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:63209 original size:112 final size:112
Alignment explanation
Indices: 63041--63448 Score: 631
Period size: 112 Copynumber: 3.6 Consensus size: 112
63031 TACCAGGTAG
* * **
63041 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
* * * * *
63106 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAA
65 AACCTTTTGCTCGAATTCATCACTTGATGAATTAACTTTTCCAGAGAA
* * * *
63154 AGTTCATAATGAGAAGAACTTATTTGAACAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCA
63219 ACCTTTTGCAT-GAATTCATCACTTGATGAATTAACTTTTCCAGAGAA
66 ACCTTTTGC-TCGAATTCATCACTTGATGAATTAACTTTTCCAGAGAA
* *
63266 AGTTTATAATGAGAAGAACTTATCTGAAGATGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCA
63331 ACCTTTTGC-CTGAATTCATCACTTGATGAATTAACTTTTCCAGAGAA
66 ACCTTTTGCTC-GAATTCATCACTTGATGAATTAACTTTTCCAGAGAA
*
63378 AGTTCATAATGAGAAGAACTTATCTGAAGATGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCA
63443 ACCTTT
66 ACCTTT
63449 GTTTGATTCT
Statistics
Matches: 274, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
112 246 0.90
113 28 0.10
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCA
ACCTTTTGCTCGAATTCATCACTTGATGAATTAACTTTTCCAGAGAA
Found at i:64224 original size:21 final size:21
Alignment explanation
Indices: 64200--64239 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
64190 AAAATTTCAG
64200 TTCAATGTGCATCGATGCACA
1 TTCAATGTGCATCGATGCACA
*
64221 TTCATTGTGCATCGATGCA
1 TTCAATGTGCATCGATGCA
64240 TCGATGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (21 bp):
TTCAATGTGCATCGATGCACA
Found at i:65334 original size:30 final size:30
Alignment explanation
Indices: 65298--65390 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
65288 GTGGTCCTTA
*
65298 TGGACAGTTACTGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
65328 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
65358 TGGATAGTTACCG-GGGTCTTTGTGACCTT
1 TGGACAGTTACCGAGGATCTTTATGACCTC
65387 TGGA
1 TGGA
65391 TAGGTCATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 17 0.29
30 41 0.71
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:66116 original size:21 final size:21
Alignment explanation
Indices: 66092--66134 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66082 AAAGAAGATA
66092 TTGTATAAT-CTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
66113 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
66134 T
1 T
66135 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:68594 original size:21 final size:21
Alignment explanation
Indices: 68570--68609 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
68560 AAAATGTCAG
*
68570 TTCAATGTGCATCGATGCACA
1 TTCAATGTGCACCGATGCACA
*
68591 TTCATTGTGCACCGATGCA
1 TTCAATGTGCACCGATGCA
68610 TCGATGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (21 bp):
TTCAATGTGCACCGATGCACA
Found at i:69702 original size:30 final size:30
Alignment explanation
Indices: 69668--69760 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
69658 GTGGTCCTTA
*
69668 TGGACAGTTACCGATGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
69698 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
69728 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
69757 TGGA
1 TGGA
69761 TAGGTCATTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 18 0.31
30 41 0.69
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:70484 original size:21 final size:21
Alignment explanation
Indices: 70460--70502 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
70450 AAAGAAGATA
70460 TTGTATAAT-CTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
70481 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
70502 T
1 T
70503 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:73079 original size:120 final size:121
Alignment explanation
Indices: 72847--73069 Score: 306
Period size: 120 Copynumber: 1.8 Consensus size: 121
72837 TATTTTAAGA
* ** *
72847 AAATATTTTAGTTATTTATTTATTTTTTTAATGTTGAAGGAAAGAGTTGTCTTAAAGCAACTAGA
1 AAATATTTTAGTTATTTATTTATTTTTTTAATATCAAAGAAAAGAGTTGTCTTAAAGCAACTAGA
*
72912 AGCCCTTTTCTAAATATTTTTAAATAAATATCTTACTATATTAAAATAAATTTTTT
66 AGCCCTTTTCTAAATATTTGTAAATAAATATCTTACTATATTAAAATAAATTTTTT
* * * *
72968 AAATGTTTTAGTTATTTATTTA-TTTTTTAATATCAAAGAAAAGAGTTGTCTTAAGGTACCTAGA
1 AAATATTTTAGTTATTTATTTATTTTTTTAATATCAAAGAAAAGAGTTGTCTTAAAGCAACTAGA
*
73032 AGCCCTTTTCT-GATATTTCCAAGTAAATAAATATCTTA
66 AGCCCTTTTCTAAATATTT----GTAAATAAATATCTTA
73070 TTTATAAATA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
119 6 0.07
120 46 0.52
121 21 0.24
123 15 0.17
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (121 bp):
AAATATTTTAGTTATTTATTTATTTTTTTAATATCAAAGAAAAGAGTTGTCTTAAAGCAACTAGA
AGCCCTTTTCTAAATATTTGTAAATAAATATCTTACTATATTAAAATAAATTTTTT
Found at i:74875 original size:21 final size:19
Alignment explanation
Indices: 74848--74903 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
74838 GTTGTAGTAG
**
74848 GGGTTTAGAAACCAGGCAGA
1 GGGTTTAGAAACCAAACA-A
*
74868 GTGGTTTAGAAACTAAACAA
1 G-GGTTTAGAAACCAAACAA
74888 GGGTTTAGAAACCAAA
1 GGGTTTAGAAACCAAA
74904 TAGGGGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 14 0.45
20 3 0.10
21 14 0.45
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (19 bp):
GGGTTTAGAAACCAAACAA
Found at i:74910 original size:19 final size:19
Alignment explanation
Indices: 74845--74912 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
74835 ATCGTTGTAG
*
74845 TAGGGGTTTAGAAACCAGGCA
1 TAGGGGTTTAGAAACCA--AA
* * *
74866 GAGTGGTTTAGAAACTAAA
1 TAGGGGTTTAGAAACCAAA
* *
74885 CAAGGGTTTAGAAACCAAA
1 TAGGGGTTTAGAAACCAAA
74904 TAGGGGTTT
1 TAGGGGTTT
74913 TTTGAAACAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 23 0.62
21 14 0.38
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (19 bp):
TAGGGGTTTAGAAACCAAA
Found at i:76075 original size:31 final size:31
Alignment explanation
Indices: 76040--76119 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
76030 GTCACATTTG
76040 TTTTTATTTAATTAAGATATGATCAATTTTA
1 TTTTTATTTAATTAAGATATGATCAATTTTA
* *
76071 TTTTTATTTAATTAAGATATGATCACTTTTG
1 TTTTTATTTAATTAAGATATGATCAATTTTA
76102 TTTTTATTTAATTAAGAT
1 TTTTTATTTAATTAAGAT
76120 TTGGTCACCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (31 bp):
TTTTTATTTAATTAAGATATGATCAATTTTA
Found at i:76305 original size:10 final size:10
Alignment explanation
Indices: 76290--76334 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
76280 AAAGACTAAC
76290 TTTATTTTAA
1 TTTATTTTAA
76300 TTTATTTTAA
1 TTTATTTTAA
* *
76310 TTTAATAT-A
1 TTTATTTTAA
76319 TTTATTTTAA
1 TTTATTTTAA
*
76329 CTTATT
1 TTTATT
76335 CAGTTGGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:76707 original size:2 final size:2
Alignment explanation
Indices: 76702--76760 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
76692 GAACTTAAAT
76702 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76744 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
76761 TGCTTTAAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79467 original size:32 final size:32
Alignment explanation
Indices: 79419--79502 Score: 123
Period size: 32 Copynumber: 2.5 Consensus size: 32
79409 GATATTCGGG
*
79419 TCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTC-GGTCGGGTTTTTTAAAGTGTGATAT
79452 TCGGGTCGGTCGGGTTTTTTAAAGTGTGATAT
1 TCGGGTCGGTCGGGTTTTTTAAAGTGTGATAT
*
79484 TCGGGGTTGGGTCGGGTTT
1 TC-GGG-TCGGTCGGGTTT
79503 CTAATTCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 26 0.55
33 10 0.21
34 11 0.23
ACGTcount: A:0.11, C:0.10, G:0.39, T:0.40
Consensus pattern (32 bp):
TCGGGTCGGTCGGGTTTTTTAAAGTGTGATAT
Found at i:79496 original size:38 final size:36
Alignment explanation
Indices: 79390--79498 Score: 127
Period size: 38 Copynumber: 3.0 Consensus size: 36
79380 TCGGGACCGA
* *
79390 GTCGGATTTTTTTAAGTTTGATATTCGGGTCGGGTCGG
1 GTCGGGTTTTTTTAAGTGTGATATTCGGGT-GGGTC-G
79428 GTCGGGTTTTTTTAAGTGTGATATTC----GGGTCG
1 GTCGGGTTTTTTTAAGTGTGATATTCGGGTGGGTCG
*
79460 GTCGGGTTTTTTAAAGTGTGATATTCGGGGTTGGGTCG
1 GTCGGGTTTTTTTAAGTGTGATATTC-GGG-TGGGTCG
79498 G
1 G
79499 GTTTCTAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
32 26 0.42
33 5 0.08
38 31 0.50
ACGTcount: A:0.13, C:0.09, G:0.37, T:0.41
Consensus pattern (36 bp):
GTCGGGTTTTTTTAAGTGTGATATTCGGGTGGGTCG
Found at i:79912 original size:16 final size:17
Alignment explanation
Indices: 79891--79937 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
79881 GTTTCAGATT
79891 CAGATTCCAATTCC-TA
1 CAGATTCCAATTCCTTA
79907 CAGATTCCAATTCCTTTA
1 CAGATTCCAATTCC-TTA
*
79925 CAGATTTCAATTC
1 CAGATTCCAATTC
79938 TCTCAGAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 14 0.50
18 14 0.50
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (17 bp):
CAGATTCCAATTCCTTA
Found at i:82389 original size:15 final size:15
Alignment explanation
Indices: 82369--82398 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82359 GATTAGTATC
82369 TTTCCTAACTTAGAG
1 TTTCCTAACTTAGAG
*
82384 TTTCCTAATTTAGAG
1 TTTCCTAACTTAGAG
82399 ATATAATTTG
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:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCCTAACTTAGAG
Found at i:86560 original size:29 final size:29
Alignment explanation
Indices: 86518--86576 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
86508 ATTCCTAGTG
86518 TTATCTTCAATCAAAGTCTCCCCTGAAGA
1 TTATCTTCAATCAAAGTCTCCCCTGAAGA
86547 TTATCTTCAATCAAAGTCTCCCCTGAAGA
1 TTATCTTCAATCAAAGTCTCCCCTGAAGA
86576 T
1 T
86577 AAATAGACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (29 bp):
TTATCTTCAATCAAAGTCTCCCCTGAAGA
Found at i:86847 original size:17 final size:17
Alignment explanation
Indices: 86825--86859 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
86815 CAAATGGGGA
*
86825 TGGGGATATCCAAACCG
1 TGGGGATAACCAAACCG
*
86842 TGGGGATAACCGAACCG
1 TGGGGATAACCAAACCG
86859 T
1 T
86860 ACCCGTATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (17 bp):
TGGGGATAACCAAACCG
Found at i:93416 original size:20 final size:20
Alignment explanation
Indices: 93367--93427 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
93357 TAATTTTATG
* *
93367 TTCATTA-GTTTATGTCTGT
1 TTCATTACGTTTATTTGTGT
*
93386 TT-ATGTTCGTTTATTTGTGT
1 TTCAT-TACGTTTATTTGTGT
**
93406 TTCATTACGTTCGTTTGTGT
1 TTCATTACGTTTATTTGTGT
93426 TT
1 TT
93428 GTTTACATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 26 0.79
21 2 0.06
ACGTcount: A:0.11, C:0.10, G:0.18, T:0.61
Consensus pattern (20 bp):
TTCATTACGTTTATTTGTGT
Found at i:93430 original size:24 final size:24
Alignment explanation
Indices: 93390--93461 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
93380 GTCTGTTTAT
*
93390 GTTCGTTTAT-TTGTGTTT-CATTAC
1 GTTCGTTTGTGTT-TGTTTACATT-C
93414 GTTCGTTTGTGTTTGTTTACATTC
1 GTTCGTTTGTGTTTGTTTACATTC
* *
93438 ATTCGTTTGTGTTCGTTTATCATT
1 GTTCGTTTGTGTTTGTTTA-CATT
93462 TTAACAGTCG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 32 0.76
25 10 0.24
ACGTcount: A:0.11, C:0.12, G:0.18, T:0.58
Consensus pattern (24 bp):
GTTCGTTTGTGTTTGTTTACATTC
Found at i:97426 original size:27 final size:27
Alignment explanation
Indices: 97378--97449 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
97368 TTTAATTCCA
**
97378 CATT-TTTAA-ATTATTTCGTTTTAGT
1 CATTATTTAATATTATTTTATTTTAGT
*
97403 CATTATTTAATATTATTTTATTTTATT
1 CATTATTTAATATTATTTTATTTTAGT
*
97430 CCTATATTGTAAT-TTATTTT
1 CAT-TATT-TAATATTATTTT
97450 TCAATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 4 0.10
26 5 0.13
27 15 0.38
28 11 0.28
29 4 0.10
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (27 bp):
CATTATTTAATATTATTTTATTTTAGT
Found at i:97701 original size:19 final size:18
Alignment explanation
Indices: 97677--97718 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
97667 ATATATATAT
97677 ATATTTAAATATTTTATTA
1 ATATTTAAATATTTT-TTA
**
97696 ATATTTATTTATTTTTTA
1 ATATTTAAATATTTTTTA
97714 ATATT
1 ATATT
97719 AAGAAAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTAAATATTTTTTA
Found at i:97822 original size:131 final size:131
Alignment explanation
Indices: 97568--97802 Score: 391
Period size: 131 Copynumber: 1.8 Consensus size: 131
97558 GATAACAATG
* * *
97568 TTTATTTATTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTAGATGTCCATTTTCTGATAT
1 TTTATTTATTTTTAAATATTAAGAAAGGGAAGTCTTAAAACAACTAGATGTCCATTTTATGATAT
* *
97633 TTTTAATTAAATAAACATCTTATTTTTATAAATTATATATATATATATTTAAATATTTTATTAAT
66 TTTTAAATAAATAAACATCCTATTTTTATAAATTATATATATATATATTTAAATATTTTATTAAT
97698 A
131 A
* *
97699 TTTATTTATTTTTTAATATTAAGAAAGGGAAGTCTTAAAACAACTGGATGTCCATTTTATGATAT
1 TTTATTTATTTTTAAATATTAAGAAAGGGAAGTCTTAAAACAACTAGATGTCCATTTTATGATAT
*
97764 TTTTAAATAAATAAATATCCTATTTTTA-AAATTATATAT
66 TTTTAAATAAATAAACATCCTATTTTTATAAATTATATAT
97803 TAATCTATTA
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
130 11 0.11
131 85 0.89
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (131 bp):
TTTATTTATTTTTAAATATTAAGAAAGGGAAGTCTTAAAACAACTAGATGTCCATTTTATGATAT
TTTTAAATAAATAAACATCCTATTTTTATAAATTATATATATATATATTTAAATATTTTATTAAT
A
Found at i:98507 original size:20 final size:21
Alignment explanation
Indices: 98484--98522 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
98474 ATTATGTTCA
98484 TAATATTTC-TATTATTTTAT
1 TAATATTTCATATTATTTTAT
* *
98504 TAATGTTTCATTTTATTTT
1 TAATATTTCATATTATTTT
98523 CAAGTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (21 bp):
TAATATTTCATATTATTTTAT
Found at i:100881 original size:14 final size:15
Alignment explanation
Indices: 100847--100884 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
100837 TTTTCATACA
*
100847 TTTGCATTTTGCATC
1 TTTGTATTTTGCATC
*
100862 TTTGTATTTTTCAT-
1 TTTGTATTTTGCATC
100876 TTTGTATTT
1 TTTGTATTT
100885 ATACTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.66
Consensus pattern (15 bp):
TTTGTATTTTGCATC
Found at i:105408 original size:16 final size:16
Alignment explanation
Indices: 105386--105422 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
105376 CTCATTAGGT
*
105386 AAAAAAAGGAAAAAAGG
1 AAAAAAAAG-AAAAAGG
105403 AAAAAAAAGAAAAAGG
1 AAAAAAAAGAAAAAGG
105419 AAAA
1 AAAA
105423 TTGAATCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGG
Found at i:109000 original size:74 final size:74
Alignment explanation
Indices: 108864--109040 Score: 237
Period size: 74 Copynumber: 2.4 Consensus size: 74
108854 ATCAACAAGA
* * *
108864 AGCAAATGTTGGGGCATGCTGAAAGCCCCTCTCAATCAAAATCATGAATGTTGATGTATTTTGAA
1 AGCAAATGTTGGGGCATGCTAAAAG-CCCTCTCAATCAAAATCAGGAATGTTGATGCATTTTGAA
*
108929 CATTTATATC
65 CACTTATATC
* *
108939 AGCAAATGTTGGGGCATGCTAAAAGCCCTTTCAATCAAAATCAGGACTGTTGATGCATTTTGAAC
1 AGCAAATGTTGGGGCATGCTAAAAGCCCTCTCAATCAAAATCAGGAATGTTGATGCATTTTGAAC
* * *
109004 GCTTGTATT
66 ACTTATATC
* * *
109013 AGCCAACGTTGGGGCATGCTAAAGGCCC
1 AGCAAATGTTGGGGCATGCTAAAAGCCC
109041 ATATCATCCT
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 66 0.73
75 24 0.27
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
AGCAAATGTTGGGGCATGCTAAAAGCCCTCTCAATCAAAATCAGGAATGTTGATGCATTTTGAAC
ACTTATATC
Found at i:110215 original size:22 final size:22
Alignment explanation
Indices: 110189--110265 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
110179 ATCTACACTC
110189 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
110211 TTCAAAGATGATAGATTCTGTT
1 TTCAAAGATGATAGATTCTCTT
*
110233 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
110255 TTCAAAGATGA
1 TTCAAAGATGA
110266 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:111052 original size:167 final size:166
Alignment explanation
Indices: 110771--111103 Score: 551
Period size: 167 Copynumber: 2.0 Consensus size: 166
110761 AATCTACAAA
110771 AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAG
1 AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAG
** *
110836 AAAACAATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAAT
66 AAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAAC
*
110901 GATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCC
131 GATTTCCTTAG-TTTTTTTACTTAGTAAACCATTTCC
* * **
110938 AACAGCCTTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAAATAATGAG
1 AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAG
* *
111002 AAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAGAAATGAAATTGTTGAAAAGTAAGAAAA
66 AAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTA-AAATGAAATTGTTAAAAAGTAAGAAAA
111067 CGATTTCCTTAGTTTTTTTACTTAGTAAACCATTTCC
130 CGATTTCCTTAGTTTTTTTACTTAGTAAACCATTTCC
111104 CACATCTGTA
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
166 70 0.45
167 85 0.55
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (166 bp):
AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAG
AAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTAAAAAGTAAGAAAAC
GATTTCCTTAGTTTTTTTACTTAGTAAACCATTTCC
Found at i:111515 original size:75 final size:76
Alignment explanation
Indices: 111106--111968 Score: 1473
Period size: 76 Copynumber: 11.4 Consensus size: 76
111096 CCATTTCCCA
* *
111106 CATCTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
111171 AGCCTTAGGGT
66 AGCCTTAGGGT
111182 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
111247 AGCCTTAGGGT
66 AGCCTTAGGGT
111258 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
111323 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
111334 CATCTGTAAGTCCTACAGTGCATGATGTTTACAAAAAGCCTTCTGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
111399 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
111410 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAATCCTTTGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
111475 A-CCTTTGGGT
66 AGCCTTAGGGT
*
111485 CATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
111550 A-CCTTCGGGT
66 AGCCTTAGGGT
* * *
111560 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAACCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
111625 A-CCTTCGGGT
66 AGCCTTAGGGT
*
111635 CATCTGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
111700 A-CCTTCGGGT
66 AGCCTTAGGGT
**
111710 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
111775 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
111786 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG-CTTTTTGATGTTTTCA
111851 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
111863 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
111928 AACCTTAGGGT
66 AGCCTTAGGGT
* *
111939 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
111969 ACAACATTTC
Statistics
Matches: 748, Mismatches: 37, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
75 283 0.38
76 392 0.52
77 73 0.10
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:113298 original size:2 final size:2
Alignment explanation
Indices: 113291--113325 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
113281 ACTACCTATG
113291 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113326 GATAAATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113921 original size:2 final size:2
Alignment explanation
Indices: 113914--113938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
113904 TTTTATAAAT
113914 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
113939 TTAAATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114228 original size:28 final size:26
Alignment explanation
Indices: 114177--114229 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
114167 TTCTAAATAA
*
114177 ATAAATATTTTATTTATATGTTATAT
1 ATAAATATTTTATTTATATATTATAT
*
114203 ATAAATATATTTTTTTATATAATTATA
1 ATAAATAT-TTTATTTATAT-ATTATA
114230 ACTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 10 0.43
28 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATAAATATTTTATTTATATATTATAT
Found at i:114229 original size:26 final size:26
Alignment explanation
Indices: 114177--114229 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
114167 TTCTAAATAA
**
114177 ATAAATATTTTATTTATATGTTATAT
1 ATAAATATTTTATTTATATAATATAT
*
114203 ATAAATATATTTTTTTATATAAT-TAT
1 ATAAATAT-TTTATTTATATAATATAT
114229 A
1 A
114230 ACTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATAAATATTTTATTTATATAATATAT
Found at i:117564 original size:2 final size:2
Alignment explanation
Indices: 117559--117605 Score: 69
Period size: 2 Copynumber: 23.0 Consensus size: 2
117549 TTTTTTATTA
117559 AT AT AT A- AT GAT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117602 AT AT
1 AT AT
117606 TAATATTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 37 0.86
3 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:130276 original size:44 final size:47
Alignment explanation
Indices: 130210--130307 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 47
130200 TATTTTCGTT
130210 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGG-TTTA
1 TTTTT-GAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
* *
130257 TTTTTGAAT-AA-GCATGCGAATTAGATATCATGCGGTTAGGATTTC
1 TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
130302 TTTTTG
1 TTTTTG
130308 TGGATAACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
44 28 0.58
45 11 0.23
46 4 0.08
47 5 0.10
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (47 bp):
TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
Found at i:139990 original size:19 final size:18
Alignment explanation
Indices: 139963--140035 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
139953 AAGAAGAAAT
*
139963 AAAAGAAAAAAAATGAGAA
1 AAAACAAAAAAAATG-GAA
**
139982 AAAACAAAAATGATGGAA
1 AAAACAAAAAAAATGGAA
140000 AAAACAAAAAGAAA--G-A
1 AAAACAAAAA-AAATGGAA
* *
140016 AAAAGAAGAAAAATGGAA
1 AAAACAAAAAAAATGGAA
140034 AA
1 AA
140036 GGGAAGAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.07
16 9 0.21
17 2 0.05
18 16 0.37
19 13 0.30
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAATGGAA
Found at i:140019 original size:18 final size:18
Alignment explanation
Indices: 139956--140019 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
139946 TTGCTTGAAG
*
139956 AAGAAATAAAAGAAAAA-A
1 AAGAAA-AAAACAAAAAGA
139974 AATGAGAAAAAACAAAAATG-
1 AA-GA-AAAAAACAAAAA-GA
* *
139994 ATGGAAAAAACAAAAAGA
1 AAGAAAAAAACAAAAAGA
140012 AAGAAAAA
1 AAGAAAAA
140020 GAAGAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 1 0.03
18 20 0.56
19 12 0.33
20 3 0.08
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (18 bp):
AAGAAAAAAACAAAAAGA
Found at i:140035 original size:26 final size:25
Alignment explanation
Indices: 140005--140062 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
139995 TGGAAAAAAC
140005 AAAAAGAAAGAAAAAGAAGAAAAATGG
1 AAAAAGAAAGAAAAA-AAGAAAAAT-G
* * * *
140032 AAAAGGGAAGAGAAAATGAAAAATG
1 AAAAAGAAAGAAAAAAAGAAAAATG
140057 AAAAAG
1 AAAAAG
140063 GAAAAATGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.23
26 8 0.31
27 12 0.46
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (25 bp):
AAAAAGAAAGAAAAAAAGAAAAATG
Found at i:141465 original size:51 final size:51
Alignment explanation
Indices: 141404--141911 Score: 701
Period size: 51 Copynumber: 9.8 Consensus size: 51
141394 AAGCAAATTC
141404 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
141455 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
*
141506 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
* *
141557 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
* *
141608 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
*
141659 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
* * * * * * *
141710 GTTTATTGAAGATTGAGTTCTATACTCCCTGAACGGATAGGGAGCGAACAC
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
* * **
141761 GTTTGTTAAAGATTGAGTCCTGTACTCTCTGAAAGAATAGGGAGCGGACCT
1 GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
* * * * **
141812 GTTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCC
1 GTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
* * *
141867 GTTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAG
1 G-TTTGTTGAAGATTG----AGTCCTATACTCTCTGAAAGAATAG
141912 ATAGCAGACA
Statistics
Matches: 416, Mismatches: 32, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
51 345 0.83
52 1 0.00
53 2 0.00
54 2 0.00
55 33 0.08
56 33 0.08
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
GTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAA
Found at i:141973 original size:55 final size:56
Alignment explanation
Indices: 141783--141973 Score: 194
Period size: 55 Copynumber: 3.4 Consensus size: 56
141773 TTGAGTCCTG
* * * * *
141783 TACTCTCTGAAAGAATAGGGAGCGGAC-C-TGTTTATTGAAGATTTTTCGAGTTCTA
1 TACTCTCTGAAGGAATAGAGAGCAGACACAT-TTTATTGAAGATTGTTCGAGTTTTA
* * * * *
141838 TACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCAAGTCTTA
1 TACTCTCTGAAGGAATAGAGAGCAGACACATTTTATTGAAGATTGTTCGAGTTTTA
* * * *
141894 TACTCTCTGAATGAATAGATAGCAGACACATTTTA-TGAAGATTGCTCGATTTTTA
1 TACTCTCTGAAGGAATAGAGAGCAGACACATTTTATTGAAGATTGTTCGAGTTTTA
141949 TACT-TCCTGAAGGAATATG-GAGCAG
1 TACTCT-CTGAAGGAATA-GAGAGCAG
141974 GCTCGTCATT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
54 1 0.01
55 60 0.52
56 53 0.46
57 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (56 bp):
TACTCTCTGAAGGAATAGAGAGCAGACACATTTTATTGAAGATTGTTCGAGTTTTA
Found at i:147231 original size:30 final size:30
Alignment explanation
Indices: 147192--147269 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
147182 TGGAAAATAA
* *
147192 TTTACGTAAAATGGATTACTTAAAAACTGT
1 TTTACGTAAAATGAATTACATAAAAACTGT
* * *
147222 TTTATGTAAAATGAATGACATGAAAACTGT
1 TTTACGTAAAATGAATTACATAAAAACTGT
147252 TTTACGTAAAATGAATTA
1 TTTACGTAAAATGAATTA
147270 TATTTTTCGG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (30 bp):
TTTACGTAAAATGAATTACATAAAAACTGT
Found at i:147565 original size:24 final size:27
Alignment explanation
Indices: 147538--147590 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 27
147528 TAATTATTAG
*
147538 TATTTTATTAATA-T-AATAT-TAAAT
1 TATTATATTAATATTAAATATATAAAT
147562 TATTATATTAATATTAAATATATAAAT
1 TATTATATTAATATTAAATATATAAAT
147589 TA
1 TA
147591 ATATTACTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 12 0.48
25 1 0.04
26 5 0.20
27 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTATATTAATATTAAATATATAAAT
Found at i:147626 original size:8 final size:9
Alignment explanation
Indices: 147602--147729 Score: 50
Period size: 8 Copynumber: 13.7 Consensus size: 9
147592 TATTACTCTT
147602 TATTAATAA
1 TATTAATAA
147611 T-TTAATAA
1 TATTAATAA
*
147619 TATTATAAAA
1 TATTA-ATAA
*
147629 TAATAGATAAA
1 TATTA-AT-AA
147640 TATTAATAA
1 TATTAATAA
*
147649 -ATTATTTAA
1 TATTA-ATAA
* *
147658 AAAT-ATAA
1 TATTAATAA
*
147666 TATTATATAT
1 TATTA-ATAA
147676 TATT-ATAA
1 TATTAATAA
*
147684 TATATGAGTATA
1 TAT-T-AATA-A
147696 TATTAATATAA
1 TATT-A-ATAA
*
147707 TATTAAAAA
1 TATTAATAA
*
147716 TA-TAATAT
1 TATTAATAA
147724 TATTAA
1 TATTAA
147730 AATTATATTA
Statistics
Matches: 88, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
8 29 0.33
9 18 0.20
10 20 0.23
11 15 0.17
12 6 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
TATTAATAA
Found at i:147648 original size:10 final size:10
Alignment explanation
Indices: 147602--147722 Score: 51
Period size: 11 Copynumber: 11.8 Consensus size: 10
147592 TATTACTCTT
147602 TATTAAT-AA
1 TATTAATAAA
147611 T-TTAAT-AA
1 TATTAATAAA
147619 TATT-ATAAAA
1 TATTAAT-AAA
*
147629 TAATAGATAAA
1 TATTA-ATAAA
147640 TATTAATAAA
1 TATTAATAAA
147650 TTATTTAA-AAA
1 -TA-TTAATAAA
147661 TA-TAATATTATA
1 TATTAATA--A-A
147673 TATTATTATAATA
1 TATTA--ATAA-A
* * *
147686 TATGAGTATA
1 TATTAATAAA
147696 TATTAATATAA
1 TATTAATA-AA
147707 TATTAA-AAA
1 TATTAATAAA
147716 TA-TAATA
1 TATTAATA
147723 TTATTAAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
8 16 0.18
9 9 0.10
10 20 0.23
11 22 0.25
12 9 0.10
13 9 0.10
15 3 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (10 bp):
TATTAATAAA
Found at i:147767 original size:55 final size:54
Alignment explanation
Indices: 147607--147755 Score: 139
Period size: 55 Copynumber: 2.8 Consensus size: 54
147597 CTCTTTATTA
* * * *
147607 ATAAT-TTA-ATAATATTATAAAATAATAGATAAATATTAATA-AATTATTTAAAAAT
1 ATAATATTATATAAAATTATAATAT-ATAG-TATATATAAATATAA-TA-TTAAAAAT
** *
147662 ATAATATTATATATTATTATAATATATGAGTATATATTAATATAATATTAAAAAT
1 ATAATATTATATAAAATTATAATATAT-AGTATATATAAATATAATATTAAAAAT
*
147717 ATAATATTAT-TAAAATTATATTATAT-GTATAT-TAAATAT
1 ATAATATTATATAAAATTATAATATATAGTATATATAAATAT
147756 TTTAATAATT
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
51 6 0.07
52 6 0.07
54 13 0.16
55 23 0.28
56 18 0.22
57 17 0.20
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (54 bp):
ATAATATTATATAAAATTATAATATATAGTATATATAAATATAATATTAAAAAT
Found at i:157794 original size:3 final size:3
Alignment explanation
Indices: 157786--157891 Score: 106
Period size: 3 Copynumber: 34.7 Consensus size: 3
157776 GGCCCGTTTG
* * * *
157786 TAA TAA TAA TTAA TAA GAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * * *
157833 TTA TAA TTA TAA TAA CAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
157881 TAA TAA TAA TA
1 TAA TAA TAA TA
157892 TTTAAATGAA
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.02
3 75 0.89
4 7 0.08
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:157819 original size:19 final size:19
Alignment explanation
Indices: 157792--157833 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
157782 TTTGTAATAA
* *
157792 TAATTAATAAGAATATTAG
1 TAATAAATAAGAAAATTAG
*
157811 TAATAAATAATAAAATTAG
1 TAATAAATAAGAAAATTAG
157830 TAAT
1 TAAT
157834 TATAATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
TAATAAATAAGAAAATTAG
Found at i:158336 original size:113 final size:113
Alignment explanation
Indices: 158142--158888 Score: 1255
Period size: 113 Copynumber: 6.6 Consensus size: 113
158132 TCTTGATGAG
* * *
158142 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* * * *
158207 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
62 TCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* * *
158258 TTCTTCTCATTATGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
158323 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
158371 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * ** *
158436 GCAATGATGATCCATC-AGATGATGGATTTGAACAAAAAGTTGAACAAA
66 GCAATGATAATCCATCAAG-TGATGAATTCAAACAAAAGGTTGAACAAA
*
158484 TTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
158549 ACAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
*
158597 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
158662 GCAATGATAATCTATTAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
158710 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
158775 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
158823 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
158888 G
66 G
158889 ATGAATTCAA
Statistics
Matches: 597, Mismatches: 31, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
112 5 0.01
113 556 0.93
114 2 0.00
116 34 0.06
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:158539 original size:226 final size:225
Alignment explanation
Indices: 158142--159948 Score: 2956
Period size: 226 Copynumber: 8.2 Consensus size: 225
158132 TCTTGATGAG
* * *
158142 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* * *
158207 -CTGGCAATGTTGATCCATCAAATGAT-GAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTA
62 TCTGGCAATGATGATCCATC-AATGATGGATTTGAA-CAAAAGGTTGAACAAATTCTTCTCATTA
* * *
158270 TGAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATC
125 TGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATC
158335 CATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
190 CATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
158371 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
158436 GCAATGATGATCCATCAGATGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATGATCCATCA-ATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* *
158501 TTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGACAATGATAATCCATCA
130 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
158566 AGTGATGAATTCAAACAAAAGGTTGAACAAA
195 AGTGATGAATTCAAACAAAAGGTTGAACAAA
*
158597 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * * **
158662 GCAATGATAATCTATTAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATGATCCATCAA-TGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
158727 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
130 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
158792 AGTGATGAATTCAAACAAAAGGTTGAACAAA
195 AGTGATGAATTCAAACAAAAGGTTGAACAAA
158823 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
158888 G--ATGA--AT---TC--------A----AACAAAAGGTTGAACAAATTCTTCTCATTATGAATT
66 GCAATGATGATCCATCAATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAATT
158934 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAA
158999 GTGATGAATTCAAACAAAAGGTTGAACAAA
196 GTGATGAATTCAAACAAAAGGTTGAACAAA
159029 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
159094 G--ATGA--AT---TC--------A----AACAAAAGGTTGAATAAATTCTTCTCATTATGAATT
66 GCAATGATGATCCATCAATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAATT
159140 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAA
159205 GTGATGAATTCAAACAAAAGGTTGAACAAA
196 GTGATGAATTCAAACAAAAGGTTGAACAAA
*
159235 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACATTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
159300 GCAATGATGATCCATCAGATGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATGATCCATCA-ATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
*
159365 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGACAATGATAATCCATCA
130 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
159430 AGTGATGAATTCAAACAAAAGGTTGAACAAA
195 AGTGATGAATTCAAACAAAAGGTTGAACAAA
159461 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
159526 GCAATGATGATCCATCAGATGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATGATCCATCA-ATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* *
159591 TTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACCTTCTCTGACAATGATAATCCATCA
130 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
159656 AGTGATGAATTCAAACAAAAGGTTGAACAAA
195 AGTGATGAATTCAAACAAAAGGTTGAACAAA
159687 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * **
159752 GCAATGATAATCTATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATGATCCATCAA-TGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
159817 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
130 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
159882 AGTGATGAATTCAAACAAAAGGTTGAACAAA
195 AGTGATGAATTCAAACAAAAGGTTGAACAAA
159913 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
159949 ACTATGACCT
Statistics
Matches: 1514, Mismatches: 39, Indels: 53
0.94 0.02 0.03
Matches are distributed among these distances:
206 401 0.26
208 4 0.00
210 3 0.00
213 2 0.00
219 1 0.00
222 3 0.00
224 4 0.00
225 6 0.00
226 1049 0.69
227 6 0.00
229 35 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (225 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGATGATCCATCAATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCATTATGAATT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAA
GTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:158811 original size:339 final size:339
Alignment explanation
Indices: 158142--159948 Score: 2919
Period size: 339 Copynumber: 5.4 Consensus size: 339
158132 TCTTGATGAG
* * *
158142 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* * * *
158207 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
62 TCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTAT
* * *
158271 GAACTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCC
127 GAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCC
158336 ATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
192 ATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
* * *
158401 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATC-AGATGATGGATTT
257 TTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAG-TGATGAATTC
* *
158465 GAACAAAAAGTTGAACAAA
321 AAACAAAAGGTTGAACAAA
*
158484 TTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
*
158549 ACAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* * *
158614 TTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACCTTCTCTGGCAATGATAATCTATTA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
158679 AGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
196 AGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
158744 GATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACA
261 GATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACA
158809 AAAGGTTGAACAAA
326 AAAGGTTGAACAAA
158823 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-C--CT-T-
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
158883 -C--------T-C-T---G-GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
158933 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
158998 AGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
196 AGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
159063 GATGAGTTCTTCTCATTATGAA-C--CT-T--C--------T-C-T---G-GATGAATTCAAACA
261 GATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACA
*
159108 AAAGGTTGAATAAA
326 AAAGGTTGAACAAA
159122 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
159187 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* *
159252 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACATTCTCTGGCAATGATGATCCATC-
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
* ** *
159316 AGATGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
196 AG-TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
*
159381 AGATGAGTTCTTCTCATTATGAACCTTCTCTGACAATGATAATCCATCAAGTGATGAATTCAAAC
260 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAAC
159446 AAAAGGTTGAACAAA
325 AAAAGGTTGAACAAA
159461 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * ** *
159526 GCAATGATGATCCATC-AGATGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAA
66 GCAATGATAATCCATCAAG-TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
* *
159590 TTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACCTTCTCTGACAATGATAATCCATC
130 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATC
159655 AAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
195 AAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
*
159720 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCTATCAAGTGATGAATTCAAAC
260 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAAC
159785 AAAAGGTTGAACAAA
325 AAAAGGTTGAACAAA
159800 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
159865 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
159930 TTCTTCTTCCTTCTTCAGA
131 TTCTTCTTCCTTCTTCAGA
159949 ACTATGACCT
Statistics
Matches: 1366, Mismatches: 53, Indels: 95
0.90 0.04 0.06
Matches are distributed among these distances:
299 83 0.06
300 2 0.00
302 2 0.00
303 2 0.00
304 1 0.00
305 2 0.00
313 2 0.00
314 1 0.00
315 2 0.00
316 2 0.00
318 4 0.00
319 382 0.28
320 2 0.00
322 2 0.00
323 2 0.00
324 1 0.00
325 2 0.00
333 2 0.00
334 1 0.00
335 2 0.00
336 2 0.00
338 7 0.01
339 818 0.60
340 6 0.00
342 34 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (339 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCA
AGTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACA
AAAGGTTGAACAAA
Found at i:158892 original size:93 final size:93
Alignment explanation
Indices: 158795--158981 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
158785 TCCATCAAGT
158795 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
158860 GAGTTCTTCTCATTATGAACCTTCTCTG
66 GAGTTCTTCTCATTATGAACCTTCTCTG
158888 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
158953 GAGTTCTTCTCATTATGAACCTTCTCTG
66 GAGTTCTTCTCATTATGAACCTTCTCTG
158981 G
1 G
158982 CAATGATAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (93 bp):
GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACCTTCTCTG
Found at i:159094 original size:113 final size:113
Alignment explanation
Indices: 158888--159094 Score: 414
Period size: 113 Copynumber: 1.8 Consensus size: 113
158878 ACCTTCTCTG
158888 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
158953 GAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGT
66 GAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGT
159001 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
159066 GAGTTCTTCTCATTATGAACCTTCTCTGG
66 GAGTTCTTCTCATTATGAACCTTCTCTGG
159095 ATGAATTCAA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 94 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGT
Found at i:159166 original size:113 final size:112
Alignment explanation
Indices: 159094--159948 Score: 1489
Period size: 113 Copynumber: 7.6 Consensus size: 112
159084 ACCTTCTCTG
*
159094 GATGAATTCAAACAAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
159159 GAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGT
66 GAGTTCTTCTCATTATGAACCTTCTCT-GCAATGATAATCCATCAAGT
159207 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
* *
159272 GAGTTCTTCTCATTATGAACATTCTCTGGCAATGATGATCCATC-AGAT
66 GAGTTCTTCTCATTATGAACCTTCTCT-GCAATGATAATCCATCAAG-T
* ** *
159320 GATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
159385 GAGTTCTTCTCATTATGAACCTTCTCTGACAATGATAATCCATCAAGT
66 GAGTTCTTCTCATTATGAACCTTCTCTG-CAATGATAATCCATCAAGT
159433 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
*
159498 GAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATGATCCATC-AGAT
66 GAGTTCTTCTCATTATGAACCTTCTCT-GCAATGATAATCCATCAAG-T
* ** * *
159546 GATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCATAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
159611 GAGTTCTTCTCATTATGAACCTTCTCTGACAATGATAATCCATCAAGT
66 GAGTTCTTCTCATTATGAACCTTCTCTG-CAATGATAATCCATCAAGT
159659 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
*
159724 GAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCTATCAAGT
66 GAGTTCTTCTCATTATGAACCTTCTCT-GCAATGATAATCCATCAAGT
159772 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
159837 GAGTTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGT
66 GAGTTCTTCTCATTATGAACCTTCTCT-GCAATGATAATCCATCAAGT
159885 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
159949 ACTATGACCT
Statistics
Matches: 707, Mismatches: 27, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
112 6 0.01
113 695 0.98
114 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (112 bp):
GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACCTTCTCTGCAATGATAATCCATCAAGT
Found at i:159180 original size:93 final size:93
Alignment explanation
Indices: 159001--159187 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
158991 TCCATCAAGT
159001 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
159066 GAGTTCTTCTCATTATGAACCTTCTCTG
66 GAGTTCTTCTCATTATGAACCTTCTCTG
*
159094 GATGAATTCAAACAAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
1 GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
159159 GAGTTCTTCTCATTATGAACCTTCTCTG
66 GAGTTCTTCTCATTATGAACCTTCTCTG
159187 G
1 G
159188 CAATGATAAT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (93 bp):
GATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACCTTCTCTG
Found at i:159611 original size:24 final size:23
Alignment explanation
Indices: 159576--159620 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
159566 TGAACAAATT
*
159576 CTTCTCATTATGAATTTCTTCTTC
1 CTTCTCATTATG-AGTTCTTCTTC
159600 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGAGTTCTTCT
159621 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTCATTATGAGTTCTTCTTC
Found at i:160109 original size:22 final size:22
Alignment explanation
Indices: 160030--160106 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
160020 GATAAAGCTT
*
160030 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
160052 TCATCTTT-AAAAAAGGAATCTA
1 TCATCTTTGAAAAGA-GAATCTA
*
160074 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
160096 TCATCTTTGAA
1 TCATCTTTGAA
160107 GAGTGTAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.10
22 40 0.82
23 4 0.08
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:160548 original size:40 final size:40
Alignment explanation
Indices: 160492--160571 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
160482 TTTCAGCTTA
160492 GATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGG
1 GATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGG
* *
160532 GATGTAAAACATTTGACAACGCATTCATCCTTTTCTGTGG
1 GATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGG
160572 ACTCTGCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (40 bp):
GATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGG
Found at i:161582 original size:40 final size:39
Alignment explanation
Indices: 161538--161667 Score: 115
Period size: 39 Copynumber: 3.4 Consensus size: 39
161528 GAAATGGGCT
* * * **
161538 TTCAACATGCCCCGATATTTGCTTCTTGTTAATCTGAGCC
1 TTCAAAATGCCCCAACA-TTGCTTCTTGTTAAGATGAGCC
161578 TTCAAAATGCCCCAACATTGCTTCTTGTTAAGATGAGCC
1 TTCAAAATGCCCCAACATTGCTTCTTGTTAAGATGAGCC
* * * * * *
161617 TACAAGAATGCCCAAATATT-CATATTGCT--G-TGAGCC
1 TTCAA-AATGCCCCAACATTGCTTCTTGTTAAGATGAGCC
161653 TTCAAAATGCCCCAA
1 TTCAAAATGCCCCAA
161668 TATTCTATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
35 9 0.12
36 10 0.13
37 1 0.01
39 30 0.39
40 26 0.34
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (39 bp):
TTCAAAATGCCCCAACATTGCTTCTTGTTAAGATGAGCC
Found at i:162836 original size:83 final size:83
Alignment explanation
Indices: 162696--162960 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
162686 CTTATTTCTA
* *
162696 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCC-AACCAGATTAGATAACTCAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTG-CCAAACCAGATCAGATAACTCAA
162760 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
* *
162779 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
162844 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
162862 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
162927 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
162945 CTATGAGCACATTCAT
1 CTATGAGCAAATTCAT
162961 TTGTTCCATT
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 2 0.01
83 172 0.99
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:165226 original size:15 final size:15
Alignment explanation
Indices: 165195--165228 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
165185 TTTGATTTTC
* *
165195 CTTTTTCTTTTTTTT
1 CTTTTTCTTCTTCTT
165210 CTTTTTCTTCTTCTT
1 CTTTTTCTTCTTCTT
165225 CTTT
1 CTTT
165229 CTTTGCTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
CTTTTTCTTCTTCTT
Found at i:168527 original size:14 final size:14
Alignment explanation
Indices: 168508--168546 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
168498 GCAAAGATTC
168508 CAAATGTAAATATG
1 CAAATGTAAATATG
*
168522 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
168536 TAAATGTAAAT
1 CAAATGTAAAT
168547 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:172175 original size:3 final size:3
Alignment explanation
Indices: 172167--172257 Score: 94
Period size: 3 Copynumber: 29.7 Consensus size: 3
172157 GGCCCGTTTG
* * * *
172167 TAA TAA TAA TTAA TAA GAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* *
172214 TTA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
172258 TTTAAATGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 2 0.03
3 64 0.88
4 7 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:172200 original size:19 final size:19
Alignment explanation
Indices: 172173--172214 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
172163 TTTGTAATAA
* *
172173 TAATTAATAAGAATATTAG
1 TAATAAATAAGAAAATTAG
*
172192 TAATAAATAATAAAATTAG
1 TAATAAATAAGAAAATTAG
172211 TAAT
1 TAAT
172215 TATAATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
TAATAAATAAGAAAATTAG
Found at i:191909 original size:22 final size:25
Alignment explanation
Indices: 191884--191935 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
191874 CCTTTTTTCC
191884 TTTTCAC-TTTTTTCTTCTTCT-TTT
1 TTTTCACTTTTTTTCTTCTT-TATTT
**
191908 TTTGAACTTTTTTTCTTCTTTATTT
1 TTTTCACTTTTTTTCTTCTTTATTT
191933 TTT
1 TTT
191936 CTTCGTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTCACTTTTTTTCTTCTTTATTT
Done.