Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007126.1 Hibiscus syriacus cultivar Beakdansim tig00018617_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: 141974
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:670 original size:24 final size:24
Alignment explanation
Indices: 643--692 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
633 CGGTGGTTGA
*
643 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
667 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
691 TT
1 TT
693 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:1673 original size:73 final size:73
Alignment explanation
Indices: 1500--2040 Score: 916
Period size: 73 Copynumber: 7.5 Consensus size: 73
1490 CGCGAACAAG
* *
1500 TTTTTGAAAACATCATGCA-TGTAGGTCTTACAGAT-ACCCTTAGGGTTTAAGATCAAAAAGCTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1563 CCGAAGGC
66 CCGAAGGC
*
1571 TTTTTGAAAA-ATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAACTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1635 CCGAAGGC
66 CCGAAGGC
1643 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1708 CCGAAGGC
66 CCGAAGGC
* *
1716 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGA-CCTAAGGGTTTAAGATCAAAAAGCT-
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1779 CCGAAGGC
66 CCGAAGGC
* *
1787 TTTTTGAAAACATCATACA-TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAACTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1851 CCGAAGGC
66 CCGAAGGC
1859 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1924 CCGAAGGC
66 CCGAAGGC
* *
1932 -TTTTGAAAACATCATGCACTGTAGGTCTTATAAATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1996 CCGAAGGC
66 CCGAAGGC
* * * *
2004 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATG
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
2041 TTGGAAATAG
Statistics
Matches: 443, Mismatches: 20, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
70 26 0.06
71 74 0.17
72 162 0.37
73 181 0.41
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (73 bp):
TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
CCGAAGGC
Found at i:1874 original size:216 final size:219
Alignment explanation
Indices: 1500--2040 Score: 934
Period size: 216 Copynumber: 2.5 Consensus size: 219
1490 CGCGAACAAG
*
1500 TTTTTGAAAACATCATGCA-TGTAGGTCTTACAGAT-ACCCTTAGGGTTTAAGATCAAAAAGCTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTAAGGGTTTAAGATCAAAAAGCTC
*
1563 CCGAAGGCTTTTTGAAAA-ATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCA
66 CCGAAGGCTTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCA
1627 AAAAACTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTT
131 AAAAACTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTT
1692 TAAGATCAAAAAGCTCCCGAAGGC
196 TAAGATCAAAAAGCTCCCGAAGGC
1716 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGA-CCTAAGGGTTTAAGATCAAAAAGCT-
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTAAGGGTTTAAGATCAAAAAGCTC
1779 CCGAAGGCTTTTTGAAAACATCATACA-TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCA
66 CCGAAGGCTTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCA
1843 AAAAACTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTT
131 AAAAACTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTT
1908 TAAGATCAAAAAGCTCCCGAAGGC
196 TAAGATCAAAAAGCTCCCGAAGGC
* * * *
1932 -TTTTGAAAACATCATGCACTGTAGGTCTTATAAATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTAAGGGTTTAAGATCAAAAAGCTC
* * * * *
1996 CCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATG
66 CCGAAGGCTTTTTGAAAACATCATACACTGTAGGTCTTACAGATG
2041 TTGGAAATAG
Statistics
Matches: 308, Mismatches: 11, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
215 35 0.11
216 186 0.60
217 72 0.23
218 15 0.05
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (219 bp):
TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTAAGGGTTTAAGATCAAAAAGCTC
CCGAAGGCTTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCA
AAAAACTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTT
TAAGATCAAAAAGCTCCCGAAGGC
Found at i:4065 original size:103 final size:103
Alignment explanation
Indices: 3894--4214 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
3884 TAATGTCCAT
* * *
3894 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
3959 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
3997 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
4062 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
4100 AAGAACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
4165 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
4203 AAGGACCACATA
1 AAGGACCACATA
4215 GACCCTCGAC
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:5066 original size:64 final size:64
Alignment explanation
Indices: 4990--5142 Score: 150
Period size: 64 Copynumber: 2.4 Consensus size: 64
4980 TTCCCTATCG
* * * * ** *
4990 GTGCATCAATGCACTACCTGTGCATCGGTGCATAAAATACATTCGATGTTTGTT-TATT-ACTGG
1 GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTT-TTAGATTAAAAGA
* * * * *
5053 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAG
5117 A
64 A
5118 GTGCATCGATGCACTACCTGTGCAT
1 GTGCATCGATGCACTACCTGTGCAT
5143 TGATACACCT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
63 6 0.08
64 59 0.83
65 6 0.08
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:9758 original size:23 final size:23
Alignment explanation
Indices: 9732--9809 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
9722 CACCACAGCT
9732 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
9755 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
9778 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
9801 TATAATAAT
1 CAT-ATAAT
9810 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:9987 original size:103 final size:103
Alignment explanation
Indices: 9816--10136 Score: 552
Period size: 103 Copynumber: 3.1 Consensus size: 103
9806 TAATGTCCAT
* *
9816 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
9881 GACTTCACACATGTTCTAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
* * *
9919 AAGGACCATATATCATTCCTTAAGAATCATTTACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
9984 GACTTCACACCTGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
*
10022 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCG
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
10087 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
10125 AAGGACCACATA
1 AAGGACCACATA
10137 GACCCTCGAT
Statistics
Matches: 204, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 204 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
Found at i:10981 original size:64 final size:64
Alignment explanation
Indices: 10909--11065 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 64
10899 TTCCCTGTCG
* * * ** *
10909 GTGCATCGATGCACTACCTGTGCATCGGTGCATAAAATACATTCGATGTTTGTT-TATT-ACTGG
1 GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTT-TTAGATTAAAAGA
* * * * * *
10972 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGGTGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAG
11036 A
64 A
11037 GTGCATCGATGCACTACCTGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
11066 ACACCTTCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
63 6 0.08
64 63 0.84
65 6 0.08
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:11286 original size:12 final size:12
Alignment explanation
Indices: 11269--11293 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11259 TCATCTTTAA
11269 CCTTAATATCCT
1 CCTTAATATCCT
11281 CCTTAATATCCT
1 CCTTAATATCCT
11293 C
1 C
11294 TCCTCTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (12 bp):
CCTTAATATCCT
Found at i:11900 original size:22 final size:22
Alignment explanation
Indices: 11875--11949 Score: 132
Period size: 22 Copynumber: 3.4 Consensus size: 22
11865 TATAGCTTTA
11875 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
11897 ATCTTTAAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
11919 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
11941 ATCTTTGAA
1 ATCTTTGAA
11950 TAGTGTATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:11961 original size:42 final size:43
Alignment explanation
Indices: 11875--11971 Score: 133
Period size: 44 Copynumber: 2.3 Consensus size: 43
11865 TATAGCTTTA
* *
11875 ATCTTTGAAAAGAGAATCTATCATCTTTAAAAAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATCATCTTTAAAAAGAG-ATATATC
* * *
11919 ATCTTTGAAGAGAGAATCTATCATCTTTGAATAGTG-TATATC
1 ATCTTTGAAGAGAGAATCTATCATCTTTAAAAAGAGATATATC
11961 ATCTTTGAAGA
1 ATCTTTGAAGA
11972 AGGTAAATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 16 0.33
44 32 0.67
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (43 bp):
ATCTTTGAAGAGAGAATCTATCATCTTTAAAAAGAGATATATC
Found at i:16122 original size:7 final size:8
Alignment explanation
Indices: 16112--16140 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
16102 ATTTTTCTTT
16112 TTTTTTC-
1 TTTTTTCA
16119 TTTTTTCA
1 TTTTTTCA
16127 TTTTTTCA
1 TTTTTTCA
16135 TTTTTT
1 TTTTTT
16141 TTCAAGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTCA
Found at i:21850 original size:3 final size:3
Alignment explanation
Indices: 21842--21868 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21832 TATATGACTA
21842 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
21869 TAAATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21889 original size:14 final size:13
Alignment explanation
Indices: 21841--21905 Score: 58
Period size: 13 Copynumber: 4.7 Consensus size: 13
21831 TTATATGACT
*
21841 AAATAATAATAATA
1 AAAT-ATAAAAATA
* *
21855 ATAATAATAATAATT
1 A-AAT-ATAAAAATA
21870 AAATATAAAAATA
1 AAATATAAAAATA
*
21883 AACATATAAAATTA
1 AA-ATATAAAAATA
21897 AAATATAAA
1 AAATATAAA
21906 TAAACAATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
13 16 0.36
14 16 0.36
15 13 0.29
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATATAAAAATA
Found at i:21906 original size:25 final size:27
Alignment explanation
Indices: 21861--21911 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
21851 AATAATAATA
21861 ATAATAATTAAATATAAAAATAAACAT
1 ATAATAATTAAATATAAAAATAAACAT
*
21888 ATAA-AATTAAA-ATATAAATAAACA
1 ATAATAATTAAATATAAAAATAAACA
21912 ATGACTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
26 7 0.30
27 4 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (27 bp):
ATAATAATTAAATATAAAAATAAACAT
Found at i:23346 original size:3 final size:3
Alignment explanation
Indices: 23338--23432 Score: 102
Period size: 3 Copynumber: 31.3 Consensus size: 3
23328 TGTAATTATT
* * *
23338 TAA TAA TAA TAA TAA TAA GATA TAA TGTA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA
* * * *
23385 TAA T-T TAA TAA TAA TAA TAA TAT TAA TAT TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23432 T
1 T
23433 TTAAAATAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 70 0.93
4 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:23376 original size:35 final size:34
Alignment explanation
Indices: 23337--23432 Score: 115
Period size: 35 Copynumber: 2.8 Consensus size: 34
23327 ATGTAATTAT
*
23337 TTAATAATAATAATAATAAGAT-ATAATGTATAATA
1 TTAATAATAATAATAATAA-ATAATAAT-AATAATA
*
23372 TTAATAATAATAATAATTTAATAATAATAATAATA
1 TTAATAATAATAATAA-TAAATAATAATAATAATA
* *
23407 TTAATATTGATAATAAT-AATAATAAT
1 TTAATAATAATAATAATAAATAATAAT
23433 TTAAAATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
33 9 0.16
34 1 0.02
35 38 0.69
36 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (34 bp):
TTAATAATAATAATAATAAATAATAATAATAATA
Found at i:23740 original size:9 final size:9
Alignment explanation
Indices: 23669--23858 Score: 54
Period size: 9 Copynumber: 20.1 Consensus size: 9
23659 AGTAAAATAA
23669 AATAAAATAT
1 AATAAAA-AT
23679 AA-AAAAAT
1 AATAAAAAT
* *
23687 AAAGAAAAAG
1 -AATAAAAAT
*
23697 AAGAAAAA-
1 AATAAAAAT
*
23705 ATATATAAAT
1 A-ATAAAAAT
23715 AA-AACAAAT
1 AATAA-AAAT
23724 AA-ATAAAAT
1 AATA-AAAAT
23733 AATAAAAA-
1 AATAAAAAT
*
23741 AGTAAAAAT
1 AATAAAAAT
*
23750 AATATATATAT
1 AATA-A-AAAT
*
23761 AATAAATAAA
1 AATAAA-AAT
23771 AATATAAAA-
1 AATA-AAAAT
* *
23780 AATAGTATAT
1 AATA-AAAAT
23790 ATATAAAAATT
1 A-ATAAAAA-T
23801 AATAAAACA-
1 AATAAAA-AT
*
23810 AATAATAAAA
1 AATAA-AAAT
23820 AATAAAATAT
1 AATAAAA-AT
**
23830 ATATATGTAAT
1 A-ATA-AAAAT
*
23841 -ATAAAAAA
1 AATAAAAAT
23849 AATAAAAAT
1 AATAAAAAT
23858 A
1 A
23859 TATACTAAAG
Statistics
Matches: 137, Mismatches: 21, Indels: 45
0.67 0.10 0.22
Matches are distributed among these distances:
8 13 0.09
9 66 0.48
10 37 0.27
11 20 0.15
12 1 0.01
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (9 bp):
AATAAAAAT
Found at i:23769 original size:18 final size:17
Alignment explanation
Indices: 23743--23804 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
23733 AATAAAAAAG
23743 TAAAAATAATATATATA
1 TAAAAATAATATATATA
*
23760 TAATAAATAA-AAATATA
1 TAA-AAATAATATATATA
*
23777 -AAAAATAGTATATATA
1 TAAAAATAATATATATA
23793 TAAAAATTAATA
1 TAAAAA-TAATA
23805 AAACAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.14
16 8 0.22
17 14 0.38
18 10 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TAAAAATAATATATATA
Found at i:23778 original size:40 final size:38
Alignment explanation
Indices: 23721--23856 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 38
23711 AAATAAAACA
*
23721 AATAAATAAAATAATAAAAAAGTAAAAATAATATATATAT
1 AATAAAAAAAATAATAAAAAA-T-AAAATAATATATATAT
** * *
23761 AATAAATAAAAAT-ATAAAAAATAGTATATATATAAAAATT
1 AATAAA-AAAAATAATAAAAAATAAAATA-ATATATATA-T
* *
23801 AATAAAACAAATAATAAAAAATAAAAT-ATATATATGT
1 AATAAAAAAAATAATAAAAAATAAAATAATATATATAT
*
23838 AATATAAAAAA-AATAAAAA
1 AATAAAAAAAATAATAAAAA
23857 TATATACTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
36 8 0.10
37 10 0.13
38 10 0.13
39 13 0.16
40 33 0.42
41 5 0.06
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (38 bp):
AATAAAAAAAATAATAAAAAATAAAATAATATATATAT
Found at i:23814 original size:77 final size:75
Alignment explanation
Indices: 23667--23873 Score: 192
Period size: 77 Copynumber: 2.7 Consensus size: 75
23657 TAAGTAAAAT
* * * * * *
23667 AAAATAAAATATAAAAAAATAA-AGAAAAAGAAGAAAAAATATATAAATAAAACAAATAAAT---
1 AAAATAAAATATATATATATAATATAAAAAAAATAAAAAATATATAAATAAAACAAATAAATAAA
23728 AAAATAATAA
66 AAAATAATAA
* * *
23738 AAAAGTAAAAATAATATATATATAATA-AATAAAAATATAAAAAATAGTATATATATAA-AAATT
1 AAAA-T-AAAAT-ATATATATATAATATAA-AAAAA-ATAAAAAATA-TATAAATAAAACAAATA
23801 AATAAAACAAATAATAA
60 AATAAAA-AAATAATAA
*
23818 AAAATAAAATATATATATGTAATATAAAAAAAATAAAAATATATACTAAAGTAAAA
1 AAAATAAAATATATATATATAATATAAAAAAAATAAAAA-ATATA-TAAA-TAAAA
23874 AAAGAAAATG
Statistics
Matches: 110, Mismatches: 11, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
71 4 0.04
72 1 0.01
73 5 0.05
74 11 0.10
75 5 0.05
76 25 0.23
77 33 0.30
78 11 0.10
79 2 0.02
80 13 0.12
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.24
Consensus pattern (75 bp):
AAAATAAAATATATATATATAATATAAAAAAAATAAAAAATATATAAATAAAACAAATAAATAAA
AAAATAATAA
Found at i:23875 original size:77 final size:80
Alignment explanation
Indices: 23700--23856 Score: 199
Period size: 77 Copynumber: 2.1 Consensus size: 80
23690 GAAAAAGAAG
*
23700 AAAAAATA-TATAAATA-AAACA--AATAAATAAAATAATAAAAAAGTAAAAATAATATATATAT
1 AAAAAATAGTATAAATATAAAAATTAATAAATAAAATAATAAAAAAGTAAAAATAATATATATAT
23761 AATAAATAAAAATAT
66 AATAAATAAAAATAT
* *
23776 AAAAAATAGTATATATATAAAAATTAATAAA-ACAAATAATAAAAAA-T-AAAAT-ATATATATG
1 AAAAAATAGTATAAATATAAAAATTAATAAATA-AAATAATAAAAAAGTAAAAATAATATATATA
23837 TAATATAA-AAAAA-AT
65 TAATA-AATAAAAATAT
23852 AAAAA
1 AAAAA
23857 TATATACTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
76 15 0.21
77 25 0.35
78 11 0.15
79 2 0.03
80 19 0.26
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.25
Consensus pattern (80 bp):
AAAAAATAGTATAAATATAAAAATTAATAAATAAAATAATAAAAAAGTAAAAATAATATATATAT
AATAAATAAAAATAT
Found at i:24447 original size:37 final size:37
Alignment explanation
Indices: 24397--24503 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
24387 GCTTGTGGAA
* *
24397 CCTATTTTTAGGAGCTTGAATCATAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
24434 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
* *
24471 CCTATTTTTAGGAGTTTAAATCCTACTAAAACT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACT
24504 TTAACGTTTG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
Found at i:25233 original size:84 final size:86
Alignment explanation
Indices: 25125--25283 Score: 241
Period size: 84 Copynumber: 1.9 Consensus size: 86
25115 AAATATAACT
* *
25125 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGTGTACTCGAACTCGAAGG
1 CTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAAGCTGAGTGTACTCGAACTCGAAGG
25189 TATTT-TGTTGGCAAATGACC
66 TATTTGTGTTGGCAAATGACC
* * * *
25209 CTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAAGCTGAGTGTAGTTGAACTCGAAGG
1 CTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAAGCTGAGTGTACTCGAACTCGAAGG
*
25274 TCTTTGTGTT
66 TATTTGTGTT
25284 CCAAGAGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 32 0.48
85 30 0.45
86 4 0.06
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (86 bp):
CTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAAGCTGAGTGTACTCGAACTCGAAGG
TATTTGTGTTGGCAAATGACC
Found at i:25306 original size:32 final size:32
Alignment explanation
Indices: 25270--25431 Score: 184
Period size: 32 Copynumber: 4.8 Consensus size: 32
25260 GTTGAACTCG
* * *
25270 AAGGTCTTTGTGTTCCAAGAGAAA-TATTTTCA
1 AAGGTTTTTGTGTTTCAAGAGAAACGA-TTTCA
25302 AAGGTTTTTTTTGTGTGTGTTTCAAGAGAAACGATTTCA
1 AAGG----TTTT-TGTGT-TT-CAAGAGAAACGATTTCA
25341 AAGGTTTTTCGTGTTTCAAGAG-AACGATTTCA
1 AAGGTTTTT-GTGTTTCAAGAGAAACGATTTCA
25373 AAGGTTTTTCGTGTTTCAAGAGAAACGATTTCA
1 AAGGTTTTT-GTGTTTCAAGAGAAACGATTTCA
25406 AAGGTTTTTTGTGTTTCAAGAGAAAC
1 AAGG-TTTTTGTGTTTCAAGAGAAAC
25432 TATCTCCAGG
Statistics
Matches: 116, Mismatches: 3, Indels: 21
0.83 0.02 0.15
Matches are distributed among these distances:
32 36 0.31
33 36 0.31
34 8 0.07
35 8 0.07
36 3 0.03
37 5 0.04
38 1 0.01
39 18 0.16
40 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (32 bp):
AAGGTTTTTGTGTTTCAAGAGAAACGATTTCA
Found at i:25356 original size:33 final size:33
Alignment explanation
Indices: 25318--25431 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
25308 TTTTTTGTGT
25318 GTGTTTCAAGAGAAACGATTTCAAAGGTTTTTC
1 GTGTTTCAAGAGAAACGATTTCAAAGGTTTTTC
25351 GTGTTTCAAGAG-AACGATTTCAAAGGTTTTTC
1 GTGTTTCAAGAGAAACGATTTCAAAGGTTTTTC
*
25383 GTGTTTCAAGAGAAACGATTTCAAAGGTTTTTT
1 GTGTTTCAAGAGAAACGATTTCAAAGGTTTTTC
25416 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
25432 TATCTCCAGG
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
32 32 0.41
33 47 0.59
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (33 bp):
GTGTTTCAAGAGAAACGATTTCAAAGGTTTTTC
Found at i:25464 original size:36 final size:36
Alignment explanation
Indices: 25417--25808 Score: 302
Period size: 36 Copynumber: 11.1 Consensus size: 36
25407 AGGTTTTTTG
* * *
25417 TGTTTCAAGAGAAACTATCTCCAGGGAGGCAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
25453 TGTTTCAAGAGAAACATAT-TCAA-AG-G------TT
1 TGTTTCAAGAGAAAC-TATCTCAAGAGAGACAAAATT
*
25481 GGTGTTTCAGGAGAAAACTATCTCAAGAGAGACAAAACTT
1 --TGTTTCAAGAG-AAACTATCTCAAGAGAGACAAAA-TT
*
25521 TGTTTCAAG-GAAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAG-AAACTATCTCAAGAGAGACAAAATT
* *
25557 TGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAACTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
* * * * *
25594 AGTTCCAAAAGAAAC-AGTCTCGAGAGAGACACAATT
1 TGTTTCAAGAGAAACTA-TCTCAAGAGAGACAAAATT
* * *
25630 TGTTTAAAG-GAAAATAGAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACT--ATCTCAAGAGAGACAAAATT
* *
25659 TGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * *
25695 TGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * * * *
25731 TGTTTTAAGGGAAACTGTCTCAAAAGAGACACAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
25767 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAACACTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAA-AATT
25804 TGTTT
1 TGTTT
25809 TGAGTAAATT
Statistics
Matches: 290, Mismatches: 36, Indels: 59
0.75 0.09 0.15
Matches are distributed among these distances:
28 4 0.01
29 13 0.04
30 19 0.07
31 9 0.03
32 4 0.01
33 3 0.01
34 2 0.01
35 6 0.02
36 154 0.53
37 65 0.22
38 9 0.03
40 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
Found at i:25479 original size:69 final size:68
Alignment explanation
Indices: 25384--25533 Score: 191
Period size: 67 Copynumber: 2.2 Consensus size: 68
25374 AGGTTTTTCG
* * * *
25384 TGTTTCAAGAGAAACGATTTCAAAGGTTTTTTGTGTTTCAAGAG-AAACTATCTCCAGGGAGGCA
1 TGTTTCAAGAGAAACGATTTCAAAGG---TTGGTGTTTCAAGAGAAAACTATCTCAAGAGAGACA
25448 AAA-TT
63 AAACTT
*
25453 TGTTTCAAGAGAAAC-ATATTCAAAGGTTGGTGTTTCAGGAGAAAACTATCTCAAGAGAGACAAA
1 TGTTTCAAGAGAAACGAT-TTCAAAGGTTGGTGTTTCAAGAGAAAACTATCTCAAGAGAGACAAA
25517 ACTT
65 ACTT
25521 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
25534 ACTGTCTCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
66 13 0.18
67 24 0.33
68 13 0.18
69 23 0.32
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (68 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTTGGTGTTTCAAGAGAAAACTATCTCAAGAGAGACAAAA
CTT
Found at i:25564 original size:21 final size:21
Alignment explanation
Indices: 25503--25568 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
25493 GAAAACTATC
25503 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGACAAAA-TTTGTT
* *
25525 TC-A-AG-G--AAAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
25540 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
25561 TCAAGAGA
1 TCAAGAGA
25569 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
15 5 0.15
16 1 0.03
17 6 0.18
18 1 0.03
19 1 0.03
20 6 0.18
21 12 0.35
22 2 0.06
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:25680 original size:138 final size:138
Alignment explanation
Indices: 25519--25780 Score: 373
Period size: 138 Copynumber: 1.9 Consensus size: 138
25509 GAGACAAAAC
* *
25519 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGAAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGA
* *
25584 AACAAAACTTAGTTCCAAAAGAAACAGTCTCGAGAGAGACACAATTTGTTTAAAG-GAAAATAGA
66 AACAAAA-TTAGTTCCAAAAGAAACAGTCTCAAAAGAGACACAATTTGTTTAAAGAGAAAATAGA
25648 TTCAAAGAT
130 TTCAAAGAT
* * *
25657 TTTGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGA
1 TTTGTTTCAAGGAAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGA
* * ** ** * *
25722 GACAAAATTTGTTTTAAGGGAAACTGTCTCAAAAGAGACACAATTTGTTTCAAGAGAAA
66 AACAAAATTAGTTCCAAAAGAAACAGTCTCAAAAGAGACACAATTTGTTTAAAGAGAAA
25781 CTGTCTCAAG
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
137 38 0.35
138 70 0.65
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (138 bp):
TTTGTTTCAAGGAAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAATGTCTCAAGAGA
AACAAAATTAGTTCCAAAAGAAACAGTCTCAAAAGAGACACAATTTGTTTAAAGAGAAAATAGAT
TCAAAGAT
Found at i:25744 original size:102 final size:102
Alignment explanation
Indices: 25555--25740 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 102
25545 AGAGACAAAA
* *
25555 TTTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAACTTAGTTCCAAAAGAAACAGTCTCGAGAG
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAG
*
25620 AGACACAATTTGTTTAAAGGAAAATAGATTCAAAGAT
66 AGACAAAATTTGTTTAAAGGAAAATAGATTCAAAGAT
* ** * ** *
25657 TTTGTTTCAAGGGAAACTATCTCAAGAGAGGCAAAA-TTTGTTTTAAGAGAAA-ATGTCTCAAGA
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTCCAAAAGAAACA-GTCTCAAGA
*
25720 GAGACAAAATTTGTTTTAAGG
65 GAGACAAAATTTGTTTAAAGG
25741 GAAACTGTCT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
100 1 0.01
101 39 0.54
102 32 0.44
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAG
AGACAAAATTTGTTTAAAGGAAAATAGATTCAAAGAT
Found at i:25824 original size:37 final size:34
Alignment explanation
Indices: 25669--25833 Score: 159
Period size: 36 Copynumber: 4.6 Consensus size: 34
25659 TGTTTCAAGG
* *
25669 GAAACTATCTCAAGAGAGGCAAAATTTGTTTTAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTT--GA
* *
25705 GAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAGG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTT--GA
* * *
25741 GAAACTGTCTCAAAAGAGACACAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTT--TGA
*
25777 GAAACTGTCTCAAGAGAGACAACACTTTGTTTTGA
1 GAAACTGTCTCAAGAGAGACAA-AATTTGTTTTGA
* *
25812 GTAAATTAGTCTCAAGCGAGAC
1 G-AAACT-GTCTCAAGAGAGAC
25834 GAACCCTTGT
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
35 3 0.03
36 85 0.78
37 21 0.19
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (34 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTTGA
Found at i:27223 original size:26 final size:26
Alignment explanation
Indices: 27185--27234 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
27175 GGTGTCATAA
*
27185 ATCTATGACGCGCATTTATTACACAC
1 ATCTATGACGCGCATTTATGACACAC
*
27211 ATCTATGATGCGCATTTATGACAC
1 ATCTATGACGCGCATTTATGACAC
27235 GCATTGAGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (26 bp):
ATCTATGACGCGCATTTATGACACAC
Found at i:27237 original size:13 final size:13
Alignment explanation
Indices: 27188--27239 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
27178 GTCATAAATC
*
27188 TATGACGCGCATT
1 TATGACACGCATT
* * *
27201 TATTACACACATC
1 TATGACACGCATT
**
27214 TATGATGCGCATT
1 TATGACACGCATT
27227 TATGACACGCATT
1 TATGACACGCATT
27240 GAGCGTCATT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:27403 original size:2 final size:2
Alignment explanation
Indices: 27396--27432 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27386 TTTCGTAAAT
27396 TA 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 TA T
27433 TGTATATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29006 original size:22 final size:22
Alignment explanation
Indices: 28978--29035 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
28968 AGACGGGATT
*
28978 ATGTGTATGTATGATATGA-AA
1 ATGTGTATGTATGATACGAGAA
28999 GATGTGTA--TATGATACGAGAA
1 -ATGTGTATGTATGATACGAGAA
*
29020 ATGTTTATGTATGATA
1 ATGTGTATGTATGATA
29036 GTTGTATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 15 0.48
21 2 0.06
22 14 0.45
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (22 bp):
ATGTGTATGTATGATACGAGAA
Found at i:29626 original size:11 final size:12
Alignment explanation
Indices: 29597--29626 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29587 TTTTTTTTAT
29597 AATCAAATGAAA
1 AATCAAATGAAA
29609 AATCAAATGAAA
1 AATCAAATGAAA
29621 AA-CAAA
1 AATCAAA
29627 CCCTGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.13
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:32480 original size:21 final size:20
Alignment explanation
Indices: 32453--32551 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
32443 AATCAGTTTC
32453 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
32474 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
32495 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
32515 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
32537 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
32552 ACACATAAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
19 1 0.02
20 15 0.24
21 42 0.68
22 4 0.06
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:32542 original size:20 final size:20
Alignment explanation
Indices: 32454--32570 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
32444 ATCAGTTTCC
* *
32454 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
32474 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
32494 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
32515 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
32537 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
32556 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
32571 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:32580 original size:20 final size:20
Alignment explanation
Indices: 32538--32787 Score: 256
Period size: 20 Copynumber: 12.5 Consensus size: 20
32528 GCGAATATTA
* *
32538 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
32558 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
32578 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
32598 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
32618 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
32638 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
32658 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
32678 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
32698 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
32718 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
32738 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
32758 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
32778 AAATCACAAC
1 AAATCGCAAC
32788 ACTGAAATTT
Statistics
Matches: 194, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 191 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:33509 original size:24 final size:24
Alignment explanation
Indices: 33470--33516 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33460 AAATTTGGTC
33470 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
33494 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
33517 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:33708 original size:12 final size:12
Alignment explanation
Indices: 33691--33715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33681 ATATAATCCT
33691 GAAGAAGAAAAA
1 GAAGAAGAAAAA
33703 GAAGAAGAAAAA
1 GAAGAAGAAAAA
33715 G
1 G
33716 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:36043 original size:33 final size:34
Alignment explanation
Indices: 35992--36222 Score: 226
Period size: 33 Copynumber: 6.7 Consensus size: 34
35982 CGGAAATTAC
* *
35992 AATCGCAACGA-GAGAATCGTAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
36025 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
36059 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* * *
36092 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-T
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA-AAT-GAA
36131 AAT-GCGAA--ATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACGATGAAAATCGCAATGCGAAATGAA
*
36163 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
36196 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--CG--ATGAAAATCGCAA
36223 CGAGAGAATC
Statistics
Matches: 164, Mismatches: 14, Indels: 35
0.77 0.07 0.16
Matches are distributed among these distances:
31 1 0.01
32 9 0.05
33 83 0.51
34 30 0.18
35 5 0.03
37 2 0.01
38 25 0.15
39 8 0.05
40 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:36097 original size:19 final size:19
Alignment explanation
Indices: 36006--36222 Score: 231
Period size: 19 Copynumber: 12.4 Consensus size: 19
35996 GCAACGAGAG
*
36006 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
36025 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
36039 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
36059 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
36073 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
36092 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
36111 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
36125 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
36144 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
36163 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
36177 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
36196 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
36215 AATCGCAA
1 AATCGCAA
36223 CGAGAGAATC
Statistics
Matches: 166, Mismatches: 11, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 41 0.25
15 3 0.02
16 7 0.04
17 6 0.04
18 4 0.02
19 92 0.55
20 13 0.08
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:36233 original size:33 final size:33
Alignment explanation
Indices: 36092--36244 Score: 150
Period size: 33 Copynumber: 4.5 Consensus size: 33
36082 GCGAAATGAA
36092 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * *
36125 AATCGTAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
36157 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
36196 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
36229 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
36245 TATAAACGCA
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 55 0.57
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:36260 original size:52 final size:52
Alignment explanation
Indices: 36034--36244 Score: 404
Period size: 52 Copynumber: 4.0 Consensus size: 52
36024 AAATCCCAAC
36034 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
36087 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGTAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
36139 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
36191 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
36243 AT
1 AT
36245 TATAAACGCA
Statistics
Matches: 156, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 140 0.90
53 16 0.10
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:36363 original size:52 final size:53
Alignment explanation
Indices: 36251--36366 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
36241 AAATTATAAA
36251 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
36304 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
36356 CGCATTGCGAT
1 CGCATTGCGAT
36367 AGTCATTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:36374 original size:19 final size:19
Alignment explanation
Indices: 36269--36366 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
36259 GATTCTCTCG
36269 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
36289 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
36308 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
36322 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
36341 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
36360 TTGCGAT
1 TTGCGAT
36367 AGTCATTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:36491 original size:14 final size:14
Alignment explanation
Indices: 36472--36508 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
36462 CATCAATTAC
36472 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
36486 ACAAATCATCTTTT
1 ACAAATCAACTTTT
36500 ACAAATCAA
1 ACAAATCAA
36509 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:38617 original size:14 final size:14
Alignment explanation
Indices: 38598--38687 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
38588 TTGAAATGAA
38598 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
38612 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
38631 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
38645 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
38664 AATCGCAACGAGAG
1 AATCGCAACGAGAG
38678 AATCGCAACG
1 AATCGCAACG
38688 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:38635 original size:33 final size:33
Alignment explanation
Indices: 38590--38704 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
38580 TCTTTTGGTT
38590 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
38623 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
38656 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
38689 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
38705 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:38636 original size:19 final size:19
Alignment explanation
Indices: 38612--38709 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
38602 GCAACGAGAG
*
38612 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
38631 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
38645 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
38664 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
38678 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
38697 AATCGCAATGCGA
1 AATCGCAACGCGA
38710 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:38794 original size:20 final size:20
Alignment explanation
Indices: 38728--38823 Score: 122
Period size: 21 Copynumber: 4.8 Consensus size: 20
38718 TCGCGTTGCG
38728 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
38748 ATT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
38767 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
38788 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
38808 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
38824 CTCTTCTGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.25
20 22 0.34
21 26 0.41
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:38811 original size:41 final size:40
Alignment explanation
Indices: 38729--38824 Score: 138
Period size: 41 Copynumber: 2.4 Consensus size: 40
38719 CGCGTTGCGA
***
38729 TTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACAGTCATTTCGCGTTGCGATTTTCAT
*
38769 TTCTCTCGTTGCGACAGTCATTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACAGTCATT-TCGCGTTGCGATTTTCAT
*
38810 TTATCTCGTTGCGAC
1 TTCTCTCGTTGCGAC
38825 TCTTCTGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 19 0.38
41 31 0.62
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (40 bp):
TTCTCTCGTTGCGACAGTCATTTCGCGTTGCGATTTTCAT
Found at i:38945 original size:33 final size:33
Alignment explanation
Indices: 38903--38973 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
38893 AATACTAACT
*
38903 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
38936 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
38969 TGAAA
1 TGAAA
38974 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:39207 original size:22 final size:22
Alignment explanation
Indices: 39155--39209 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
39145 TGGTTGTGAG
** *
39155 GGATTTCGCCGGAGATGGGGAT
1 GGATTTCTTCGGAGATGGGGAC
**
39177 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
39199 GGATTTCTTCG
1 GGATTTCTTCG
39210 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.40, T:0.25
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:39381 original size:20 final size:20
Alignment explanation
Indices: 39356--39549 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
39346 CTTTAAATAT
39356 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
39376 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
39398 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
39417 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
39437 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
39457 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
39477 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
39497 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
39517 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
39537 CGCGTTGCGATTT
1 CGCGTTGCGATTT
39550 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:39543 original size:60 final size:60
Alignment explanation
Indices: 39356--39549 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
39346 CTTTAAATAT
**
39356 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
39417 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
39477 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
39537 CGCGTTGCGATTT
1 CGCGTTGCGATTT
39550 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:39566 original size:21 final size:21
Alignment explanation
Indices: 39536--39618 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
39526 ATTTTCATAT
*
39536 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
39557 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
39578 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
39599 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
39619 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:39609 original size:42 final size:43
Alignment explanation
Indices: 39516--39614 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
39506 ATTTATGTGT
* *
39516 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
39557 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
39599 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
39615 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:40457 original size:22 final size:21
Alignment explanation
Indices: 40432--40513 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 21
40422 CTTGTCTTCT
40432 TTTTCTTCACTTTTTTCCTTTG
1 TTTTCTTCACTTTTTT-CTTTG
* * * *
40454 TTTTGTTTCTCTTTTTTATTTT
1 TTTT-CTTCACTTTTTTCTTTG
*
40476 TTTTCTTTAC-TTTTTCTTTG
1 TTTTCTTCACTTTTTTCTTTG
*
40496 TTTT-TTCTCTTTTTTCTT
1 TTTTCTTCACTTTTTTCTT
40514 ATGATTGAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
19 3 0.06
20 20 0.43
21 3 0.06
22 11 0.23
23 10 0.21
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTTCTTCACTTTTTTCTTTG
Found at i:40496 original size:42 final size:42
Alignment explanation
Indices: 40431--40510 Score: 119
Period size: 40 Copynumber: 1.9 Consensus size: 42
40421 TCTTGTCTTC
40431 TTTTTCTTCACTTTTTTCCTTTGTTTTGTTTCTCTTTTTTATTT
1 TTTTTCTTCACTTTTTTCCTTTG-TTT-TTTCTCTTTTTTATTT
*
40475 TTTTTCTTTAC-TTTTT-CTTTGTTTTTTCTCTTTTTT
1 TTTTTCTTCACTTTTTTCCTTTGTTTTTTCTCTTTTTT
40511 CTTATGATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 12 0.34
41 3 0.09
42 5 0.14
43 5 0.14
44 10 0.29
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.78
Consensus pattern (42 bp):
TTTTTCTTCACTTTTTTCCTTTGTTTTTTCTCTTTTTTATTT
Found at i:43552 original size:26 final size:27
Alignment explanation
Indices: 43482--43552 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
43472 AAGAAACGTG
* *
43482 TTAGATAAAAAGGTAAGAAATAAATAAA
1 TTAGAT-AAAAGATAAGAAATAAACAAA
* *
43510 TTAAATTAAA-ATGAAGAAA-AAACAAA
1 TTAGATAAAAGAT-AAGAAATAAACAAA
43536 TTAGATAAAAGATAAGA
1 TTAGATAAAAGATAAGA
43553 TAAAGAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 19 0.54
27 11 0.31
28 5 0.14
ACGTcount: A:0.65, C:0.01, G:0.13, T:0.21
Consensus pattern (27 bp):
TTAGATAAAAGATAAGAAATAAACAAA
Found at i:43595 original size:9 final size:9
Alignment explanation
Indices: 43581--43698 Score: 67
Period size: 9 Copynumber: 12.7 Consensus size: 9
43571 AATAGTAAGT
43581 AAAATAAAA
1 AAAATAAAA
*
43590 AAAATATAA
1 AAAATAAAA
43599 AAAATAAAGA
1 AAAATAAA-A
*
43609 AAAAGAAGAA
1 AAAATAA-AA
*
43619 AAAATATATA
1 AAAATA-AAA
*
43629 TAAATAAAA
1 AAAATAAAA
* *
43638 CAAATAAAT
1 AAAATAAAA
43647 AAAATAATAA
1 AAAATAA-AA
**
43657 TAAAA-AGTA
1 -AAAATAAAA
*
43666 AAAATAATA
1 AAAATAAAA
* * *
43675 TATATAATA
1 AAAATAAAA
*
43684 AAAATATAA
1 AAAATAAAA
43693 AAAATA
1 AAAATA
43699 GTAAATATAT
Statistics
Matches: 83, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
8 4 0.05
9 52 0.63
10 21 0.25
11 6 0.07
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.20
Consensus pattern (9 bp):
AAAATAAAA
Found at i:43623 original size:50 final size:46
Alignment explanation
Indices: 43580--43703 Score: 128
Period size: 46 Copynumber: 2.7 Consensus size: 46
43570 AAATAGTAAG
43580 TAAAATAAAAAAAATATAAAAAATAA-AGAAAAAGAAGAAAAAATATA
1 TAAAATAAAAAAAATATAAAAAATAATA-AAAAA-AAGAAAAAATATA
* * *
43627 TATAAATAAAACAAATA-AATAAAATAATAATAAAAAGTAAAAATA-A
1 TA-AAATAAAAAAAATATAA-AAAATAATAAAAAAAAGAAAAAATATA
* * *
43673 TATATATAATAAAAATATAAAAAATAGTAAA
1 TA-AAATAAAAAAAATATAAAAAATAATAAA
43704 TATATATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
46 24 0.37
47 16 0.25
48 24 0.37
49 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (46 bp):
TAAAATAAAAAAAATATAAAAAATAATAAAAAAAAGAAAAAATATA
Found at i:43653 original size:48 final size:48
Alignment explanation
Indices: 43582--43703 Score: 137
Period size: 48 Copynumber: 2.6 Consensus size: 48
43572 ATAGTAAGTA
43582 AAATAAAAAAAATATAAAAAATAA-AGAAAAAGAAGAAAAAAT-ATATAT
1 AAATAAAAAAAATATAAAAAATAATA-AAAAA-AAGAAAAAATAATATAT
* * *
43630 AAATAAAACAAATA-AATAAAATAATAATAAAAAGTAAAAATAATATAT
1 AAATAAAAAAAATATAA-AAAATAATAAAAAAAAGAAAAAATAATATAT
* *
43678 --ATAATAAAAATATAAAAAATAGTAAA
1 AAATAAAAAAAATATAAAAAATAATAAA
43704 TATATATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
46 19 0.30
47 13 0.21
48 30 0.48
49 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (48 bp):
AAATAAAAAAAATATAAAAAATAATAAAAAAAAGAAAAAATAATATAT
Found at i:43662 original size:25 final size:25
Alignment explanation
Indices: 43589--43713 Score: 71
Period size: 25 Copynumber: 4.9 Consensus size: 25
43579 GTAAAATAAA
* * *
43589 AAAAATATAAAAAATA-AAGAAAAAG
1 AAAAA-ATAAAATATATAATAAAAAC
*
43614 AAGAAAA-AATATATATAA-ATAAAAC
1 AA-AAAATAAAATATATAATA-AAAAC
*
43639 AAATAAATAAAATA-ATAATAAAAAG
1 AAA-AAATAAAATATATAATAAAAAC
* * *
43664 TAAAAATAATATATATAATAAAAATAT
1 AAAAAATAAAATATATAAT-AAAA-AC
43691 AAAAAATAGTAAATATAT-ATAAA
1 AAAAAATA--AAATATATAATAAA
43714 TTAATAAAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
24 17 0.22
25 29 0.37
26 13 0.16
27 11 0.14
28 2 0.03
29 7 0.09
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (25 bp):
AAAAAATAAAATATATAATAAAAAC
Found at i:43684 original size:40 final size:39
Alignment explanation
Indices: 43644--43754 Score: 94
Period size: 37 Copynumber: 2.9 Consensus size: 39
43634 AAAACAAATA
43644 AATAAAATAATAATAAAAAGTAAAAATAATATATATAAT
1 AATAAAATAATAATAAAAAGTAAAAATAATATATATAAT
43683 -A-AAAAT-ATAA-AAAATAGT--AAAT-ATATATA-AATT
1 AATAAAATAATAATAAAA-AGTAAAAATAATATATATAA-T
* * *
43716 AATAAAACAGATAATAAAAAATAACATATATATATATAT
1 AATAAAATA-ATAATAAAAAGTAA-AAATA-ATATATAT
43755 GTAATCTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 22
0.69 0.04 0.27
Matches are distributed among these distances:
32 2 0.04
33 8 0.14
34 5 0.09
35 8 0.14
36 7 0.12
37 11 0.20
38 5 0.09
40 3 0.05
42 7 0.12
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (39 bp):
AATAAAATAATAATAAAAAGTAAAAATAATATATATAAT
Found at i:43702 original size:36 final size:37
Alignment explanation
Indices: 43639--43749 Score: 97
Period size: 36 Copynumber: 3.0 Consensus size: 37
43629 TAAATAAAAC
*
43639 AAATAAAT-AAAATAATAATAAAAAGTAAAAATA-AT
1 AAATTAATAAAAATAATAATAAAAAGTAAAAATATAT
* *
43674 ATATATAATAAAAAT-ATAA-AAAATAGTAAATATATAT
1 AAAT-TAATAAAAATAATAATAAAA-AGTAAAAATATAT
* * *
43711 AAATTAATAAAACA-GATAATAAAAAATAACATATATAT
1 AAATTAATAAAA-ATAATAATAAAAAGTAA-AAATATAT
43749 A
1 A
43750 TATATGTAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
35 7 0.11
36 24 0.38
37 19 0.30
38 13 0.21
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (37 bp):
AAATTAATAAAAATAATAATAAAAAGTAAAAATATAT
Found at i:43703 original size:10 final size:9
Alignment explanation
Indices: 43581--43713 Score: 51
Period size: 9 Copynumber: 14.1 Consensus size: 9
43571 AATAGTAAGT
*
43581 AAAATAAAA
1 AAAATATAA
43590 AAAATATAA
1 AAAATATAA
*
43599 AAAATAAAGA
1 AAAATATA-A
* *
43609 AAAAGAAGAA
1 AAAA-TATAA
43619 AAAATATATA
1 AAAATATA-A
*
43629 TAAATA-AA
1 AAAATATAA
43637 ACAAATAAATAA
1 A-AAAT--ATAA
43649 AATAATAATAA
1 AA-AAT-ATAA
*
43660 AAAGTA-AA
1 AAAATATAA
43668 AATAATAT-A
1 AA-AATATAA
* *
43677 TATA-AT-A
1 AAAATATAA
43684 AAAATATAA
1 AAAATATAA
43693 AAAATAGTAA
1 AAAATA-TAA
*
43703 ATATATATAA
1 A-AAATATAA
43713 A
1 A
43714 TTAATAAAAC
Statistics
Matches: 95, Mismatches: 15, Indels: 27
0.69 0.11 0.20
Matches are distributed among these distances:
7 5 0.05
8 8 0.08
9 35 0.37
10 26 0.27
11 15 0.16
12 6 0.06
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.22
Consensus pattern (9 bp):
AAAATATAA
Found at i:44364 original size:37 final size:37
Alignment explanation
Indices: 44314--44421 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
44304 TTGTGGAACT
*
44314 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
*
44351 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
*
44388 TATTTTTAGGTGTTTGAATCATAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
44422 ATGTTTGTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:46026 original size:27 final size:27
Alignment explanation
Indices: 45970--46027 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
45960 TATAAATATA
45970 TATATAATAAATAATATTTTATATTTTT
1 TATATAATAAAT-ATATTTTATATTTTT
45998 TATAT-ATAAAT-TATTTTAATATTTATT
1 TATATAATAAATATATTTT-ATATTT-TT
46025 TAT
1 TAT
46028 TTATTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 11 0.39
28 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TATATAATAAATATATTTTATATTTTT
Found at i:50047 original size:15 final size:15
Alignment explanation
Indices: 50027--50058 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50017 ATCAATACCT
50027 TTTTGCATACATACA
1 TTTTGCATACATACA
*
50042 TTTTGCATACATTCA
1 TTTTGCATACATACA
50057 TT
1 TT
50059 AATCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:57318 original size:5 final size:5
Alignment explanation
Indices: 57308--57357 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
57298 CTTGAAGAAA
57308 AAAAG AAAAG AAAAAGG AAAAG -AAAG AAAA- AAAAG AGAAAG AAAA-
1 AAAAG AAAAG -AAAA-G AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG
57353 AAAAG
1 AAAAG
57358 GGGAAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
4 12 0.31
5 13 0.33
6 13 0.33
7 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:57327 original size:7 final size:6
Alignment explanation
Indices: 57307--57383 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
57297 GCTTGAAGAA
* * *
57307 AAAAAG -AAAAG AAAAAG GAAAAG AAAGAAA AAAAAG AGAAAG AAAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG
** *
57354 AAAGGG GAAAAG AAAAATG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAA-G AAAAAG AAAAA
57384 AAGGGGGGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
5 8 0.15
6 36 0.65
7 11 0.20
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:57327 original size:12 final size:12
Alignment explanation
Indices: 57306--57383 Score: 61
Period size: 13 Copynumber: 6.4 Consensus size: 12
57296 TGCTTGAAGA
*
57306 AAAAAAGAAAAG
1 AAAAAGGAAAAG
57318 AAAAAGGAAAAG
1 AAAAAGGAAAAG
**
57330 AAAGAAAAAAAAG
1 AAA-AAGGAAAAG
*
57343 AGAAA-GAAAA-
1 AAAAAGGAAAAG
*
57353 AAAAGGGGAAAAG
1 AAAA-AGGAAAAG
*
57366 AAAAATGAAAAAG
1 AAAAA-GGAAAAG
57379 AAAAA
1 AAAAA
57384 AAGGGGGGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
10 3 0.06
11 4 0.08
12 21 0.40
13 24 0.46
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (12 bp):
AAAAAGGAAAAG
Found at i:58545 original size:94 final size:94
Alignment explanation
Indices: 58384--58677 Score: 497
Period size: 94 Copynumber: 3.1 Consensus size: 94
58374 AACAAGTGAC
58384 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
58449 AAAAACCAATCATTGGATTTGAAAGATAA
66 AAAAACCAATCATTGGATTTGAAAGATAA
58478 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
*
58543 AAAAACTAATCATTGGATTTG-AA-ATAA
66 AAAAACCAATCATTGGATTTGAAAGATAA
* * *
58570 A-GAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-AC
1 ATGTG-CTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCC
*
58633 CGAAAAACCAATCATTGGATTTGAAAGATGA
64 CGAAAAACCAATCATTGGATTTGAAAGATAA
58664 ATGTGCTCATAGCA
1 ATGTGCTCATAGCA
58678 CAAATAAAGA
Statistics
Matches: 188, Mismatches: 7, Indels: 11
0.91 0.03 0.05
Matches are distributed among these distances:
91 2 0.01
92 31 0.16
93 61 0.32
94 92 0.49
95 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (94 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
AAAAACCAATCATTGGATTTGAAAGATAA
Found at i:59655 original size:36 final size:39
Alignment explanation
Indices: 59611--59707 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 39
59601 GCTTTTCCAG
59611 AGAAGTTCATAATGAGAAGAACTCATCTG-A-AA-AAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
59647 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGA
*
59687 AGAAATTCATAATGAGAAGAA
1 AGAAGTTCATAATGAGAAGAA
59708 TTTGTTCAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
36 29 0.52
37 1 0.02
38 2 0.04
40 24 0.43
ACGTcount: A:0.51, C:0.09, G:0.22, T:0.19
Consensus pattern (39 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
Found at i:59666 original size:17 final size:17
Alignment explanation
Indices: 59611--59667 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
59601 GCTTTTCCAG
59611 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
* **
59628 AGAA-CTCATCTGAAAAAGA
1 AGAAGTTCA--T-AATGAGA
59647 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
59664 AGAA
1 AGAA
59668 CTCATCTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 3 0.10
17 13 0.43
18 2 0.07
19 9 0.30
20 3 0.10
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (17 bp):
AGAAGTTCATAATGAGA
Found at i:59905 original size:113 final size:111
Alignment explanation
Indices: 59650--60132 Score: 616
Period size: 113 Copynumber: 4.3 Consensus size: 111
59640 AAAAAGAAGA
59650 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * *
59715 AACCGTTTTGCTCAAATCCATCATTTGATGGATCAGCCTTTCCAGAAAA
65 AACC-TTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAG-TAG
*
59764 AGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * *
59829 AACCTTTTGCTCAAATCCATCATTTAATGGATCAGCATTACCAGTTTG
65 AACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAG-TAG
* ** *
59877 AGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGAAG---TTCATAATGAGAAGAGCTTGTTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * * * * *
59939 ACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAG
66 ACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCA-GTAG
* ** *
59986 AGTTCATAATGAGAAGAACTCGTCAT-CTGAAGAAGAAGAAATTCATGATGGAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAAGAAATTCATAAT-GAGAAGAATTTGTT
* * *
60050 CAACTTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAG-AG
64 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGTAG
* *
60097 AAGTTCATAATGAGAAGAACTCATATGAAAAAGAAG
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
60133 TTCATAATGA
Statistics
Matches: 318, Mismatches: 43, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
109 90 0.28
110 2 0.01
111 3 0.01
112 43 0.14
113 112 0.35
114 68 0.21
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGTAG
Found at i:59969 original size:222 final size:222
Alignment explanation
Indices: 59647--60150 Score: 644
Period size: 222 Copynumber: 2.3 Consensus size: 222
59637 CTGAAAAAGA
*
59647 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAG---TTCATAATGAGAAGAACTTG
* * *
59712 TTCAACCGTTTTGCTCAAATCCATCATTTGATGGATCAGCCTTTCCAGAAAAAGTTCATAATGAG
62 TTCAACCGTTTTGCTCAAATCCATCATTTGATGGATCAACATTGCCAGAAAAAGTTCATAATGAG
*
59777 AAGAACTCAT-TTGAAGAAGGAAGAAGAAATTCATAAT-GAGAAGAATTTGTTCAACCTTTTGCT
127 AAGAACTCATCAT-AAGAA-GAAGAAGAAATTCATAATGGAGAAGAATTTGTTCAACCTTTTGCT
*
59840 CAAATCCATCATTTAATGGATCAGCATTACCAG
190 CAAATCCATCACTTAATGGATCAGCATTACCAG
* * *
59873 TTTG-AGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 --AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * ** *
59937 TAACC-TTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAA
64 CAACCGTTTTGCTCAAATCCATCATTTGATGGATCAACATTGCCAGAAAAAGTTCATAATGAGAA
* ** * *
60001 GAACTCGTCATCTGAAGAAGAAGAAATTCATGATGGAGAAGAATTTGTTCAACTTTTTGCTCAAA
129 GAACTCATCATAAGAAGAAGAAGAAATTCATAATGGAGAAGAATTTGTTCAACCTTTTGCTCAAA
* * *
60066 TCCATCACTTGATGGATCAGCTTTTCCAG
194 TCCATCACTTAATGGATCAGCATTACCAG
* *
60095 AGAAGTTCATAATGAGAAGAACTCATATG-A-AA-AAGAAGTTCATAATGAAAAGAACT
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACT
60151 CATCTGAAGA
Statistics
Matches: 243, Mismatches: 30, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
218 22 0.09
219 2 0.01
220 2 0.01
221 41 0.17
222 113 0.47
223 25 0.10
226 7 0.03
227 30 0.12
228 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (222 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCGTTTTGCTCAAATCCATCATTTGATGGATCAACATTGCCAGAAAAAGTTCATAATGAGAAGA
ACTCATCATAAGAAGAAGAAGAAATTCATAATGGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
CATCACTTAATGGATCAGCATTACCAG
Found at i:60130 original size:16 final size:16
Alignment explanation
Indices: 60111--60164 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
60101 TCATAATGAG
60111 AAGAACTCATATGAAA
1 AAGAACTCATATGAAA
*
60127 AAGAAGTTCATAATG-AA
1 AAGAA-CTCAT-ATGAAA
* *
60144 AAGAACTCATCTGAAG
1 AAGAACTCATATGAAA
60160 AAGAA
1 AAGAA
60165 GAAGTTCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 2 0.06
16 15 0.48
17 11 0.35
18 3 0.10
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.19
Consensus pattern (16 bp):
AAGAACTCATATGAAA
Found at i:60137 original size:33 final size:36
Alignment explanation
Indices: 60095--60183 Score: 130
Period size: 33 Copynumber: 2.6 Consensus size: 36
60085 GCTTTTCCAG
60095 AGAAGTTCATAATGAGAAGAACTCATATG-A-AA-A
1 AGAAGTTCATAATGAGAAGAACTCATATGAAGAAGA
* *
60128 AGAAGTTCATAATGAAAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATATGAAGAAGA
*
60164 AGAAGTTCACAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
60184 GCTTATTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
33 27 0.55
34 1 0.02
35 2 0.04
36 19 0.39
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.19
Consensus pattern (36 bp):
AGAAGTTCATAATGAGAAGAACTCATATGAAGAAGA
Found at i:60145 original size:17 final size:17
Alignment explanation
Indices: 60095--60148 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
60085 GCTTTTCCAG
*
60095 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAAA
*
60112 AGAA-CTCAT-ATGAAAA
1 AGAAGTTCATAATG-AAA
60128 AGAAGTTCATAATGAAA
1 AGAAGTTCATAATGAAA
60145 AGAA
1 AGAA
60149 CTCATCTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.10
16 10 0.32
17 15 0.48
18 3 0.10
ACGTcount: A:0.54, C:0.07, G:0.19, T:0.20
Consensus pattern (17 bp):
AGAAGTTCATAATGAAA
Found at i:60436 original size:3 final size:3
Alignment explanation
Indices: 60428--60480 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
60418 CTACCCATTT
* * *
60428 TTA TTA TTA TTA -AA TTA TTA TTA TTA TAA TTA TTA -TA TACA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
60472 TTA TTA TTA
1 TTA TTA TTA
60481 AATAAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 36 0.88
4 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:61961 original size:24 final size:25
Alignment explanation
Indices: 61917--61983 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
61907 CATATAAATA
*
61917 TATATATAATAATATTT-ATATTT-T
1 TATATATAATTAT-TTTAATATTTAT
61941 TATATATAATTATTTTAATATTTAT
1 TATATATAATTATTTTAATATTTAT
*
61966 T-TAT-TTATT-TTTTAATAT
1 TATATATAATTATTTTAATAT
61984 CAAAGAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.23
23 7 0.18
24 21 0.54
25 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATATAATTATTTTAATATTTAT
Found at i:61964 original size:22 final size:22
Alignment explanation
Indices: 61917--61983 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
61907 CATATAAATA
* *
61917 TATATATAATAATATTTATATTTT
1 TATATATAATTAT-TTTA-ATATT
61941 TATATATAATTATTTTAATATT
1 TATATATAATTATTTTAATATT
* *
61963 TATTTATTTATT-TTTTAATAT
1 TATATA-TAATTATTTTAATAT
61984 CAAAGAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.47
23 8 0.21
24 12 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATATAATTATTTTAATATT
Found at i:62057 original size:18 final size:19
Alignment explanation
Indices: 62034--62069 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62024 CTGGTATTTT
62034 AAAA-TTAAATATTATAAA
1 AAAATTTAAATATTATAAA
*
62052 AAAATTTAATTATTATAA
1 AAAATTTAAATATTATAA
62070 TATATATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTAAATATTATAAA
Found at i:64876 original size:23 final size:22
Alignment explanation
Indices: 64850--64913 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
64840 CAGCTCATAT
64850 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
64873 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
64896 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
64914 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:65045 original size:103 final size:103
Alignment explanation
Indices: 64929--65146 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
64919 TAATGTCCAT
* *
64929 AAGGACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
64994 GACCTCACACATGTTCCAAAGAATACATATATGTCTCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
65032 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCAGCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
65097 TACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
65135 AAGGACCACATA
1 AAGGACCACATA
65147 GACCCTCTAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:65611 original size:21 final size:21
Alignment explanation
Indices: 65587--65629 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
65577 TCATATTCGT
* *
65587 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
65608 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
65629 T
1 T
65630 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:71137 original size:17 final size:17
Alignment explanation
Indices: 71086--71128 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
71076 CTCCCTGAAG
71086 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
71103 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
71120 CCCGTGACC
1 CCCGTGACC
71129 TGCAAGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.49, G:0.23, T:0.12
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:74489 original size:17 final size:17
Alignment explanation
Indices: 74469--74505 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
74459 TTCCCTCGAA
74469 TTTATTTTTTTATTTTT
1 TTTATTTTTTTATTTTT
74486 TTTATTTTTTTATTTTT
1 TTTATTTTTTTATTTTT
74503 TTT
1 TTT
74506 TTGGCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTATTTTTTTATTTTT
Found at i:74505 original size:9 final size:8
Alignment explanation
Indices: 74469--74504 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
74459 TTCCCTCGAA
74469 TTTATTTT
1 TTTATTTT
74477 TTTATTTTT
1 TTTA-TTTT
74486 TTTATTTT
1 TTTATTTT
74494 TTTATTTT
1 TTTATTTT
74502 TTT
1 TTT
74505 TTTGGCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTATTTT
Found at i:81140 original size:8 final size:8
Alignment explanation
Indices: 81127--81154 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
81117 ATATTCTCCC
81127 ATATGTAT
1 ATATGTAT
81135 ATATGTAT
1 ATATGTAT
81143 ATATGTAT
1 ATATGTAT
81151 ATAT
1 ATAT
81155 CTTCTTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:85667 original size:53 final size:55
Alignment explanation
Indices: 85567--86511 Score: 485
Period size: 55 Copynumber: 17.7 Consensus size: 55
85557 AGATTTCCCA
85567 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * ** *
85622 GCAATTGA-TGAAGATTG-T-GGGTCTTATACTCTCTGAAGATGTAGGGGGCAGA-
1 GCAATT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
85674 -C--------ACGATCGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * * * *
85720 ACGATTGTTGAAGA-TATTCGAGT-TC-TATTCTCCTTAAAGAAAGAAGGAGC-GAAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCT-C-TGAAGAAATAGGGAGCAG-AC
** * * * *
85774 -C-CGT-TTGAAGAGATG-TCTAAGT-TCCATACTCCCT-AGAGAAAGAGGGAGC-GAAC
1 GCAATTATTGAAGA-TTGTTC-GAGTCT-CATACTCTCTGA-AGAAATAGGGAGCAG-AC
** * * * * * *
85827 -C-CGT-GTGAAGA-TATCCGAGTCCCATACTC-CGTAAAGAAAAAGGGAGC-GAAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTC-TGAAGAAATAGGGAGCAG-AC
* * * *
85878 -CCA--GTTGAAGA-TGTTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAG-AGAAC
1 GCAATTATTGAAGATTGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAG-AC
* ** ** * * *
85929 CCGTTTACAGAAGATT-TTCAAGT-TCTATACTCCCTGAAGAAATAGGGAGCATAC
1 GCAATTATTGAAGATTGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
85983 GCGATTGA-TGAAGATTGTTTGAGTCTTATACTCTCCGAAGGAAT-GGAGAGCAGAC
1 GCAATT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGG-GAGCAGAC
* * * * * * * *
86038 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCCGAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * * *
86093 ACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
86148 GCGATTGA-TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 GCAATT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* ** * * *
86201 GCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGGGGGCAGAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
86256 GCGATTGA-TGAAGATTG-T-GGGTCTTATACTCTCTGCAGAAATAGGGAGCCGAC
1 GCAATT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * * *
86309 ACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
** * * * *
86364 GTGATTGA-TGAGGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 GCAATT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* ** * *
86417 GCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
86472 GCGATTGTTAAAGATTGTTCGGGTCTTATACTCTCTGAAG
1 GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAG
86512 GACTATGGAG
Statistics
Matches: 730, Mismatches: 106, Indels: 108
0.77 0.11 0.11
Matches are distributed among these distances:
43 5 0.01
44 1 0.00
45 29 0.04
47 1 0.00
50 2 0.00
51 73 0.10
52 13 0.02
53 204 0.28
54 82 0.11
55 316 0.43
56 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (55 bp):
GCAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:85873 original size:51 final size:50
Alignment explanation
Indices: 85726--85978 Score: 202
Period size: 51 Copynumber: 4.9 Consensus size: 50
85716 AGACACGATT
* * * *
85726 GTTGAAGATATTCGAGTTCTATTCTCCTTAAAGAAAGAA-GGAGCGAACCC
1 GTTGAAGATATCCGAGTTCCATACTCCCTAAAGAAA-AAGGGAGCGAACCC
* ** * *
85776 GTTTGAAGAGATGTCTAAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCC
1 G-TTG-A-AGATATCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
* *
85829 GTGTGAAGATATCCGAGTCCCATACTCCGTAAAGAAAAAGGGAGCGAACCC
1 GT-TGAAGATATCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
* * * * * *
85880 AGTTGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCC
1 -GTTGAAGATATCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
* * * * * *
85931 GTTTACAGAAGATTTTCAAGTTCTATACTCCCTGAAGAAATAGGGAGC
1 G-TT---GAAGATATCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGC
85979 ATACGCGATT
Statistics
Matches: 165, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
50 2 0.01
51 83 0.50
52 6 0.04
53 37 0.22
54 37 0.22
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (50 bp):
GTTGAAGATATCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
Found at i:85874 original size:104 final size:102
Alignment explanation
Indices: 85691--85932 Score: 260
Period size: 104 Copynumber: 2.3 Consensus size: 102
85681 GTTCGAGTCT
* * * * * * * *
85691 CATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTTGAAGATATTCGAGTTCTATTCTCCTT
1 CATACTCCCTGAAGAAAGAGGGAG-AGAACCCG--TG-TGAAGATATCCGAGTCCCATACTCCGT
85755 AAAGAAAGAAGGAGCGAACCC-GTTTGAAGA-GATGTCTAAGTTC
62 AAAGAAAGAAGGAGCGAACCCAG-TTGAAGATG-T-TC-AAGTTC
*
85798 CATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTCCCATACTCCGTAAA
1 CATACTCCCTGA-AGAAAGAGGGAGAGAACCCGTGTGAAGATATCCGAGTCCCATACTCCGTAAA
*
85862 GAAA-AAGGGAGCGAACCCAGTTGAAGATGTTCGAGTTC
65 GAAAGAA-GGAGCGAACCCAGTTGAAGATGTTCAAGTTC
*
85900 TATACTCCCTGAAGAAAGAGGGAGAGAACCCGT
1 CATACTCCCTGAAGAAAGAGGGAGAGAACCCGT
85933 TTACAGAAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
102 34 0.29
103 5 0.04
104 48 0.41
105 4 0.03
106 2 0.02
107 24 0.21
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (102 bp):
CATACTCCCTGAAGAAAGAGGGAGAGAACCCGTGTGAAGATATCCGAGTCCCATACTCCGTAAAG
AAAGAAGGAGCGAACCCAGTTGAAGATGTTCAAGTTC
Found at i:86034 original size:55 final size:55
Alignment explanation
Indices: 85954--86511 Score: 752
Period size: 55 Copynumber: 10.3 Consensus size: 55
85944 TTTCAAGTTC
* * * * * *
85954 TATACTCCCTGAAGAAATAGGGAGCATACGCGATTGATGAAGATTGTTTGAGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* * * * * *
86009 TATACTCTCCGAAGGAAT-GGAGAGCAGACACGATTGTTGAAAATTGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGG-GGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* * * * *
86064 TATACTCTATGCAGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* *
86119 TATACTCTCTGAAGAAATAGGGGGAAGACGCGATTGATGAAGATTG-T-GGGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* *
86172 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* *
86227 TATACTCTCTGACGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GGGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* * * *
86280 TATACTCTCTGCAGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* * * *
86335 TATACTCTCTGAAGAAATAGGGGGAAGACGTGATTGATGAGGATTG-T-GGGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
* *
86388 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
*
86443 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTAAAGATTGTTCGGGTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
86498 TATACTCTCTGAAG
1 TATACTCTCTGAAG
86512 GACTATGGAG
Statistics
Matches: 442, Mismatches: 53, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
53 141 0.32
54 8 0.02
55 291 0.66
56 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCT
Found at i:86219 original size:108 final size:108
Alignment explanation
Indices: 85954--86511 Score: 785
Period size: 108 Copynumber: 5.1 Consensus size: 108
85944 TTTCAAGTTC
* * * * *
85954 TATACTCCCTGAAGAAATAGGGAGCATACGCGATTGATGAAGATTGTTTGAGTCTTATACTCTCC
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCT
* * * * * *
86019 GAAGGAAT-GGAGAGCAGACACGATTGTTGAAAATTGTTCGAGTCT
66 GAAGAAATAGG-GGGCAGACGCGATTGATGAAGATTG-T-GGGTCT
* * * * *
86064 TATACTCTATGCAGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCT
*
86129 GAAGAAATAGGGGGAAGACGCGATTGATGAAGATTGTGGGTCT
66 GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
* *
86172 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCT
*
86237 GACGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
66 GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
* * * *
86280 TATACTCTCTGCAGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCT
* * *
86345 GAAGAAATAGGGGGAAGACGTGATTGATGAGGATTGTGGGTCT
66 GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
* *
86388 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCT
* *
86453 GAAGAAATAGGGGGCAGACGCGATTGTTAAAGATTGTTCGGGTCT
66 GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GGGTCT
86498 TATACTCTCTGAAG
1 TATACTCTCTGAAG
86512 GACTATGGAG
Statistics
Matches: 398, Mismatches: 47, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
108 292 0.73
109 2 0.01
110 102 0.26
111 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (108 bp):
TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCT
GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
Found at i:86330 original size:216 final size:218
Alignment explanation
Indices: 85954--86508 Score: 918
Period size: 216 Copynumber: 2.6 Consensus size: 218
85944 TTTCAAGTTC
* * * * * * *
85954 TATACTCCCTGAAGAAATAGGGAGCATACGCGATTGATGAAGATTGTTTGAGTCTTATACTCTCC
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
* * * * * *
86019 GAAGGAAT-GGAGAGCAGACACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATA
66 GAAGAAATAGG-GGGCAGACGCGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGCAGAAATA
86083 GGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGAC
130 GGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGAC
86148 GCGATTGATGAAGATTGTGGGTCT
195 GCGATTGATGAAGATTGTGGGTCT
86172 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
* *
86237 GACGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGCAGAAATAG
66 GAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGCAGAAATAG
86300 GGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
131 GGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
* *
86365 TGATTGATGAGGATTGTGGGTCT
196 CGATTGATGAAGATTGTGGGTCT
86388 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
1 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
*
86453 GAAGAAATAGGGGGCAGACGCGATTGTTAAAGATTGTTCGGGTCTTATACTCTCTG
66 GAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTG
86509 AAGGACTATG
Statistics
Matches: 314, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
216 208 0.66
217 2 0.01
218 102 0.32
219 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (218 bp):
TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
GAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGCAGAAATAG
GGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
CGATTGATGAAGATTGTGGGTCT
Found at i:87238 original size:17 final size:17
Alignment explanation
Indices: 87187--87229 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
87177 CTCCCTGAAG
87187 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
87204 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
87221 CCCGTGACC
1 CCCGTGACC
87230 TGCAAGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.49, G:0.23, T:0.12
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:97119 original size:461 final size:467
Alignment explanation
Indices: 96217--97579 Score: 2040
Period size: 461 Copynumber: 2.9 Consensus size: 467
96207 ACTAGAAGAG
* * * *
96217 CTTTCTCTAACATCTCTTCGCTGCACCTTTTCCCGGTCTCCCCCACTATTACCACTATCTCTGGG
1 CTTTCTCTACCATCTCTCCGCTGTACCTTTTCCCGGTCTCCCCCACTATTGCCACTATCTCTGGG
* * * *
96282 CATGGGCCTGGATGACACATCGTTACTTGGCTTGTCACTTGCAAGCTTAGACAGCTTTCCGGCTA
66 CATGGGCCTGGACGACACATCGCTACTTGGCTTGTCACTTGCAAGCTCAGTCAGCTTTCCGGCTA
** * * *
96347 CAATTATGGCCTCCAAAAGTCTCTGGGCATCACCTTGCTCTCCCCTGAGCATCTCCCCTGGTCTA
131 CAGCTATGGCCTCCAAAAGTCTCTGGGCATCACCTTGCTCTCCCCCGAGCATCGCCCCTAGTCTA
*
96412 AGTCATTCCAAGAAGGTCTTGAGCGCACCTCATTCACTCATTGCTCCCTTGCATATGAGCAGCTC
196 AGTCCTTCCAAGAAGGTCTTGAGCGCACCTCATTCACTCATTGCTCCCTTGCATATGAGCAGCTC
96477 CCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACTCA-AATTTGGCTTCTTTTG
261 CCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACT-AGAATTTGGCTTCTTTTG
* *
96541 GATCGTTTTTGACAATTCCTGCGAACCACCGTATATTAGAACACCTCCGTCGACAAATTCGTATC
325 GATCGTTTCTGACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTCGACAAATTCGTATC
* * ** *
96606 ACCGACCAAATTTTACTATTCATAAAATTCACTATTCATGTGAATAGT-A-AC-CT-AAAAAA-C
390 GCCGACCAAATTTTACTATTCACAAAATTCACTATTCACATAAATAGTAACACACTGAAAAAATC
96666 AACACCAAAAGCT
455 AACACCAAAAGCT
*
96679 CTTTCTCTACCATCTCTCCAG-TGTACCTTTTCCCGGTCT-CCCCACTATTGCTACTATCTCTGG
1 CTTTCTCTACCATCTCTCC-GCTGTACCTTTTCCCGGTCTCCCCCACTATTGCCACTATCTCTGG
* * * *
96742 GCATGGGCCTGGACGACACATCGCTACTTGGCATGTCACTTACAAGCTCAGTCAGCTTTCTGGAT
65 GCATGGGCCTGGACGACACATCGCTACTTGGCTTGTCACTTGCAAGCTCAGTCAGCTTTCCGGCT
* *
96807 ATAGCTATGGCCTCCAAAAGTCTCTGGGAATCACCTTGCTCTCCCCCGAGCATCGCCCCTAGTCT
130 ACAGCTATGGCCTCCAAAAGTCTCTGGGCATCACCTTGCTCTCCCCCGAGCATCGCCCCTAGTCT
* * *
96872 AAGTCCCTCCAAGAAGGTCTTGAGCGCACCTCATTCACTCATTGCTACCTTGCATATGGGCAGCT
195 AAGTCCTTCCAAGAAGGTCTTGAGCGCACCTCATTCACTCATTGCTCCCTTGCATATGAGCAGCT
*
96937 CCCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATTGCTCCCACTAGAATTTGGCTTCTTTTG
260 CCCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACTAGAATTTGGCTTCTTTTG
* * * * * *
97002 GACCGTTTCTGATAATTCTTGCGAACCATCGTGTATTATAACACCTCCGTCGACAAATTCGTATT
325 GATCGTTTCTGACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTCGACAAATTCGTATC
* *
97067 GCCGACCAAATTTTACTATTTACGAAATTCACTATTCACATAAATAGTAACCTCACAGAAAAACT
390 GCCGACCAAATTTTACTATTCACAAAATTCACTATTCACATAAATAGTAA---CAC------ACT
97132 GAAAAAATTCAACACCAAAAGCT
446 GAAAAAA-TCAACACCAAAAGCT
* * * *
97155 CTTTCTCTACCATATCTCCGCTGTATCTTTTCCCAGTCTCCCCCACTATTGCCACTATTTCTGGG
1 CTTTCTCTACCATCTCTCCGCTGTACCTTTTCCCGGTCTCCCCCACTATTGCCACTATCTCTGGG
* * *
97220 CATGGGCCTGGACGACACATCGCTACTTGGCTTGTCACTTGCAAGCTCAGTTAGCTTCCCGTCTA
66 CATGGGCCTGGACGACACATCGCTACTTGGCTTGTCACTTGCAAGCTCAGTCAGCTTTCCGGCTA
*
97285 CAGCTATGGCCTCCGAAAGTCTCTGGGCATCACCTTGCTCTCCCCCGAGCATCGCCCCTAGTCTA
131 CAGCTATGGCCTCCAAAAGTCTCTGGGCATCACCTTGCTCTCCCCCGAGCATCGCCCCTAGTCTA
* * *
97350 AGTCCTTCTAAGAAGGTCTTGAGCGCACCCCATTCACTCATTGCTCCCTTGCATATGAGCAACTC
196 AGTCCTTCCAAGAAGGTCTTGAGCGCACCTCATTCACTCATTGCTCCCTTGCATATGAGCAGCTC
* * *
97415 CCTCTTGAGCTCATCCTCTTCGTTTCTCAAAGCCATCGCTCCCACTCGAATCTGGCTTCTTTTGG
261 CCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACTAGAATTTGGCTTCTTTTGG
* * *
97480 ATCGTTTCTAACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTCGATAAATTTGTATCG
326 ATCGTTTCTGACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTCGACAAATTCGTATCG
*
97545 CCGACTAAATTTTACTATTCACAAAATTCACTATT
391 CCGACCAAATTTTACTATTCACAAAATTCACTATT
97580 TATGTGAATA
Statistics
Matches: 805, Mismatches: 77, Indels: 23
0.89 0.09 0.03
Matches are distributed among these distances:
460 1 0.00
461 358 0.44
462 35 0.04
463 1 0.00
466 2 0.00
473 2 0.00
474 6 0.01
475 1 0.00
476 48 0.06
477 351 0.44
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (467 bp):
CTTTCTCTACCATCTCTCCGCTGTACCTTTTCCCGGTCTCCCCCACTATTGCCACTATCTCTGGG
CATGGGCCTGGACGACACATCGCTACTTGGCTTGTCACTTGCAAGCTCAGTCAGCTTTCCGGCTA
CAGCTATGGCCTCCAAAAGTCTCTGGGCATCACCTTGCTCTCCCCCGAGCATCGCCCCTAGTCTA
AGTCCTTCCAAGAAGGTCTTGAGCGCACCTCATTCACTCATTGCTCCCTTGCATATGAGCAGCTC
CCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACTAGAATTTGGCTTCTTTTGG
ATCGTTTCTGACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTCGACAAATTCGTATCG
CCGACCAAATTTTACTATTCACAAAATTCACTATTCACATAAATAGTAACACACTGAAAAAATCA
ACACCAAAAGCT
Found at i:97514 original size:477 final size:476
Alignment explanation
Indices: 96665--97634 Score: 1512
Period size: 477 Copynumber: 2.0 Consensus size: 476
96655 ACCTAAAAAA
* *
96665 CAACACCAAAAGCTCTTTCTCTACCATCTCTCCAGTGTACCTTTTCCCGGTCTCCCCACTATTGC
1 CAACACCAAAAGCTCTTTCTCTACCATATCTCCAGTGTACCTTTTCCCAGTCTCCCCACTATTGC
*
96730 TACTATCTCTGGGCATGGGCCTGGACGACACATCGCTACTTGGCATGTCACTTACAAGCTCAGTC
66 CACTATCTCTGGGCATGGGCCTGGACGACACATCGCTACTTGGCATGTCACTTACAAGCTCAGTC
* * *
96795 AGCTTTCTGGATATAGCTATGGCCTCCAAAAGTCTCTGGGAATCACCTTGCTCTCCCCCGAGCAT
131 AGCTTCCCGGATACAGCTATGGCCTCCAAAAGTCTCTGGGAATCACCTTGCTCTCCCCCGAGCAT
*
96860 CGCCCCTAGTCTAAGTCCCTCCAAGAAGGTCTTGAGCGCACCTCATTCACTCATTGCTACCTTGC
196 CGCCCCTAGTCTAAGTCCCTCCAAGAAGGTCTTGAGCGCACCCCATTCACTCATTGCTACCTTGC
* * * *
96925 ATATGGGCAGCTCCCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATTGCTCCCACTAGAATT
261 ATATGAGCAACTCCCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACTAGAATC
* * * * *
96990 TGGCTTCTTTTGGACCGTTTCTGATAATTCTTGCGAACCATCGTGTATTATAACACCTCCGTCGA
326 TGGCTTCTTTTGGACCGTTTCTAACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTCGA
* * * *
97055 CAAATTCGTATTGCCGACCAAATTTTACTATTTACGAAATTCACTATTCACATAAATAGTAACCT
391 CAAATTCGTATCGCCGACCAAATTTTACTATTCACAAAATTCACTATTCACATAAATAGTAACAT
97120 CACAGAAAAA-CTGAAAAAATT
456 CACAGAAAAATC-GAAAAAATT
*
97141 CAACACCAAAAGCTCTTTCTCTACCATATCTCC-GCTGTATCTTTTCCCAGTCTCCCCCACTATT
1 CAACACCAAAAGCTCTTTCTCTACCATATCTCCAG-TGTACCTTTTCCCAGTCT-CCCCACTATT
* * *
97205 GCCACTATTTCTGGGCATGGGCCTGGACGACACATCGCTACTTGGCTTGTCACTTGCAAGCTCAG
64 GCCACTATCTCTGGGCATGGGCCTGGACGACACATCGCTACTTGGCATGTCACTTACAAGCTCAG
* ** * *
97270 TTAGCTTCCCGTCTACAGCTATGGCCTCCGAAAGTCTCTGGGCATCACCTTGCTCTCCCCCGAGC
129 TCAGCTTCCCGGATACAGCTATGGCCTCCAAAAGTCTCTGGGAATCACCTTGCTCTCCCCCGAGC
* * *
97335 ATCGCCCCTAGTCTAAGTCCTTCTAAGAAGGTCTTGAGCGCACCCCATTCACTCATTGCTCCCTT
194 ATCGCCCCTAGTCTAAGTCCCTCCAAGAAGGTCTTGAGCGCACCCCATTCACTCATTGCTACCTT
* *
97400 GCATATGAGCAACTCCCTCTTGAGCTCATCCTCTTCGTTTCTCAAAGCCATCGCTCCCACTCGAA
259 GCATATGAGCAACTCCCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACTAGAA
*
97465 TCTGGCTTCTTTTGGATCGTTTCTAACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTC
324 TCTGGCTTCTTTTGGACCGTTTCTAACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTC
* * * * ** *
97530 GATAAATTTGTATCGCCGACTAAATTTTACTATTCACAAAATTCACTATTTATGTGAATAGTAAC
389 GACAAATTCGTATCGCCGACCAAATTTTACTATTCACAAAATTCACTATTCACATAAATAGTAAC
*
97595 ATCGCAGAAAAATCGAAAAAATT
454 ATCACAGAAAAATCGAAAAAATT
97618 CAACACCAAAAGCTCTT
1 CAACACCAAAAGCTCTT
97635 GAAACCAGTT
Statistics
Matches: 448, Mismatches: 43, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
475 1 0.00
476 48 0.11
477 398 0.89
478 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (476 bp):
CAACACCAAAAGCTCTTTCTCTACCATATCTCCAGTGTACCTTTTCCCAGTCTCCCCACTATTGC
CACTATCTCTGGGCATGGGCCTGGACGACACATCGCTACTTGGCATGTCACTTACAAGCTCAGTC
AGCTTCCCGGATACAGCTATGGCCTCCAAAAGTCTCTGGGAATCACCTTGCTCTCCCCCGAGCAT
CGCCCCTAGTCTAAGTCCCTCCAAGAAGGTCTTGAGCGCACCCCATTCACTCATTGCTACCTTGC
ATATGAGCAACTCCCTCTTGAGCTCATCCACTTCGTTTCTCAAAGCCATCGCTCCCACTAGAATC
TGGCTTCTTTTGGACCGTTTCTAACAATTCCTGCGAACCACCGTGTATTAGAACACCTCCGTCGA
CAAATTCGTATCGCCGACCAAATTTTACTATTCACAAAATTCACTATTCACATAAATAGTAACAT
CACAGAAAAATCGAAAAAATT
Found at i:98090 original size:14 final size:14
Alignment explanation
Indices: 98071--98098 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
98061 TTGGCCTATT
98071 TGCTTGACTTTTCA
1 TGCTTGACTTTTCA
98085 TGCTTGACTTTTCA
1 TGCTTGACTTTTCA
98099 ACAAATATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
TGCTTGACTTTTCA
Found at i:98635 original size:19 final size:19
Alignment explanation
Indices: 98609--98663 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
98599 CTTATATAAG
*
98609 TCTTAAAAAATATTAAAAT
1 TCTTAAAAAATATTAAAAA
* *
98628 TTTTAAAAAATA-AAAAAA
1 TCTTAAAAAATATTAAAAA
*
98646 TCTTAAAAAATTTTAAAA
1 TCTTAAAAAATATTAAAA
98664 GGGTAAACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
TCTTAAAAAATATTAAAAA
Found at i:98644 original size:18 final size:19
Alignment explanation
Indices: 98609--98656 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
98599 CTTATATAAG
* *
98609 TCTTAAAAAATATTAAAAT
1 TCTTAAAAAATATAAAAAA
*
98628 TTTTAAAAAATA-AAAAAA
1 TCTTAAAAAATATAAAAAA
98646 TCTTAAAAAAT
1 TCTTAAAAAAT
98657 TTTAAAAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TCTTAAAAAATATAAAAAA
Found at i:99964 original size:18 final size:18
Alignment explanation
Indices: 99921--99957 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
99911 ATTTGGGTTA
99921 GTGTGGGAGTGATTATAG
1 GTGTGGGAGTGATTATAG
99939 GTGTGGGAGTGATTATAG
1 GTGTGGGAGTGATTATAG
99957 G
1 G
99958 GATGGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (18 bp):
GTGTGGGAGTGATTATAG
Found at i:100399 original size:20 final size:20
Alignment explanation
Indices: 100357--100405 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
100347 ACATAAAAAT
*
100357 TATCAGTATTATTCTTATGG
1 TATCAATATTATTCTTATGG
* *
100377 TATCGATATTTTTCTTA-GAG
1 TATCAATATTATTCTTATG-G
100397 TATCAATAT
1 TATCAATAT
100406 CAAATGATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (20 bp):
TATCAATATTATTCTTATGG
Found at i:104859 original size:2 final size:2
Alignment explanation
Indices: 104852--104890 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
104842 AGTAATATTA
104852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104891 ACATTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105809 original size:3 final size:3
Alignment explanation
Indices: 105801--105841 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
105791 CATCTCGTTC
*
105801 TTA TTA TTA TTA -TA TGTA TTA TTA TTA TTA TTA ATA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT
105842 TTACATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:105849 original size:12 final size:12
Alignment explanation
Indices: 105801--105850 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
105791 CATCTCGTTC
*
105801 TTATTATTATTA
1 TTATTATTAATA
*
105813 -TATGTATTATTA
1 TTAT-TATTAATA
105825 TTATTATTAATA
1 TTATTATTAATA
105837 TTATT-TTACATA
1 TTATTATTA-ATA
105849 TT
1 TT
105851 TGGCAGGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 6 0.18
12 25 0.74
13 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:118804 original size:16 final size:17
Alignment explanation
Indices: 118785--118828 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
118775 ACAAAAAATG
*
118785 AAAAATGAAAG-AAAGA
1 AAAAATAAAAGAAAAGA
*
118801 AAAAAAAAAAGAAAAGA
1 AAAAATAAAAGAAAAGA
118818 AAAAATAAAAG
1 AAAAATAAAAG
118829 GAGGGTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAATAAAAGAAAAGA
Found at i:118828 original size:12 final size:12
Alignment explanation
Indices: 118786--118828 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
118776 CAAAAAATGA
118786 AAAATGAAAGAAAG
1 AAAA-GAAA-AAAG
*
118800 AAAAAAAAAAAG
1 AAAAGAAAAAAG
*
118812 AAAAGAAAAAAT
1 AAAAGAAAAAAG
118824 AAAAG
1 AAAAG
118829 GAGGGTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 19 0.73
13 3 0.12
14 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:119945 original size:48 final size:48
Alignment explanation
Indices: 119869--120486 Score: 706
Period size: 48 Copynumber: 13.3 Consensus size: 48
119859 CAAGATTTTC
*
119869 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* * * *
119917 AGATTTGATATTTCCTTTAGAGTAAGTGGAACAAG----TC-T-GCC-
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* * *
119958 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* *
120006 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
** *
120054 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* *
120102 AGATCTGATATTTCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* * *
120150 AGATTTGATATTCCCTTTAGAGTAAGTGGAACAAG----TC-T-GCC-
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* * *
120191 AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
** *
120239 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* * *
120287 AGATCTGATATTTCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* *
120335 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-T-ACC-
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* * *
120376 AGATCTGACATTCCCTTCAGAGTAAGTGGAACAGGTCTCT-TTTTCCA
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
* * ** * *
120423 TGATTTGATATTCCCTTCAGAAG-AAGCGGAACATATCTCTTTTTTCCA
1 AGATTTGATATTCCCTTCAG-AGTAAGTGGAACAGGTCTCTCTTCTCCA
* *
120471 AGGTTTGGTATTCCCT
1 AGATTTGATATTCCCT
120487 GTGACAGCGG
Statistics
Matches: 483, Mismatches: 64, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
41 93 0.19
42 6 0.01
43 3 0.01
44 6 0.01
45 6 0.01
46 4 0.01
47 33 0.07
48 332 0.69
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (48 bp):
AGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCA
Found at i:120202 original size:185 final size:185
Alignment explanation
Indices: 119869--120460 Score: 842
Period size: 185 Copynumber: 3.2 Consensus size: 185
119859 CAAGATTTTC
* ** * *
119869 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTTCCTT
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATATTTCCTT
* * * * * *
119934 TAGAGTAAGTGGAACAAG----TC-T-GCC-AGATCTGATATTCCCTTCAGAGTAAGCGGAACAG
66 CAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAA
* *
119992 GTCTCTCTTCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
131 G----TCTAC-C--AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
120054 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATATTTCCTT
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATATTTCCTT
*
120119 CAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTTAGAGTAAGTGGAACAA
66 CAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAA
*
120184 GTCTGCCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
131 GTCTACCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
120239 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATATTTCCTT
1 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATATTTCCTT
*
120304 CAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAA
66 CAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAA
* * * *
120369 GTCTACCAGATCTGACATTCCCTTCAGAGTAAGTGGAACAGGTCTCT-TTTTCCA
131 GTCTACCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
* * *
120423 TGATTTGATATTCCCTTCAGAAG-AAGCGGAACATATCT
1 AGATTTGATATTCCCTTCAG-AGTAAGTGGAACAAATCT
120461 CTTTTTTCCA
Statistics
Matches: 375, Mismatches: 24, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
184 37 0.10
185 297 0.79
187 1 0.00
188 4 0.01
189 2 0.01
190 1 0.00
191 2 0.01
192 31 0.08
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (185 bp):
AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATATTTCCTT
CAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAA
GTCTACCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAA
Found at i:120284 original size:233 final size:233
Alignment explanation
Indices: 119869--120372 Score: 873
Period size: 233 Copynumber: 2.2 Consensus size: 233
119859 CAAGATTTTC
*
119869 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTTCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTT
119934 TAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTC
66 TAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTC
** * *
119999 TTCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATA
131 TTCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTATCTTCTCAAAGATCTGATA
*
120064 TTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCA
196 TTCCCTTCAGAGTAAGCGGAACAAATCTATCTTCTCCA
*
120102 AGATCTGATATTTCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTT
120167 TAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTC
66 TAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTC
* *
120232 TTCTCAAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTATCTTCTCCAAGATCTGATA
131 TTCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTATCTTCTCAAAGATCTGATA
* ** *
120297 TTTCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCA
196 TTCCCTTCAGAGTAAGCGGAACAAATCTATCTTCTCCA
* *
120335 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCT
1 AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCT
120373 ACCAGATCTG
Statistics
Matches: 255, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
233 255 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (233 bp):
AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTT
TAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTC
TTCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTATCTTCTCAAAGATCTGATA
TTCCCTTCAGAGTAAGCGGAACAAATCTATCTTCTCCA
Found at i:120730 original size:3 final size:3
Alignment explanation
Indices: 120722--120759 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
120712 CATCTCGTTC
*
120722 TTA TTA TTA TTA -TA TGTA TTA TTA TTA TTA ATA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
120760 TTACATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:121992 original size:18 final size:16
Alignment explanation
Indices: 121971--122011 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
121961 TGTTTTAGTC
121971 TTATTTTTATTTTTATGT
1 TTATTTTT-TTTTT-TGT
121989 TTATTTTTTTTTTTGT
1 TTATTTTTTTTTTTGT
*
122005 GTATTTT
1 TTATTTT
122012 GCATTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (16 bp):
TTATTTTTTTTTTTGT
Found at i:130994 original size:136 final size:135
Alignment explanation
Indices: 130621--131111 Score: 770
Period size: 136 Copynumber: 3.6 Consensus size: 135
130611 TTGTTAGATT
* * * *
130621 GAACAAGTTCTTCGCATTATGAACTTCTTCTCTCT-TTTGGATGAGTTTTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
** * * * *
130685 TTTACTGAAAATGTTGATCCCTCAAGCGAGGCGTCCCTGACTCGAAATG-CTATGAATCGAGTGA
66 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTC-ATGAATCGAGTGA
130749 TAGGTC
130 TAGGTC
*
130755 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
*
130820 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGAT
66 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
130885 AGGTC
131 AGGTC
*
130890 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTT-GGATGAGTTCTTCTCATTATGAACT
* ** *
130955 CTCCATTGGAAATGTCAATTCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGA
65 CTCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGA
131020 TAGGTC
130 TAGGTC
*
131026 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT-TTGGATGAGTTCTTCTCATTATGAACT
*
131091 CTCCATTGAAAATGCTGATCC
65 CTCCATTGAAAATGTTGATCC
131112 ACCTCTTTTT
Statistics
Matches: 327, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
134 32 0.10
135 125 0.38
136 169 0.52
137 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
AGGTC
Done.