Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000991.1 Hibiscus syriacus cultivar Beakdansim tig00001985_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: 218077
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:125 original size:15 final size:16
Alignment explanation
Indices: 107--137 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
97 TTTAAAACAA
107 TTTTAAGA-AAAAATT
1 TTTTAAGACAAAAATT
122 TTTTAAGACAAAAATT
1 TTTTAAGACAAAAATT
138 GATATGCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTTAAGACAAAAATT
Found at i:2325 original size:46 final size:46
Alignment explanation
Indices: 2272--2425 Score: 150
Period size: 46 Copynumber: 3.3 Consensus size: 46
2262 CTTGGATTAC
*
2272 TCCACTACTCTTTCGTGAAGTTCTCATACTTTGCTGAAAAATCTGT
1 TCCACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAATCTGT
* * **** *
2318 TCCACTACTCTTCCGTGGAGTTCGCAT--TTTGATCTGACCTTTGCTTT
1 TCCACTACTCTTCCGTGAAGTTCTCATACTTTG--CTGAAAAAT-CTGT
* *
2365 TGCTTCATTACTCTTCCGTGAAGTTTTCATACTTTGCTGAAAAATCTGT
1 T-C--CACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAATCTGT
2414 TCCACTACTCTT
1 TCCACTACTCTT
2426 TTGTGGAGTT
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
44 4 0.05
46 38 0.46
47 4 0.05
48 2 0.02
49 4 0.05
50 26 0.32
52 4 0.05
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (46 bp):
TCCACTACTCTTCCGTGAAGTTCTCATACTTTGCTGAAAAATCTGT
Found at i:3152 original size:22 final size:22
Alignment explanation
Indices: 3127--3197 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
3117 GGTAAAACTC
*
3127 TCATATTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
3149 TCATCTTTGAAAAAAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
3171 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
3193 TCATC
1 TCATC
3198 ATTACAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:10662 original size:21 final size:21
Alignment explanation
Indices: 10633--10672 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10623 CTTGCATCTG
*
10633 AATCTGGCCTGTGTGCCTTGT
1 AATCGGGCCTGTGTGCCTTGT
10654 AATCGGGCCTGTGTGCCTT
1 AATCGGGCCTGTGTGCCTT
10673 ACTTTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.25, G:0.30, T:0.35
Consensus pattern (21 bp):
AATCGGGCCTGTGTGCCTTGT
Found at i:11899 original size:21 final size:21
Alignment explanation
Indices: 11858--11900 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11848 ATATGTTAGG
*
11858 ATTTGATATGATTTTTATTTT
1 ATTTGATATGATGTTTATTTT
* *
11879 ATTTGATTTGATGGTTTTTTTT
1 ATTTGATATGAT-GTTTATTTT
11901 CTGGAATAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (21 bp):
ATTTGATATGATGTTTATTTT
Found at i:12121 original size:3 final size:3
Alignment explanation
Indices: 12115--12175 Score: 56
Period size: 3 Copynumber: 21.3 Consensus size: 3
12105 TGACCTACAA
* * * *
12115 AAT AAT AAA AAT AAT TA- AAT AAT TA- AAT ATT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
12160 AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
12176 GTAAACAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12970 original size:29 final size:29
Alignment explanation
Indices: 12928--12985 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
12918 TTGATGAAAG
*
12928 ACATTGAATATGGTGATGATCTTACTCTT
1 ACATTGAATATGGTGACGATCTTACTCTT
*
12957 ACATTGAATCTGGTGACGATCTTACTCTT
1 ACATTGAATATGGTGACGATCTTACTCTT
12986 TCCTCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (29 bp):
ACATTGAATATGGTGACGATCTTACTCTT
Found at i:13247 original size:123 final size:123
Alignment explanation
Indices: 12961--13457 Score: 496
Period size: 123 Copynumber: 4.0 Consensus size: 123
12951 ACTCTTACAT
** * * * ** * * *
12961 TGAATCTGGTGACGATCTTACTCTTTCCTCTAAAAGA-TATAGAGTCGTGGGACGATCTTTCTCA
1 TGAATCTGGTGAAAAACTCACTCTTTCCTCTGAAAGACGCT-GAGTCGTAGAACGATCTTACTCA
* ** * * * *
13025 TTCCTCTTAAGGACGCTAAGTCATAATTGGTAGGTGATCCACTCCTTTTACTGAAGGATAT
65 TTCCTCTAAAGGATACTAAGTCGTAATTGG--GGTGATCCACTCCTTTTACTAAAGGACAC
* * * * * * *
13086 TAAATCTGGT-AACGATCTCATTCTTTCCTCTGAAAGACGCAGAGTCATAAAACGATCTTACTCA
1 TGAATCTGGTGAA-AAACTCACTCTTTCCTCTGAAAGACGCTGAGTCGTAGAACGATCTTACTCA
* * * * *
13150 TTCCTCTTAAGGATGCTAATTCGTAATTGGGGTGATCCACTCCTTTTGCTAAAGGACGC
65 TTCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTACTAAAGGACAC
* * * *
13209 TGAATCTAGTGAAAAACTCACTCTTTCCTCTGAAAGACGTTGAATTGTAGAACGATCTTACTCAT
1 TGAATCTGGTGAAAAACTCACTCTTTCCTCTGAAAGACGCTGAGTCGTAGAACGATCTTACTCAT
* * *
13274 TCCTCTAAAGGATACTAAGTCTTAATTGGGGTGATCCACTCTTTTTTCTAAAGGACAC
66 TCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTACTAAAGGACAC
* * * * ** * *
13332 TGAATCTGGTGATAATA-TCACCCTTTCATCTGAAAGACACTGAGTCGTAGAATAATCTTAATCC
1 TGAATCTGGTGA-AAAACTCACTCTTTCCTCTGAAAGACGCTGAGTCGTAGAACGATCTTACTCA
* * * *
13396 TTCTTCTAAAGGATACTAACTTGTAATTGGGGTGATCCACTCCTTTTACTAAAGGACGC
65 TTCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTACTAAAGGACAC
13455 TGA
1 TGA
13458 GCCGTGGAAC
Statistics
Matches: 310, Mismatches: 58, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
123 229 0.74
124 6 0.02
125 75 0.24
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (123 bp):
TGAATCTGGTGAAAAACTCACTCTTTCCTCTGAAAGACGCTGAGTCGTAGAACGATCTTACTCAT
TCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTACTAAAGGACAC
Found at i:13439 original size:246 final size:247
Alignment explanation
Indices: 13012--13457 Score: 590
Period size: 246 Copynumber: 1.8 Consensus size: 247
13002 GAGTCGTGGG
* * *
13012 ACGATCTTTCTCATTCCTCTTAAGGACGCTAAGTCATAATTGGTAGGTGATCCACTCCTTTTACT
1 ACGATCTTACTCATTCCTCTAAAGGACACTAAGTCATAATTGG-AGGTGATCCACTCCTTTTACT
* * * * * ** * * *
13077 GAAGGATATTAAATCTGGTAACGATCTCATTCTTTCCTCTGAAAGACGCAGAGTCATAAAACGAT
65 AAAGGACACTAAATCTGGTAACAATATCACCCTTTCATCTGAAAGACACAGAGTCATAAAACAAT
* * * *
13142 CTTACTCATTCCTCTTAAGGATGCTAATTCGTAATTGGGGTGATCCACTCCTTTTGCTAAAGGAC
130 CTTAATCATTCCTCTAAAGGATACTAATTCGTAATTGGGGTGATCCACTCCTTTTACTAAAGGAC
13207 GCTGAATCTAGTGAAAAACTCACTCTTTCCTCTGAAAGACGTTGAATTGTAGA
195 GCTGAATCTAGTGAAAAACTCACTCTTTCCTCTGAAAGACGTTGAATTGTAGA
* * * *
13260 ACGATCTTACTCATTCCTCTAAAGGATACTAAGTCTTAATTGG-GGTGATCCACTCTTTTTTCTA
1 ACGATCTTACTCATTCCTCTAAAGGACACTAAGTCATAATTGGAGGTGATCCACTCCTTTTACTA
* * * * * * *
13324 AAGGACACTGAATCTGGTGATAATATCACCCTTTCATCTGAAAGACACTGAGTCGTAGAATAATC
66 AAGGACACTAAATCTGGTAACAATATCACCCTTTCATCTGAAAGACACAGAGTCATAAAACAATC
* *
13389 TTAATCCTTCTTCTAAAGGATACTAACTT-GTAATTGGGGTGATCCACTCCTTTTACTAAAGGAC
131 TTAATCATTCCTCTAAAGGATACTAA-TTCGTAATTGGGGTGATCCACTCCTTTTACTAAAGGAC
13453 GCTGA
195 GCTGA
13458 GCCGTGGAAC
Statistics
Matches: 167, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
246 127 0.76
247 2 0.01
248 38 0.23
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (247 bp):
ACGATCTTACTCATTCCTCTAAAGGACACTAAGTCATAATTGGAGGTGATCCACTCCTTTTACTA
AAGGACACTAAATCTGGTAACAATATCACCCTTTCATCTGAAAGACACAGAGTCATAAAACAATC
TTAATCATTCCTCTAAAGGATACTAATTCGTAATTGGGGTGATCCACTCCTTTTACTAAAGGACG
CTGAATCTAGTGAAAAACTCACTCTTTCCTCTGAAAGACGTTGAATTGTAGA
Found at i:14397 original size:25 final size:25
Alignment explanation
Indices: 14364--14431 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
14354 ATATCAATGT
*
14364 AGAATTTTTGAAAAATGTTTGATGAA
1 AGAA-TTTTGAAAAATGTTTGATAAA
*
14390 AGAATTTTGAAAAATATTTGATAAA
1 AGAATTTTGAAAAATGTTTGATAAA
14415 AGAATTTT-AAAAATGTT
1 AGAATTTTGAAAAATGTT
14432 GCCCTTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 8 0.21
25 27 0.69
26 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (25 bp):
AGAATTTTGAAAAATGTTTGATAAA
Found at i:19043 original size:84 final size:86
Alignment explanation
Indices: 18941--19111 Score: 301
Period size: 86 Copynumber: 2.0 Consensus size: 86
18931 AATAAATGCG
*
18941 CGAACAATCCTAAGGGCTAAAGTAAAA-TTAGAAC-GGGACCAGAATATTATAATTCAAGGAAAG
1 CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGACCAAAATATTATAATTCAAGGAAAG
*
19004 GAGGCCAAATCAAGATTTAAT
66 GAGGCCAAATCAAAATTTAAT
*
19025 CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGATCAAAATATTATAATTCAAGGAAAG
1 CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGACCAAAATATTATAATTCAAGGAAAG
19090 GAGGCCAAATCAAAATTTAAT
66 GAGGCCAAATCAAAATTTAAT
19111 C
1 C
19112 AAAACTAGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
84 27 0.33
85 7 0.09
86 48 0.59
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (86 bp):
CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGACCAAAATATTATAATTCAAGGAAAG
GAGGCCAAATCAAAATTTAAT
Found at i:20006 original size:17 final size:17
Alignment explanation
Indices: 19971--20007 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19961 AAAAGTTAAT
*
19971 TTTTTTGTTTGGTTCTG
1 TTTTTTGTTTGATTCTG
*
19988 TTTTTTGTTTGATTTTG
1 TTTTTTGTTTGATTCTG
20005 TTT
1 TTT
20008 GGGTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.03, G:0.19, T:0.76
Consensus pattern (17 bp):
TTTTTTGTTTGATTCTG
Found at i:40620 original size:82 final size:83
Alignment explanation
Indices: 40534--40685 Score: 218
Period size: 82 Copynumber: 1.8 Consensus size: 83
40524 AATTTTTTAA
* * ** * *
40534 AAAACGCCGTAATATAGT-GGTAAATTAGCGGTGTTTATATCACAAACGCCGCAATAGATTA-AC
1 AAAACGCCGTAATAGA-TCGATAAATTAGCGACGTTTATACCACAAACACCGCAATAGATTACAC
40597 ATATAGCGCCGTTTTAGCC
65 ATATAGCGCCGTTTTAGCC
*
40616 AAAACGCCGTAATAGATCGATAAATTAGCGACGTTTATACCACAAATACCGCAATAGATTACACA
1 AAAACGCCGTAATAGATCGATAAATTAGCGACGTTTATACCACAAACACCGCAATAGATTACACA
40681 TATAG
66 TATAG
40686 TGGCATTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 1 0.02
82 52 0.85
83 8 0.13
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (83 bp):
AAAACGCCGTAATAGATCGATAAATTAGCGACGTTTATACCACAAACACCGCAATAGATTACACA
TATAGCGCCGTTTTAGCC
Found at i:40624 original size:40 final size:41
Alignment explanation
Indices: 40566--40685 Score: 122
Period size: 41 Copynumber: 2.9 Consensus size: 41
40556 AATTAGCGGT
* *
40566 GTTTATATCACAAACGCCGCAATAGATTAACATATAGCGCC
1 GTTTATACCACAAACGCCGCAATAGATTAACATATAGCGAC
*
40607 GTTT-TAGCCA-AAACGCCGTAATAGATCGATAA-AT-TAGCGAC
1 GTTTATA-CCACAAACGCCGCAATAGAT---TAACATATAGCGAC
**
40648 GTTTATACCACAAATACCGCAATAGATTACACATATAG
1 GTTTATACCACAAACGCCGCAATAGATTA-ACATATAG
40686 TGGCATTTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
39 2 0.03
40 18 0.28
41 21 0.33
42 20 0.31
43 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (41 bp):
GTTTATACCACAAACGCCGCAATAGATTAACATATAGCGAC
Found at i:40720 original size:82 final size:80
Alignment explanation
Indices: 40547--40720 Score: 179
Period size: 82 Copynumber: 2.1 Consensus size: 80
40537 ACGCCGTAAT
* ** * * *
40547 ATAGTGGTAAATTAGCGGTGTTTATATCACAAACGCCGCAATAGATTAACATATAGCGCCGTTTT
1 ATAGTGATAAATTAGCGACGTTTATACCACAAACACCGCAATAGATTAACATATAGCGCCATTTT
*
40612 AGCCAAAACGCCGTA
66 AGCCAAAACGCCGCA
* * *
40627 ATAGATCGATAAATTAGCGACGTTTATACCACAAATACCGCAATAGATTACACATATAGTGGCA-
1 ATAG-T-GATAAATTAGCGACGTTTATACCACAAACACCGCAATAGATTA-ACATATAGCGCCAT
* * *
40691 TTTATTCTTAAAACGCTGCA
63 TTTA-GC-CAAAACGCCGCA
40711 ATAGTGATAA
1 ATAGTGATAA
40721 TAAATAGTGG
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
80 4 0.05
81 1 0.01
82 46 0.61
83 12 0.16
84 13 0.17
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (80 bp):
ATAGTGATAAATTAGCGACGTTTATACCACAAACACCGCAATAGATTAACATATAGCGCCATTTT
AGCCAAAACGCCGCA
Found at i:40757 original size:41 final size:41
Alignment explanation
Indices: 40701--40859 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
40691 TTTATTCTTA
* * * *
40701 AAACGCTGCAATAGTGATAATAAATAGTGGCATTTTTAGAC
1 AAACGCCGTAATAGTGTTAATCAATAGTGGCATTTTTAGAC
* * *
40742 AAACGTCGTAATAGTGTTAATCAATAGTGGCGTTTTTAGAA
1 AAACGCCGTAATAGTGTTAATCAATAGTGGCATTTTTAGAC
* *
40783 AAATGCCGTAATAGTTTTAATCAATAGTGGCATTTTTTA-AC
1 AAACGCCGTAATAGTGTTAATCAATAGTGGCA-TTTTTAGAC
*
40824 AAACGCCATAATAGTG-TAATCAATAGTGGCATTTTT
1 AAACGCCGTAATAGTGTTAATCAATAGTGGCATTTTT
40860 TGTATAAACG
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
39 5 0.05
40 15 0.15
41 76 0.75
42 6 0.06
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (41 bp):
AAACGCCGTAATAGTGTTAATCAATAGTGGCATTTTTAGAC
Found at i:40860 original size:41 final size:41
Alignment explanation
Indices: 40682--40860 Score: 186
Period size: 41 Copynumber: 4.4 Consensus size: 41
40672 GATTACACAT
* * * *
40682 ATAGTGGCATTTATTCTTA-AAACGCTGCAATAGTGATAATAA
1 ATAGTGGCATTT-TT-TAACAAACGCCGTAATAGTGATAATCA
* *
40724 ATAGTGGCA-TTTTTAGACAAACGTCGTAATAGTGTTAATCA
1 ATAGTGGCATTTTTTA-ACAAACGCCGTAATAGTGATAATCA
* * * **
40765 ATAGTGGC-GTTTTTAGAAAAATGCCGTAATAGTTTTAATCA
1 ATAGTGGCATTTTTTA-ACAAACGCCGTAATAGTGATAATCA
*
40806 ATAGTGGCATTTTTTAACAAACGCCATAATAGTG-TAATCA
1 ATAGTGGCATTTTTTAACAAACGCCGTAATAGTGATAATCA
40846 ATAGTGGCATTTTTT
1 ATAGTGGCATTTTTT
40861 GTATAAACGC
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 24 0.20
41 78 0.66
42 15 0.13
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (41 bp):
ATAGTGGCATTTTTTAACAAACGCCGTAATAGTGATAATCA
Found at i:40892 original size:82 final size:81
Alignment explanation
Indices: 40723--40892 Score: 193
Period size: 82 Copynumber: 2.1 Consensus size: 81
40713 AGTGATAATA
* * * *
40723 AATAGTGGCATTTTTAGACAAACGTCGTAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAATG
1 AATAGTGGCATTTTTAGACAAACGCCATAATAGTGTTAATCAATAGTGGCATTTTTAGAAAAACG
* * *
40788 CCGTAATAGTTTTAAT
66 CCGCAAAAGTTTAAAT
* *
40804 CAATAGTGGCATTTTTTA-ACAAACGCCATAATAGTG-TAATCAATAGTGGCATTTTTTGTATAA
1 -AATAGTGGCA-TTTTTAGACAAACGCCATAATAGTGTTAATCAATAGTGGCATTTTTAG-AAAA
40867 ACGCCGCAAAA-TGTTAAAT
63 ACGCCGCAAAAGT-TTAAAT
40886 ATATAGT
1 A-ATAGT
40893 CCTCCTTTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
81 22 0.29
82 47 0.63
83 6 0.08
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (81 bp):
AATAGTGGCATTTTTAGACAAACGCCATAATAGTGTTAATCAATAGTGGCATTTTTAGAAAAACG
CCGCAAAAGTTTAAAT
Found at i:42201 original size:43 final size:43
Alignment explanation
Indices: 42108--42205 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
42098 TAAAAGGTAA
* * * *
42108 TTAGCGGCGTTTGTATCCAGAAACGCCGCTATAGATCTGACAT
1 TTAGTGGCGTTTGTATCCAAAAACGCCGCTAAAGATATGACAT
* *
42151 TTTGTGGCGTTTGTATCTAAAAACGCCGCTAAAGAGTAAT-AC-T
1 TTAGTGGCGTTTGTATCCAAAAACGCCGCTAAAGA-T-ATGACAT
42194 TTAGTGGCGTTT
1 TTAGTGGCGTTT
42206 TTGAAACAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 42 0.91
44 3 0.07
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TTAGTGGCGTTTGTATCCAAAAACGCCGCTAAAGATATGACAT
Found at i:42317 original size:41 final size:41
Alignment explanation
Indices: 42283--42490 Score: 168
Period size: 41 Copynumber: 5.0 Consensus size: 41
42273 CTATAGGTAT
42283 GTACTTTAGTGGCGTTTTTATACAAACGCTGCTATATACTA
1 GTACTTTAGTGGCGTTTTTATACAAACGCTGCTATATACTA
* * *
42324 GTACTTTAGTGGCGTTTCTATATAAACGTTGCTATATACTCA
1 GTACTTTAGTGGCGTTTTTATACAAACGCTGCTATATACT-A
* * * ** * *
42366 -TACTTTAGTGGCGTTTTGAATCCAAATGCCACTATAAACTC
1 GTACTTTAGTGGCGTTTT-TATACAAACGCTGCTATATACTA
* * * * * *
42407 GTACTTTAGTGGCATTTTGAATGA-AAACGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTTT-TAT-ACAAACGCTGCTATATACTA
** * * * *
42449 GTACTTTAGCAGCATTTTTATATAAACGCCGCTATAGACTA
1 GTACTTTAGTGGCGTTTTTATACAAACGCTGCTATATACTA
42490 G
1 G
42491 AACACCGCTA
Statistics
Matches: 138, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 72 0.52
42 65 0.47
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCTGCTATATACTA
Found at i:42414 original size:42 final size:42
Alignment explanation
Indices: 42355--42466 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
42345 ATAAACGTTG
* * * * *
42355 CTATATACTCATACTTTAGTGGCGTTTTGAATCCAAATGCCA
1 CTATAAACTCGTACTTTAGTGGCATTTTGAATCAAAACGCCA
* *
42397 CTATAAACTCGTACTTTAGTGGCATTTTGAATGAAAACGCCG
1 CTATAAACTCGTACTTTAGTGGCATTTTGAATCAAAACGCCA
**
42439 CTA-AAGACTCGTACTTTAGCAGCATTTT
1 CTATAA-ACTCGTACTTTAGTGGCATTTT
42467 TATATAAACG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 2 0.03
42 58 0.97
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (42 bp):
CTATAAACTCGTACTTTAGTGGCATTTTGAATCAAAACGCCA
Found at i:42711 original size:41 final size:41
Alignment explanation
Indices: 42666--42786 Score: 120
Period size: 41 Copynumber: 3.0 Consensus size: 41
42656 TTTGTAGCTT
*
42666 TTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGGCG
1 TTTTTATACAAACGCCGCAATAGGGTTAATCTATAGTGGCG
* * * * * * *
42707 TTTTTCA-ACAAACGTCGTAATAGAG-TAGTACTTTAGCGGTG
1 TTTTT-ATACAAACGCCGCAATAGGGTTAAT-CTATAGTGGCG
* *
42748 TTTTTATACAAATGCCGCAATAGGGTTCATCTATAGTGG
1 TTTTTATACAAACGCCGCAATAGGGTTAATCTATAGTGG
42787 TACTTTTAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
40 4 0.07
41 53 0.88
42 3 0.05
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (41 bp):
TTTTTATACAAACGCCGCAATAGGGTTAATCTATAGTGGCG
Found at i:42731 original size:82 final size:81
Alignment explanation
Indices: 42642--42827 Score: 232
Period size: 82 Copynumber: 2.3 Consensus size: 81
42632 AACTCTAATT
* *
42642 CAATAGAGTAGTCATTTGTAGC-TTTTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGG-
1 CAATAGAGTAGT-ACTT-TAGCGTGTTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGGA
** *
42705 CGTTTTTCAACAAACGTCG
64 C-TTTTAAAAAAAACGTCG
* ** *
42724 TAATAGAGTAGTACTTTAGCGGTGTTTTTATACAAATGCCGCAATAGGGTTCATCTATAGTGGTA
1 CAATAGAGTAGTACTTTAGC-GTGTTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGG-A
42789 CTTTTAAAAAAAACGTCG
64 CTTTTAAAAAAAACGTCG
42807 CAATAGAGTAGTACTTTAGCG
1 CAATAGAGTAGTACTTTAGCG
42828 GCGTTTATAG
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
80 4 0.04
81 3 0.03
82 49 0.54
83 33 0.37
84 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (81 bp):
CAATAGAGTAGTACTTTAGCGTGTTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGGACT
TTTAAAAAAAACGTCG
Found at i:42824 original size:83 final size:82
Alignment explanation
Indices: 42666--42833 Score: 239
Period size: 83 Copynumber: 2.0 Consensus size: 82
42656 TTTGTAGCTT
** * *
42666 TTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGGCGTTTTTCAACAAACGTCGTAATAGA
1 TTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGGCGTTTTAAAAAAAACGTCGCAATAGA
*
42731 GTAGTACTTTAGCGGTG
66 GTAGTACTTTAGCGGCG
** *
42748 TTTTTATACAAATGCCGCAATAGGGTTCATCTATAGTGGTAC-TTTTAAAAAAAACGTCGCAATA
1 TTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGG--CGTTTTAAAAAAAACGTCGCAATA
42812 GAGTAGTACTTTAGCGGCG
64 GAGTAGTACTTTAGCGGCG
42831 TTT
1 TTT
42834 ATAGAAAAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
82 36 0.47
83 39 0.51
84 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (82 bp):
TTTTTATACAAACACCGCAATAGGGTTAATCTATAGTGGCGTTTTAAAAAAAACGTCGCAATAGA
GTAGTACTTTAGCGGCG
Found at i:47793 original size:2 final size:2
Alignment explanation
Indices: 47775--47844 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
47765 ACACTATAAT
*
47775 TA TA T- TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47816 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 T
47845 GTGTGTGTGT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48023 original size:2 final size:2
Alignment explanation
Indices: 48018--48155 Score: 56
Period size: 2 Copynumber: 68.5 Consensus size: 2
48008 TAAAAGTATG
** * *
48018 TA TA TA TA GG TA TA TA TA TA AA TA TA TA TA -A GTA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * *
48061 -A TA TA TA -A GTA TA TG TA TA CA TA -A GTA TA TA -A GTG TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * *
48100 CA TA -A GTA TA TA -A GTG TA TA TA TA TA TA TA TA TGA TG TA TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA
*
48141 TA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA T
48156 CATTAAACAT
Statistics
Matches: 99, Mismatches: 22, Indels: 30
0.66 0.15 0.20
Matches are distributed among these distances:
1 7 0.07
2 85 0.86
3 7 0.07
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (2 bp):
TA
Found at i:48023 original size:14 final size:14
Alignment explanation
Indices: 48003--48091 Score: 67
Period size: 14 Copynumber: 6.2 Consensus size: 14
47993 ATACACGCAC
48003 ATATATAAAAGTAT
1 ATATATAAAAGTAT
* * *
48017 GTATATATAGGTAT
1 ATATATAAAAGTAT
48031 ATATAT-AAA-TAT
1 ATATATAAAAGTAT
48043 ATATAAGTATAAAGTAT
1 ATAT-A-TA-AAAGTAT
*
48060 A-ATATATAAGTAT
1 ATATATAAAAGTAT
*
48073 ATGTATACATAAGTAT
1 ATATATA-A-AAGTAT
48089 ATA
1 ATA
48092 AGTGTATACA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
12 7 0.12
13 9 0.16
14 23 0.40
15 1 0.02
16 13 0.23
17 4 0.07
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (14 bp):
ATATATAAAAGTAT
Found at i:48037 original size:16 final size:15
Alignment explanation
Indices: 48018--48155 Score: 71
Period size: 14 Copynumber: 9.5 Consensus size: 15
48008 TAAAAGTATG
48018 TATATATAGGTATATA
1 TATATATA-GTATATA
*
48034 TATAAATA-TATATA
1 TATATATAGTATATA
*
48048 -AGTATAAAGTATA-A
1 TA-TATATAGTATATA
*
48062 TATATA-AGTATATG
1 TATATATAGTATATA
*
48076 TATACATAAGTATATA
1 TATATAT-AGTATATA
* *
48092 -AGTGTATA-CATA-A
1 TA-TATATAGTATATA
*
48105 GTATATA-AGTGTATA
1 -TATATATAGTATATA
48120 TATATATA-TATATGA
1 TATATATAGTATAT-A
* *
48135 TGTATATA-TATACA
1 TATATATAGTATATA
48149 TATATAT
1 TATATAT
48156 CATTAAACAT
Statistics
Matches: 93, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
13 9 0.10
14 45 0.48
15 22 0.24
16 17 0.18
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (15 bp):
TATATATAGTATATA
Found at i:48044 original size:20 final size:20
Alignment explanation
Indices: 48019--48154 Score: 94
Period size: 22 Copynumber: 6.3 Consensus size: 20
48009 AAAAGTATGT
*
48019 ATATATAGGTATATATATAAA
1 ATATATAAGTATATATAT-AA
*
48040 TATATATAAGTATAAAGTAT-A
1 -ATATATAAGTATATA-TATAA
48061 ATATATAAGTATATGTATACATAA
1 ATATATAAGTATA--TAT--ATAA
* * *
48085 GTATATAAGTGTATACATAA
1 ATATATAAGTATATATATAA
* *
48105 GTATATAAGTGTATATATATAT
1 ATATATAA--GTATATATATAA
* *
48127 ATATATGATGTATATATATAC
1 ATATAT-AAGTATATATATAA
48148 ATATATA
1 ATATATA
48155 TCATTAAACA
Statistics
Matches: 93, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
20 26 0.28
21 19 0.20
22 30 0.32
23 6 0.06
24 12 0.13
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
ATATATAAGTATATATATAA
Found at i:48085 original size:36 final size:36
Alignment explanation
Indices: 48040--48110 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
48030 TATATATAAA
* *
48040 TATATATAAGTATA-AAGTATAATATATAAGTATATG
1 TATACATAAGTATATAAGTAT-ATACATAAGTATATG
*
48076 TATACATAAGTATATAAGTGTATACATAAGTATAT
1 TATACATAAGTATATAAGTATATACATAAGTATAT
48111 AAGTGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 26 0.84
37 5 0.16
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (36 bp):
TATACATAAGTATATAAGTATATACATAAGTATATG
Found at i:48776 original size:23 final size:23
Alignment explanation
Indices: 48743--48786 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48733 CTTTTATATA
48743 TATATTAAAATT-TTAAGTTAAAT
1 TATATTAAAATTATTAA-TTAAAT
*
48766 TATATTTAAATTATTAATTAA
1 TATATTAAAATTATTAATTAA
48787 TACATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATTAAAATTATTAATTAAAT
Found at i:49959 original size:2 final size:2
Alignment explanation
Indices: 49952--49992 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
49942 GTAATTATTA
49952 AT 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 AT A
49993 CGGATAAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57699 original size:19 final size:19
Alignment explanation
Indices: 57677--57721 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
57667 GGGGTATCGA
*
57677 TTCCCCTGTGGGGAATCAG
1 TTCCCCTGGGGGGAATCAG
57696 TTCCCCTGGGGGGAATCAG
1 TTCCCCTGGGGGGAATCAG
57715 TTCCCCT
1 TTCCCCT
57722 TCAAAGGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.31, G:0.29, T:0.27
Consensus pattern (19 bp):
TTCCCCTGGGGGGAATCAG
Found at i:57734 original size:23 final size:22
Alignment explanation
Indices: 57686--57752 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 22
57676 ATTCCCCTGT
*
57686 GGGGAATCAGTTCCCC-T--GG
1 GGGGAATCAGTTCCCCTTCAAG
57705 GGGGAATCAGTTCCCCTTCAAAG
1 GGGGAATCAGTTCCCCTTC-AAG
*
57728 GGGGAATCGGTTCCCCTTCAAG
1 GGGGAATCAGTTCCCCTTCAAG
57750 GGG
1 GGG
57753 TATCGATTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
19 16 0.38
20 1 0.02
22 6 0.14
23 19 0.45
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.21
Consensus pattern (22 bp):
GGGGAATCAGTTCCCCTTCAAG
Found at i:58865 original size:23 final size:23
Alignment explanation
Indices: 58833--58889 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
58823 TATATAAATG
58833 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACGTAGAATTA
* * *
58856 CACCGTAGTGCCGCGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTA
*
58879 CATCGAAGTGC
1 CACCGAAGTGC
58890 TATATAAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTA
Found at i:60595 original size:21 final size:21
Alignment explanation
Indices: 60571--60614 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
60561 TTTTTGTTCG
* *
60571 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
60592 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
60613 CT
1 CT
60615 AGCCCAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:63994 original size:23 final size:23
Alignment explanation
Indices: 63962--64018 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
63952 CATATAAATG
63962 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACGTAGAATTA
* * *
63985 CACCGTAGTGCCGCGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTA
64008 CACCGAAGTGC
1 CACCGAAGTGC
64019 TATATAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTA
Found at i:65246 original size:20 final size:19
Alignment explanation
Indices: 65223--65261 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
65213 TCTTTTATAT
65223 TCATATAATTTATTATCATA
1 TCATATAATTTA-TATCATA
**
65243 TCATATGGTTTATATCATA
1 TCATATAATTTATATCATA
65262 ATAACATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
TCATATAATTTATATCATA
Found at i:65725 original size:21 final size:21
Alignment explanation
Indices: 65701--65744 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
65691 AATTTGTTCG
*
65701 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTATCGATTCCC
* *
65722 CTTGAATGGGTATTGATTCCC
1 CTTGAAGGGGTATCGATTCCC
65743 CT
1 CT
65745 AGCCCAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (21 bp):
CTTGAAGGGGTATCGATTCCC
Found at i:73918 original size:2 final size:2
Alignment explanation
Indices: 73911--73960 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
73901 CCCAACAAAA
73911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73953 AT AT AT AT
1 AT AT AT AT
73961 GTGTATACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76610 original size:35 final size:34
Alignment explanation
Indices: 76529--76855 Score: 320
Period size: 35 Copynumber: 9.4 Consensus size: 34
76519 GGGCAAGTCA
* * * * *
76529 ATCTTAAGCCTTAACCAAAGAGGAGTGAATCAAACC
1 ATCTTAAGCCTTCA-CGAAGAGTAGTGAAGC-AATC
*
76565 ATCTTAAGCCTTCATCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCA-CGAAGAGTAGTGAAGCAATC
* *
76600 ATCTTAAGCCTTCACAGAAGAGTAGCGAAGAAATC
1 ATCTTAAGCCTTCAC-GAAGAGTAGTGAAGCAATC
* *
76635 ATCTTAAG-C-ACA-TAAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACGAAGAGTAGTGAAGCAATC
* * *
76666 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CGAAGAGTAGTGAAGC-AATC
*
76702 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCA-CGAAGAGTAGTGAAGCAATC
*
76737 ATCTTAAGTCTTCACAGAAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCAC-GAAGAGTAGTGAAGCAATC
* * *
76772 ATCTTAAGTCTTCACATAAGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCAC-GAAGAGTAGTGAAGCAATC
* * *
76806 ATCTTAAGCCTTCACCAAAAAGTAGTGAAGTAAATTC
1 ATCTTAAGCCTTCA-CGAAGAGTAGTGAAG-CAA-TC
76843 ATCTCTAAGCCTT
1 ATCT-TAAGCCTT
76856 TAGAGCAGGA
Statistics
Matches: 248, Mismatches: 31, Indels: 22
0.82 0.10 0.07
Matches are distributed among these distances:
31 24 0.10
32 1 0.00
33 4 0.02
34 30 0.12
35 119 0.48
36 57 0.23
37 5 0.02
38 8 0.03
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (34 bp):
ATCTTAAGCCTTCACGAAGAGTAGTGAAGCAATC
Found at i:76610 original size:71 final size:71
Alignment explanation
Indices: 76529--76855 Score: 377
Period size: 71 Copynumber: 4.7 Consensus size: 71
76519 GGGCAAGTCA
* * * *
76529 ATCTTAAGCCTTAACCAAAGAGGAGTGAATCAAACCATCTTAAGCCTTCATCGGAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGAAGAGTAGTGAA
76594 GCAATC
66 GCAATC
* * *
76600 ATCTTAAGCCTTCA-CAGAAGAGTAGCGAAG-AAATCATCTTAAG-C-ACAT--AAGAGTAGTGA
1 ATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGAAGAGTAGTGA
76659 AGCAATC
65 AGCAATC
* * *
76666 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGAAGAGTAGTGAA
76731 GCAATC
66 GCAATC
* * * *
76737 ATCTTAAGTCTTCA-CAGAAGAGTAGTGAAGC-AATCATCTTAAGTCTTCA-CATAAGAGTAGTG
1 ATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATC-GAAGAGTAGTG
*
76799 AAGC-ACC
64 AAGCAATC
* * *
76806 ATCTTAAGCCTTCACCAAAAAGTAGTGAAGTAAATTCATCTCTAAGCCTT
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAA-CCATCT-TAAGCCTT
76856 TAGAGCAGGA
Statistics
Matches: 219, Mismatches: 24, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
66 42 0.19
67 14 0.06
68 4 0.02
69 31 0.14
70 49 0.22
71 72 0.33
72 7 0.03
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (71 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGAAGAGTAGTGAA
GCAATC
Found at i:76775 original size:137 final size:137
Alignment explanation
Indices: 76529--76855 Score: 494
Period size: 137 Copynumber: 2.4 Consensus size: 137
76519 GGGCAAGTCA
* * *
76529 ATCTTAAGCCTTAACCAAAGAGGAGTGAATCAAACCATCTTAAGCCTTCATCGGAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGAA
76594 GCAATCATCTTAAGCCTTCACAGAAGAGTAGCGAAGAAATCATCTTAAG-CACATAAGAGTAGTG
66 GCAATCATCTTAAGCCTTCACAGAAGAGTAGCGAAGAAATCATCTTAAGTCACATAAGAGTAGTG
*
76658 AAGCAATC
131 AAGC-ACC
76666 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGAA
* * *
76731 GCAATCATCTTAAGTCTTCACAGAAGAGTAGTGAAGCAATCATCTTAAGTCTTCACATAAGAGTA
66 GCAATCATCTTAAGCCTTCACAGAAGAGTAGCGAAGAAATCATCTTAAG---TCACATAAGAGTA
76796 GTGAAGCACC
128 GTGAAGCACC
* * * *
76806 ATCTTAAGCCTTCACCAAAAAGTAGTGAAGTAAATTCATCTCTAAGCCTT
1 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAA-CCATCT-TAAGCCTT
76856 TAGAGCAGGA
Statistics
Matches: 173, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
137 108 0.62
140 33 0.19
141 24 0.14
142 8 0.05
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (137 bp):
ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGAA
GCAATCATCTTAAGCCTTCACAGAAGAGTAGCGAAGAAATCATCTTAAGTCACATAAGAGTAGTG
AAGCACC
Found at i:76793 original size:106 final size:101
Alignment explanation
Indices: 76546--76852 Score: 366
Period size: 102 Copynumber: 3.0 Consensus size: 101
76536 GCCTTAACCA
* * * * ** *
76546 AAGAGGAGTGAATCAAACCATCTTAAGCCTTCATCGGAGAGTAGTGAAGCAATCATCTTAAGCCT
1 AAGAGTAGTGAAGC-AATCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAACCATCTTAAGCCT
* * *
76611 TCACAGAAGAGTAGCGAAGAAATCATCTTAAGCACAT
65 TCACCGAAGAGTAGTGAAGAAATCATCTTAAGCACAG
*
76648 AAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCT
1 AAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCAAAGAGTAGTGAAGC-AACCATCTTAAGCCT
* *
76713 TCACCGGAGAGTAGTGAAGCAATCATCTTAAGTCTTCACAG
65 TCACCGAAGAGTAGTGAAGAAATCATCTTAAG----CACAG
*
76754 AAGAGTAGTGAAGCAATCATCTTAAGTCTTCA-CATAAGAGTAGTGAAGC-ACCATCTTAAGCCT
1 AAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCAACCATCTTAAGCCT
* *
76817 TCACCAAAAAGTAGTGAAGTAAATTCATCTCTAAGC
65 TCACCGAAGAGTAGTGAAG-AAA-TCATCT-TAAGC
76853 CTTTAGAGCA
Statistics
Matches: 177, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
101 30 0.17
102 54 0.31
103 1 0.01
104 30 0.17
105 4 0.02
106 54 0.31
107 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (101 bp):
AAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAACCATCTTAAGCCTT
CACCGAAGAGTAGTGAAGAAATCATCTTAAGCACAG
Found at i:77471 original size:214 final size:215
Alignment explanation
Indices: 76841--78142 Score: 1999
Period size: 216 Copynumber: 6.1 Consensus size: 215
76831 TGAAGTAAAT
* * * * *
76841 TCATCTCTAAGCCTTTAGAGCAGGATGATAAGTCCTTCGAGCCATCCATAAGACCTTTGGGTAGG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
* * *
76906 ATGTTTTCACATGAATTTGAAAATGAAAATATGATG----AA-AAGATGAAATTTTTGAAAACTT
66 ATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* * *
76966 AGAATGCGATTTTCAAAAATTCACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
77031 TGATGCTTAAATCCTTCGGG
196 TGATGCTTAAATCCTTCGGG
* * * * * *
77051 TCATCTGTAAGCCTTAAGAGTAAGATGATAAGTCATTCGGACCATCCATAAAACCTTCGGATAGG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
77116 ATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATATTTGAAAACT
66 ATGTTTTCAAATGAATTTGAAAATG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
*
77181 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGC
130 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* *
77246 ATGACGCTTAAATCCTTTGGG
195 ATGATGCTTAAATCCTTCGGG
* *
77267 TCATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
**
77332 ATGTTTTCACGTGAATTTGAAAATG-AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* * * * * *
77396 AGAATACGATATTCAAAACTTCACATTTTATAAGTCCTTTGGGCCATCAGTAAGTCATTCGAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
77461 TGATGCTTAAATCCTTCGGA
196 TGATGCTTAAATCCTTCGGG
*
77481 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
77546 ATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATATTTGAAAACT
66 ATGTTTTCAAATGAATTTGAAAATG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
* *
77611 AATAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
130 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
77676 ATGATGCTTAAATCCTTCGGG
195 ATGATGCTTAAATCCTTCGGG
* * *
77697 TCATCTATAAGCCTTTTGATCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
* *
77762 ATGTTTTCACATGAATTTGAAAAT-TAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* * * *
77826 AGAATGCAACTTTCACATTTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
77891 TGATGCTTAAATCCTTCGGG
196 TGATGCTTAAATCCTTCGGG
* * * *
77911 TCATCTATAAGCCTTTTGAGCAAGATGATAAGTCTTTCAGGCTATCCATAAAACCTTCGGGTAGG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
77976 ATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATATTTT-AGAAAGATGAAATTTTTGAAAAC
66 ATGTTTTCAAATGAATTTGAAAATG-AAAAAATGATGTTTTAAG-AAGATGAAATTTTTGAAAAC
* *
78040 TAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCATTAAGTCTTTTTGA
129 TAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTC-TTTCGA
*
78105 GCATGATGATTAAATCCTTCGGG
193 GCATGATGCTTAAATCCTTCGGG
* * *
78128 TAATTTGTAAGCCTT
1 TCATCTATAAGCCTT
78143 CACAGAAGAG
Statistics
Matches: 995, Mismatches: 85, Indels: 17
0.91 0.08 0.02
Matches are distributed among these distances:
210 79 0.08
211 10 0.01
214 400 0.40
215 4 0.00
216 463 0.47
217 39 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (215 bp):
TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
ATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
TGATGCTTAAATCCTTCGGG
Found at i:77644 original size:430 final size:429
Alignment explanation
Indices: 76841--78142 Score: 2112
Period size: 430 Copynumber: 3.0 Consensus size: 429
76831 TGAAGTAAAT
* * * * *
76841 TCATCTCTAAGCCTTTAGAGCAGGATGATAAGTCCTTCGAGCCATCCATAAGACCTTTGGGTAGG
1 TCATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
76906 ATGTTTTCACATGAATTTGAAAATGAAAATATGATG----AA-AAGATGAAATTTTTGAAAACTT
66 ATGTTTTCACATGAATTTGAAAATGAAAA-ATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* *
76966 AGAATGCGATTTTCAAAAATTCACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCA
130 AGAATGCGA-TTTCAAAAATTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * *
77031 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTAAGAGTAAGATGATAAGTCATTCGGACCAT
194 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCAT
*
77096 CCATAAAACCTTCGGATAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
259 CCATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGA
*
77161 AGATGAAATATTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCAGGC
324 AGATGAAATATTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
* *
77226 CATCAGTAAGTCTTTCGAGCATGACGCTTAAATCCTTTGGG
389 CATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
77267 TCATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
77332 ATGTTTTCACGTGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * * * *
77397 GAATACGATATTCAAAACTTCACATTTTATAAGTCCTTTGGGCCATCAGTAAGTCATTCGAGCAT
131 GAATGCGAT-TTCAAAAATTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* *
77462 GATGCTTAAATCCTTCGGATCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATC
195 GATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCATC
77527 CATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAA
260 CATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAA
* *
77592 GATGAAATATTTGAAAACTAATAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCC
325 GATGAAATATTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCC
77657 ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
390 ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
*
77697 TCATCTATAAGCCTTTTGATCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
77762 ATGTTTTCACATGAATTTGAAAATTAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
66 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * **
77827 GAATGCAACTTTCACATTTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
131 GAATGCGA-TTTCAAAAATTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * * * *
77892 GATGCTTAAATCCTTCGGGTCATCTATAAGCCTTTTGAGCAAGATGATAAGTCTTTCAGGCTATC
195 GATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCATC
*
77957 CATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATATTTT-AGAA
260 CATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAG-A
*
78021 AGATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
324 AGATGAAATATTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGC
* * *
78086 CATCATTAAGTCTTTTTGAGCATGATGATTAAATCCTTCGGG
389 CATCAGTAAGTC-TTTCGAGCATGATGCTTAAATCCTTCGGG
* * *
78128 TAATTTGTAAGCCTT
1 TCATCTATAAGCCTT
78143 CACAGAAGAG
Statistics
Matches: 815, Mismatches: 52, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
425 6 0.01
426 88 0.11
429 5 0.01
430 676 0.83
431 40 0.05
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (429 bp):
TCATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
GAATGCGATTTCAAAAATTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCATCC
ATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAG
ATGAAATATTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCA
TCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
Found at i:77737 original size:41 final size:41
Alignment explanation
Indices: 77641--77753 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 41
77631 TTCACAATTT
* *
77641 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCA-TAAGCCTTTCGAGCAAGATGC
* * * * *
77683 TTAAATCCTTCGGGTCATCTATAAGCCTTTTGATCAAGATG-
1 ATAAGTCCTTCGGGCCATC-ATAAGCCTTTCGAGCAAGATGC
77724 ATAAGTCCTTCGGGCCATCCATAAGACCTT
1 ATAAGTCCTTCGGGCCAT-CATAAG-CCTT
77754 CGGGTAGGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 20 0.34
42 37 0.64
43 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCATAAGCCTTTCGAGCAAGATGC
Found at i:78365 original size:57 final size:57
Alignment explanation
Indices: 78275--78393 Score: 168
Period size: 57 Copynumber: 2.1 Consensus size: 57
78265 CATTTTAAGC
* * *
78275 CTCCCTGAAAAGAATAGGGAGCGAATCCATTTTTCAAAAGATTTCTCAAGTTCTATA
1 CTCCCCGAAAAGAATAGGAAGCGAAACCATTTTTCAAAAGATTTCTCAAGTTCTATA
* * *
78332 CTCCCCGAAAGGAATAGGAAGC-AAACCTATTTTTCAGAAGATTTCTCGAGTTCTATA
1 CTCCCCGAAAAGAATAGGAAGCGAAACC-ATTTTTCAAAAGATTTCTCAAGTTCTATA
78389 CTCCC
1 CTCCC
78394 TTAAAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 4 0.07
57 51 0.93
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (57 bp):
CTCCCCGAAAAGAATAGGAAGCGAAACCATTTTTCAAAAGATTTCTCAAGTTCTATA
Found at i:83655 original size:18 final size:17
Alignment explanation
Indices: 83628--83671 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
83618 ATTATCTATG
*
83628 TCCCGTAGGACCACTACA
1 TCCCGAAGGA-CACTACA
83646 TCCCGAAGG--ACTACA
1 TCCCGAAGGACACTACA
83661 TCCCGAAGGAC
1 TCCCGAAGGAC
83672 TATTATACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 15 0.65
18 8 0.35
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.14
Consensus pattern (17 bp):
TCCCGAAGGACACTACA
Found at i:83660 original size:15 final size:15
Alignment explanation
Indices: 83640--83673 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
83630 CCGTAGGACC
83640 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
83655 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
83670 ACTA
1 ACTA
83674 TTATACCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:83822 original size:23 final size:26
Alignment explanation
Indices: 83785--83853 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
83775 TTCTTGTGTG
83785 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
83809 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
83834 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
83854 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:83835 original size:12 final size:12
Alignment explanation
Indices: 83818--83853 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
83808 TATCATGTTC
83818 TCATATCACATG
1 TCATATCACATG
*
83830 TCATATCACATA
1 TCATATCACATG
83842 TCATATCACATG
1 TCATATCACATG
83854 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:89119 original size:36 final size:36
Alignment explanation
Indices: 89046--89127 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
89036 ATCAATTCAA
* * * *
89046 ATAAAAAAACATTTCAGTGGTGCATTATCACTTCAT
1 ATAAAAAAACATTTCAGTAGTGCATTAACAATGCAT
89082 ATTAGAAAAAA-A-TTCAGTAGTGCATTAACAATGCAT
1 A-TA-AAAAAACATTTCAGTAGTGCATTAACAATGCAT
89118 ATAAAAAAAC
1 ATAAAAAAAC
89128 GTGTATTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
34 6 0.15
35 2 0.05
36 22 0.56
37 3 0.08
38 6 0.15
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAAAAAAACATTTCAGTAGTGCATTAACAATGCAT
Found at i:91603 original size:12 final size:12
Alignment explanation
Indices: 91586--91621 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
91576 TCTATAAATA
91586 AAAGAAAAGAAC
1 AAAGAAAAGAAC
91598 AAAGAAAAGAAC
1 AAAGAAAAGAAC
91610 AAAGAAGAAGAA
1 AAAGAA-AAGAA
91622 TTGAAACGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAC
Found at i:92047 original size:10 final size:10
Alignment explanation
Indices: 92032--92082 Score: 77
Period size: 10 Copynumber: 5.1 Consensus size: 10
92022 TTTATTACAC
92032 CAAATTCTCT
1 CAAATTCTCT
92042 CAAATTCTCT
1 CAAATTCTCT
92052 CAAATTCTCT
1 CAAATTCTCT
92062 -AAATTTCTCT
1 CAAA-TTCTCT
*
92072 CAAATACTCT
1 CAAATTCTCT
92082 C
1 C
92083 TTTTTAAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
9 3 0.08
10 32 0.84
11 3 0.08
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:94555 original size:21 final size:21
Alignment explanation
Indices: 94525--94600 Score: 93
Period size: 21 Copynumber: 3.6 Consensus size: 21
94515 GATTTACATA
*
94525 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
94546 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
94569 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
94588 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
94601 TTATTCCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
19 9 0.19
21 28 0.60
23 10 0.21
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:94582 original size:42 final size:42
Alignment explanation
Indices: 94531--94670 Score: 212
Period size: 42 Copynumber: 3.3 Consensus size: 42
94521 CATATTCGCA
*
94531 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
94573 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
94615 TTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
94657 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
94671 AATCGCAACG
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
40 7 0.08
42 75 0.83
44 8 0.09
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:94616 original size:21 final size:21
Alignment explanation
Indices: 94550--94663 Score: 160
Period size: 21 Copynumber: 5.4 Consensus size: 21
94540 TCCAAGTTCG
*
94550 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* * *
94571 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
94590 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
94613 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
94634 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
94655 CGTTGCGAT
1 CGTTGCGAT
94664 AGTCCAAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
19 9 0.11
21 67 0.80
23 8 0.10
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:95313 original size:6 final size:6
Alignment explanation
Indices: 95290--95341 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
95280 TCATCTCCTT
*
95290 TCGT-G TCG-GG TCG-GG TCGGGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
95335 TCGTGG T
1 TCGTGG T
95342 AATACGTGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
5 12 0.27
6 32 0.73
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:95483 original size:21 final size:21
Alignment explanation
Indices: 95459--95635 Score: 161
Period size: 21 Copynumber: 8.6 Consensus size: 21
95449 TTTGGAATAA
*
95459 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* * **
95480 ATCGCAA--CGAATTTAGAAA
1 ATCGCAATGCGAACTTCGACT
*
95499 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
95520 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
95540 ATCGCAATGC-AA-TAGTCGACT
1 ATCGCAATGCGAACT--TCGACT
*
95561 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* *
95582 ATTGCAATGCGAACTTAGACT
1 ATCGCAATGCGAACTTCGACT
*
95603 ATCGCAATGCAAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
95624 ATCGCATTGCGA
1 ATCGCAATGCGA
95636 TTTACATATT
Statistics
Matches: 128, Mismatches: 19, Indels: 18
0.78 0.12 0.11
Matches are distributed among these distances:
19 18 0.14
20 14 0.11
21 93 0.73
22 2 0.02
23 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:95493 original size:42 final size:42
Alignment explanation
Indices: 95434--95609 Score: 172
Period size: 42 Copynumber: 4.3 Consensus size: 42
95424 TGCGATTTTG
*
95434 GACTATCGCAA-CGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAAGCGAATTTGG-ATAAATCGCAATGCGAACTTC
* *
95476 GACTATCGCAA-CGAATTTAGA-AAATCGCAATGCGAACTTG
1 GACTATCGCAAGCGAATTTGGATAAATCGCAATGCGAACTTC
*
95516 GACTATCGCAATGCGAATAT-G-TAAATCGCAATGC-AA-TAGTC
1 GACTATCGCAA-GCGAATTTGGATAAATCGCAATGCGAACT--TC
* * *
95557 GACTATCGCAATGCGAACTTGGACT--ATTGCAATGCGAACTTA
1 GACTATCGCAA-GCGAATTTGGA-TAAATCGCAATGCGAACTTC
95599 GACTATCGCAA
1 GACTATCGCAA
95610 TGCAAACTTC
Statistics
Matches: 115, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
39 1 0.01
40 30 0.26
41 33 0.29
42 47 0.41
43 2 0.02
44 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (42 bp):
GACTATCGCAAGCGAATTTGGATAAATCGCAATGCGAACTTC
Found at i:95561 original size:41 final size:42
Alignment explanation
Indices: 95457--95612 Score: 162
Period size: 41 Copynumber: 3.8 Consensus size: 42
95447 AATTTGGAAT
* *
95457 AAATCGCAACGCGAACTTCGACTATCGCAA--CGAATTTAGA
1 AAATCGCAATGCGAACTTCGACTATCGCAATGCGAATATAGA
* *
95497 AAATCGCAATGCGAACTTGGACTATCGCAATGCGAATAT-GT
1 AAATCGCAATGCGAACTTCGACTATCGCAATGCGAATATAGA
*
95538 AAATCGCAATGC-AA-TAGTCGACTATCGCAATGCGAACT-TGGA
1 AAATCGCAATGCGAACT--TCGACTATCGCAATGCGAA-TATAGA
** * *
95580 CTATTGCAATGCGAACTTAGACTATCGCAATGC
1 AAATCGCAATGCGAACTTCGACTATCGCAATGC
95613 AAACTTCGAC
Statistics
Matches: 98, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 30 0.31
41 32 0.33
42 32 0.33
43 2 0.02
44 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (42 bp):
AAATCGCAATGCGAACTTCGACTATCGCAATGCGAATATAGA
Found at i:95670 original size:21 final size:21
Alignment explanation
Indices: 95644--95864 Score: 277
Period size: 21 Copynumber: 10.6 Consensus size: 21
95634 GATTTACATA
95644 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
95665 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
95686 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
95707 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
95728 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
95749 TTCACATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
95769 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
* *
95790 TTTGCATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTCCAAG
*
95811 TTCGCATTGGGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
95832 TTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
95853 TTCGCGTTGCGA
1 TTCGCATTGCGA
95865 ATCTGGAAAC
Statistics
Matches: 175, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.09
21 158 0.90
22 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:95697 original size:42 final size:42
Alignment explanation
Indices: 95644--95864 Score: 313
Period size: 42 Copynumber: 5.3 Consensus size: 42
95634 GATTTACATA
95644 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
*
95686 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
* *
95728 TTCGCATTGCGATAGTCCAAGTTCACATTGCGATAGTCG-AC
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
* * * *
95769 TATCGCATTGCGAT-TTACATA-TTTGCATTGCGATAGTCTAAG
1 T-TCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCGAAG
* *
95811 TTCGCATTGGGATAGTCCAAGTTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
*
95853 TTCGCGTTGCGA
1 TTCGCATTGCGA
95865 ATCTGGAAAC
Statistics
Matches: 158, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 32 0.20
42 126 0.80
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
Found at i:98737 original size:12 final size:13
Alignment explanation
Indices: 98722--98751 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
98712 AATATTGTTT
98722 ATAATTTT-AAAA
1 ATAATTTTAAAAA
98734 ATAATTTTAAAAA
1 ATAATTTTAAAAA
98747 ATAAT
1 ATAAT
98752 GATGAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATTTTAAAAA
Found at i:99086 original size:30 final size:31
Alignment explanation
Indices: 99052--99133 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 31
99042 TCCCATTTCT
*
99052 TTTAGAGTTATTTTTCCTTTAAC-CATATGG
1 TTTAGAGTTATTTTTCCTTTAACTCATATCG
* * * *
99082 TTTAGGGTT-TCTTTTACCTCT--CTCATTTCT
1 TTTAGAGTTAT-TTTT-CCTTTAACTCATATCG
99112 TTTAGAGTTATTTTTCCTTTAA
1 TTTAGAGTTATTTTTCCTTTAA
99134 TCAGATGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
29 6 0.15
30 28 0.72
31 5 0.13
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (31 bp):
TTTAGAGTTATTTTTCCTTTAACTCATATCG
Found at i:101485 original size:14 final size:14
Alignment explanation
Indices: 101462--101494 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
101452 CTCTATTGTT
101462 TTATAAAAAATGAA
1 TTATAAAAAATGAA
*
101476 TTATAGAAAATGAA
1 TTATAAAAAATGAA
101490 TTATA
1 TTATA
101495 TTTTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (14 bp):
TTATAAAAAATGAA
Found at i:104015 original size:14 final size:14
Alignment explanation
Indices: 103992--104024 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
103982 GTGTCACAAT
103992 GGCGCACCCCCTGC
1 GGCGCACCCCCTGC
104006 GGCGC-CCCCCTTGC
1 GGCGCACCCCC-TGC
104020 GGCGC
1 GGCGC
104025 GCCTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.03, C:0.55, G:0.33, T:0.09
Consensus pattern (14 bp):
GGCGCACCCCCTGC
Found at i:104222 original size:24 final size:23
Alignment explanation
Indices: 104171--104231 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 23
104161 TTTAAGGTAT
104171 ATTTTATTATATTTAATATTATA
1 ATTTTATTATATTTAATATTATA
*
104194 TTTTTAATT-TATTTAAGTATT-TGA
1 ATTTT-ATTATATTTAA-TATTAT-A
104218 ATTTT-TTAATATTT
1 ATTTTATT-ATATTT
104232 TATTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
22 2 0.06
23 12 0.39
24 17 0.55
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (23 bp):
ATTTTATTATATTTAATATTATA
Found at i:104349 original size:18 final size:19
Alignment explanation
Indices: 104328--104368 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
104318 ACGATAACAT
104328 TTTAACGTT-TTAAT-ATAA
1 TTTAA-GTTATTAATAATAA
*
104346 TTTAAGTTATTAGTAATAA
1 TTTAAGTTATTAATAATAA
104365 TTTA
1 TTTA
104369 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 9 0.45
19 8 0.40
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (19 bp):
TTTAAGTTATTAATAATAA
Found at i:105013 original size:30 final size:30
Alignment explanation
Indices: 104977--105051 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
104967 GTAAACACCA
*
104977 TTTTTCAACACCAACAC-CTACCACCCCATT
1 TTTTTCAACACCAACACTC-ACCACCACATT
* *
105007 TTTTTCAACACCAACACTCACCATCATATT
1 TTTTTCAACACCAACACTCACCACCACATT
105037 TTTTTCAACACCAAC
1 TTTTTCAACACCAAC
105052 CCCATCATCC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.31
Consensus pattern (30 bp):
TTTTTCAACACCAACACTCACCACCACATT
Found at i:105689 original size:16 final size:16
Alignment explanation
Indices: 105668--105706 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
105658 TGTTAGGGAT
105668 CATTTTCGTGATTTTC
1 CATTTTCGTGATTTTC
* * *
105684 CATTTTAGTTATTTTT
1 CATTTTCGTGATTTTC
105700 CATTTTC
1 CATTTTC
105707 TGTTTGTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (16 bp):
CATTTTCGTGATTTTC
Found at i:109938 original size:9 final size:9
Alignment explanation
Indices: 109924--109955 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
109914 AAGAAACAAC
109924 AAAAAAGGAA
1 AAAAAAGG-A
109934 AAAAAAGGA
1 AAAAAAGGA
109943 AAAAAAGGA
1 AAAAAAGGA
109952 AAAA
1 AAAA
109956 GAAAAAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAAGGA
Found at i:109954 original size:25 final size:26
Alignment explanation
Indices: 109925--110016 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 26
109915 AGAAACAACA
109925 AAAAAGGAAAAAAAAGGAAAA-AAAG-G
1 AAAAA-GAAAAAAAA-GAAAAGAAAGAG
*
109951 AAAAAGAAAAAAGAGAAAAGAAAGAG
1 AAAAAGAAAAAAAAGAAAAGAAAGAG
*
109977 AAAGAGAAAGAGAAAAGAAAAGAAAAGAAG
1 AAAAAGAAA-A-AAAAGAAAAG-AAAG-AG
110007 AAAAAAGAAA
1 -AAAAAGAAA
110017 TTGAATCAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.09
25 12 0.22
26 14 0.25
27 1 0.02
28 9 0.16
29 4 0.07
30 2 0.04
31 8 0.15
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (26 bp):
AAAAAGAAAAAAAAGAAAAGAAAGAG
Found at i:109968 original size:24 final size:24
Alignment explanation
Indices: 109934--110014 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
109924 AAAAAAGGAA
109934 AAAAAAG-GAAAAAAAGGAAAAAG
1 AAAAAAGAGAAAAAAAGGAAAAAG
*
109957 AAAAAAGAGAAAAGAAA-GAGAAAG
1 AAAAAAGAGAAAA-AAAGGAAAAAG
* *
109981 -AGAAAGAGAAAAGAAAAGAAAAGAAG
1 AAAAAAGAG-AAA-AAAAGGAAA-AAG
110007 AAAAAAGA
1 AAAAAAGA
110015 AATTGAATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
23 14 0.30
24 17 0.37
25 6 0.13
26 3 0.07
27 6 0.13
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (24 bp):
AAAAAAGAGAAAAAAAGGAAAAAG
Found at i:109969 original size:23 final size:23
Alignment explanation
Indices: 109934--110014 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 23
109924 AAAAAAGGAA
109934 AAAAAAG-GAAAAAAAGGAAAAAG
1 AAAAAAGAG-AAAAAAGGAAAAAG
* *
109957 AAAAAAGAGAAAAGAAAGAGAAAG
1 AAAAAAGAGAAAA-AAGGAAAAAG
* * *
109981 AGAAAGAGAAAAGAAAAGAAAAGAAG
1 A-AAAAAGAGAA-AAAAGGAAA-AAG
110007 AAAAAAGA
1 AAAAAAGA
110015 AATTGAATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
23 11 0.24
24 10 0.22
25 18 0.40
26 6 0.13
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AAAAAAGAGAAAAAAGGAAAAAG
Found at i:110000 original size:10 final size:10
Alignment explanation
Indices: 109926--110016 Score: 73
Period size: 10 Copynumber: 8.8 Consensus size: 10
109916 GAAACAACAA
109926 AAAAGGAAAA-
1 AAAA-GAAAAG
109936 AAAAGGAAAA-
1 AAAA-GAAAAG
*
109946 AAAGGAAAAAG
1 AAAAG-AAAAG
*
109957 AAAA-AAGAG
1 AAAAGAAAAG
109966 AAAAGAAAGAG
1 AAAAGAAA-AG
109977 AAAGAGAAAGAG
1 AAA-AGAAA-AG
109989 AAAAGAAAAG
1 AAAAGAAAAG
109999 AAAAGAAGAA-
1 AAAAGAA-AAG
110009 AAAAGAAA
1 AAAAGAAA
110017 TTGAATCAAG
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
9 10 0.14
10 35 0.49
11 15 0.21
12 11 0.15
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:110016 original size:7 final size:7
Alignment explanation
Indices: 109943--110016 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
109933 AAAAAAAGGA
109943 AAAAAAG
1 AAAAAAG
*
109950 GAAAAAG
1 AAAAAAG
109957 AAAAAAG
1 AAAAAAG
*
109964 AGAAAAG
1 AAAAAAG
*
109971 -AAAGAG
1 AAAAAAG
*
109977 -AAAGAG
1 AAAAAAG
109983 AAAGAGAA-
1 AAA-A-AAG
109991 AAGAAAAG
1 AA-AAAAG
109999 AAAAGAAG
1 AAAA-AAG
110007 AAAAAAG
1 AAAAAAG
110014 AAA
1 AAA
110017 TTGAATCAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
6 10 0.18
7 30 0.55
8 13 0.24
9 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:112187 original size:91 final size:89
Alignment explanation
Indices: 112044--112328 Score: 398
Period size: 91 Copynumber: 3.2 Consensus size: 89
112034 TCAAAAGATT
* * * *
112044 TTTTAGAAAC-AAGACTTCGGGGGTTTCTTGATTTATAAGTCATTCGGACCATCCATAATACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAAAACCTT
112108 CAGTACAGGATGTTTTCAAATGAGA
66 CAGT-CAGGATGTTTTCAAATGAGA
* *
112133 TTTTAGAAACTAAGCCTTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCT
1 TTTTAGAAACTAAGCC-TTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAAAACCT
112198 TCAGTGCAGGATGTTTTCAAATGAGA
65 TCAGT-CAGGATGTTTTCAAATGAGA
* * *
112224 TTTTAGAAACTAAGCCTTCGTGGGTTTCTTGATTTGTAAGTCATTCGAGCCACCCATAAGAACC-
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAA-AACCT
*
112288 TCGGGT-AGGATGTTTTCAAATGAG-
65 TC-AGTCAGGATGTTTTCAAATGAGA
*
112312 TTTTAAAAACTAAGCCT
1 TTTTAGAAACTAAGCCT
112329 GATTTTCAGG
Statistics
Matches: 179, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
88 16 0.09
89 28 0.16
90 45 0.25
91 90 0.50
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (89 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAAAACCTT
CAGTCAGGATGTTTTCAAATGAGA
Found at i:112509 original size:98 final size:102
Alignment explanation
Indices: 112387--112629 Score: 300
Period size: 102 Copynumber: 2.4 Consensus size: 102
112377 TTTTTACTCA
* * * **
112387 AAAC-AAGTTTTGTCTCTTTTGAGACAGTTTCTCTCAAAACAAAAGC-TTGAGTCTATTTCTTTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAAAGCTTTGAATCTATTTCCCTT
*
112450 GAAACAAAGTTCATCT-TCCTTGAGACA-TTT-T-TTT
66 GAAACAAAGTTCATCTCT-CTTGAGACAGTTTCTCTTG
* * ** * *
112484 AAATAAAGTTTTGTCTCTCTTGAGACAATTTCCCTTTAAACAAAATCTTTGAATCTGTTTCCCTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAAAGCTTTGAATCTATTTCCCTT
* *
112549 GAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTG
66 GAAACAAAGTTCATCTCTCTTGAGACAGTTTCTCTTG
*
112586 AAACAAAGTTTTGTCTCTCTAGAGACAGTTTCCCTCAAAACAAA
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAA
112630 TCTCACTTGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
97 3 0.02
98 36 0.30
99 36 0.30
100 4 0.03
101 1 0.01
102 41 0.34
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAAAGCTTTGAATCTATTTCCCTT
GAAACAAAGTTCATCTCTCTTGAGACAGTTTCTCTTG
Found at i:112611 original size:37 final size:36
Alignment explanation
Indices: 112540--112630 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 36
112530 CTTTGAATCT
*
112540 GTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTCGTCTCTCTAGAGACA
* *
112576 GTTTCTCTTGAAACAAAGTTTTGTCTCTCTAGAGACA
1 GTTTCCCTTGAAACAAA-TTTCGTCTCTCTAGAGACA
**
112613 GTTTCCCTCAAAACAAAT
1 GTTTCCCTTGAAACAAAT
112631 CTCACTTGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
36 17 0.35
37 31 0.65
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTCGTCTCTCTAGAGACA
Found at i:113370 original size:134 final size:134
Alignment explanation
Indices: 112958--114145 Score: 1432
Period size: 134 Copynumber: 9.0 Consensus size: 134
112948 AAGAAATTGT
* * * * * ** * * *
112958 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATTAGCACCGGTATCTCATTTGA-TTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
* * * * *
113022 ATCACAGAATGAGGTGGATCGATATTTTTATTTTCGTTCAAATCCATCACAGAAGAAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
113087 AGCG
131 AGCA
* * * * * * * *
113091 TCAACTTTTTG-TGTGATTCTATCACAGAAGGAGATAGATCAGCACCAACATCTCATTCGA-TTC
1 TCAACTTTTAGCT-CGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTC
* * * *
113154 TATCACAGTAA-GAGGTGGATCGACATTTTTA-TTTCGCTCAAATTCATCGCAGATGGAGTTGGG
65 CATCACAG-AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
113217 TCAGCG
129 TCAGCA
* *
113223 TCAAAC-TTTAGCTCGATTCTATCACAGAAGGAGGTTGATGAACATCGACATATCGTTCGATTTC
1 TC-AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTC
* * *
113287 CATCACAGAAGGAGGTGGATCGAAATGTTTATTTTCACTCAAATCCATCGCAGAAGGAGTTGGAT
65 CATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
*
113352 CAACA
130 CAGCA
*
113357 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGCTCGATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
* *
113422 ATCATAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
113487 ATCA
131 AGCA
* *
113491 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
*
113556 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGTTCAAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
113621 AACA
131 AGCA
* * * * * * * *
113625 TCAACTTTTTGCTCGTTTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGA-TTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
*
113689 ATCACAGAAGGAGATGGATCGACA---TT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
113750 AGCG
131 AGCA
* * *
113754 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAACATCGACATATCATTCAATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
* * * *
113819 ATCACAGAAGAAGGTGGATCGACA---TT-TTTCCGCTCAAATCCATCACAGAATGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
113880 AGCG
131 AGCA
* ** * * * *
113884 TCAACCTTTT-GCT-TATTTCTATCACAGAAGGAGGTAGATCGGCACCGGCATCTTGTTCGA-TT
1 TCAA-CTTTTAGCTCGA-TTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTT
* *
113946 CTATCACAGAAGGAGGTAGATCGACA--TTTA--TTCGCTCAAATCCATCGCAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
**
114007 TCAATA
129 TCAGCA
* * ** *
114013 TCAACATTTT-GCTCGTTTCTATCACAGAATGAGGTAGATCAACATCGATGTATCATTCGATTTC
1 TCAAC-TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTC
* * * *
114077 CATCATAGAAGTAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGAT
65 CATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
114142 CAGC
130 CAGC
114146 GTTATCTTCA
Statistics
Matches: 920, Mismatches: 115, Indels: 39
0.86 0.11 0.04
Matches are distributed among these distances:
128 1 0.00
129 187 0.20
130 133 0.14
131 5 0.01
132 83 0.09
133 141 0.15
134 370 0.40
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (134 bp):
TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
AGCA
Found at i:113400 original size:44 final size:44
Alignment explanation
Indices: 113064--114143 Score: 466
Period size: 44 Copynumber: 24.5 Consensus size: 44
113054 TTCGTTCAAA
* * * * * *
113064 TCCATCACAGAAGAAGTTGGATCAGCGTCAACTTTTTG-TGTGAT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCT-CGAT
* * * * * * * **
113108 TCTATCACAGAAGGAGATAGATCAGCACCAACATCTCATTCGAT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
* * *** *
113152 TCTATCACAGTAA-GAGGTGGATCGACAT-TTTTATTTCGCTCAAAT
1 TCCATCACAG-AAGGAGGTGGATCAACATCAACT-TTTCGCTC-GAT
* * * * * * *
113197 T-CATCGCAGATGGAGTTGGGTCAGCGTCAAAC-TTTAGCTCGAT
1 TCCATCACAGAAGGAGGTGGATCAACATC-AACTTTTCGCTCGAT
* * * * * * *
113240 TCTATCACAGAAGGAGGTTGATGAACATCGACATATCGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGA-T
** * * *
113285 TCCATCACAGAAGGAGGTGGATCGAA-ATGTTTA-TTTTCACTCAAA
1 TCCATCACAGAAGGAGGTGGATC-AACA--TCAACTTTTCGCTCGAT
* * *
113330 TCCATCGCAGAAGGAGTTGGATCAACATCAACTTTTAGCTCGAT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
* * * * *
113374 TCTATCACAGAAGGAGGTAGATCAACATCGACATATCGCTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGA-T
* ** ** * *
113419 TCCATCATAGAAGGAGGTGGATCGATATTTTTA-TTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATC-A-ACATCAACTTTTCGCTCGAT
* * * * *
113464 TCCATCGCAGAAGGAGTTGGATCATCATCAACTTTTTGCTCGTT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
* * * * * *
113508 TCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGA-T
* ** * * *
113553 TCCATCACAGAAGGAGGTGGATCGACATTTTTA-TTTTCGTTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACA--TCAACTTTTCGCTCGAT
* * * *
113598 TCCATCGCAGAAGGAGTTGGATCAACATCAACTTTTTGCTCGTT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
* * * * * *
113642 TCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGAT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
* * * * *
113686 TCCATCACAGAAGGAGATGGATCGACAT---TTTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
* * * * *
113727 TCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGAT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
* * * * * * ** *
113771 TCTATCACAGAAGGAGATAGATCAACATCGACATATCATTCAATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGA-T
* * * *
113816 TCCATCACAGAAGAAGGTGGATCGACAT----TTTTCCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTT-CGCTCGAT
* * * * *
113857 TCCATCACAGAATGAGTTGGATCAGCGTCAACCTTTT-GCT-TATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAA-CTTTTCGCTCGA-T
* * ** * ** * *
113901 TCTATCACAGAAGGAGGTAGATCGGCACCGGCATCTT-GTTCGAT
1 TCCATCACAGAAGGAGGTGGATCAACATCAAC-TTTTCGCTCGAT
* * * * *
113945 TCTATCACAGAAGGAGGTAGATCGACAT----TTATTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTT-TTCGCTCGAT
* * * *
113986 TCCATCGCAGAAGGAGTTGGATCAATATCAACATTTT-GCTCGTT
1 TCCATCACAGAAGGAGGTGGATCAACATCAAC-TTTTCGCTCGAT
* * * * * **
114030 TCTATCACAGAATGAGGTAGATCAACATCGA-TGTATCATTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACT-TTTCGCTCGA-T
* * ** * *
114075 TCCATCATAGAAGTAGGTGGATCAACATTTTTA-TTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACA--TCAACTTTTCGCTCGAT
*
114120 TCCATCACAGAAGGAGTTGGATCA
1 TCCATCACAGAAGGAGGTGGATCA
114144 GCGTTATCTT
Statistics
Matches: 744, Mismatches: 244, Indels: 95
0.69 0.23 0.09
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 82 0.11
42 6 0.01
43 16 0.02
44 379 0.51
45 211 0.28
46 37 0.05
47 10 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTCGCTCGAT
Found at i:114007 original size:259 final size:263
Alignment explanation
Indices: 112958--114147 Score: 1463
Period size: 259 Copynumber: 4.5 Consensus size: 263
112948 AAGAAATTGT
* * * * * ** * *
112958 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATTAGCACCGGTATCTCATTTGA-TTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCATTCGATTTCC
* * * *
113022 ATCACAGAATGAGGTGGATCGATATTTTTATTTTCGTTCAAATCCATCACAGAAGAAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACA--TTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGATC
* * * **
113087 AGCGTCAACTTTTTG-TGTGATTCTATCACAGAAGGAGATAGATCAGCACCAACATCTCATTCGA
129 AGCGTCAACCTTTTGCTCT-ATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGCTCGA
* * *
113151 TTCTATCACAGTAA-GAGGTGGATCGACATTTTTATTTCGCTCAAATTCATCGCAGATGGAGTTG
193 TTCCATCACAG-AAGGAGGTGGATCGACA-TTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTG
* *
113215 GGTCAGCG
256 GATCAGCA
* * *
113223 TCAAAC-TTTAGCTCGATTCTATCACAGAAGGAGGTTGATGAACATCGACATATCGTTCGATTTC
1 TC-AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCATTCGATTTC
* * *
113287 CATCACAGAAGGAGGTGGATCGAAATGTTTATTTTCACTCAAATCCATCGCAGAAGGAGTTGGAT
65 CATCACAGAAGGAGGTGGATCGACA--TTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGAT
* * * * * * *
113352 CAACATCAA-CTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGCTCG
128 CAGCGTCAACCTTTT-GCTCTATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGCTCG
* *
113416 ATTTCCATCATAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGT
192 A-TTCCATCACAGAAGGAGGTGGATCGACA-TTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGT
*
113481 TGGATCATCA
254 TGGATCAGCA
* * *
113491 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCATTCGATTTCC
* *
113556 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGTTCAAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACA--TTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGATC
* * * * *
113621 AACATCAACTTTTTGCTCGT-TTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGA
129 AGCGTCAACCTTTTGCTC-TATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGCTCGA
*
113685 TTCCATCACAGAAGGAGATGGATCGACA-TTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
193 TTCCATCACAGAAGGAGGTGGATCGACATTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
113748 TCAGCG
258 TCAGCA
* *
113754 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAACATCGACATATCATTCAATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCATTCGATTTCC
* * *
113819 ATCACAGAAGAAGGTGGATCGACA-TT-TTTCCGCTCAAATCCATCACAGAATGAGTTGGATCAG
66 ATCACAGAAGGAGGTGGATCGACATTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGATCAG
* ** * *
113882 CGTCAACCTTTTGCT-TATTTCTATCACAGAAGGAGGTAGATCGGCACCGGCATCTTGTTCGATT
131 CGTCAACCTTTTGCTCTA-TTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGCTCGATT
* *
113946 CTATCACAGAAGGAGGTAGATCGACA-TTTA-TTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
195 CCATCACAGAAGGAGGTGGATCGACATTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
**
114009 AATA
260 AGCA
* * **
114013 TCAACATTTT-GCTCGTTTCTATCACAGAATGAGGTAGATCAACATCGATGTATCATTCGATTTC
1 TCAAC-TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCATTCGATTTC
* * *
114077 CATCATAGAAGTAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGAT
65 CATCACAGAAGGAGGTGGATCGACA--TTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGAT
114142 CAGCGT
128 CAGCGT
114148 TATCTTCATG
Statistics
Matches: 812, Mismatches: 95, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
257 1 0.00
259 219 0.27
260 6 0.01
262 2 0.00
263 157 0.19
265 52 0.06
266 112 0.14
267 57 0.07
268 202 0.25
269 4 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (263 bp):
TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCATTCGATTTCC
ATCACAGAAGGAGGTGGATCGACATTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGGATCAG
CGTCAACCTTTTGCTCTATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGCTCGATTC
CATCACAGAAGGAGGTGGATCGACATTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
GCA
Found at i:114510 original size:30 final size:30
Alignment explanation
Indices: 114475--114545 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
114465 ACACCATTTC
*
114475 TCAACACCAACAC-CTACCACCCCATTTTTT
1 TCAACACCAACACTC-ACCACCACATTTTTT
* *
114505 TCAACACCAACACTCACCATCATATTTTTT
1 TCAACACCAACACTCACCACCACATTTTTT
114535 TCAACACCAAC
1 TCAACACCAAC
114546 CCCATCATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.27
Consensus pattern (30 bp):
TCAACACCAACACTCACCACCACATTTTTT
Found at i:114846 original size:2 final size:2
Alignment explanation
Indices: 114839--114874 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
114829 TTCGAATCTA
114839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114875 TGAGCTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119281 original size:10 final size:11
Alignment explanation
Indices: 119266--119307 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
119256 CAGAATAAAC
119266 AAAAAAAAG-G
1 AAAAAAAAGAG
119276 -AAAAAAAGAG
1 AAAAAAAAGAG
*
119286 AAAAGAAAGAG
1 AAAAAAAAGAG
119297 AAAAGAAAAGA
1 AAAA-AAAAGA
119308 AAAGAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.30
10 1 0.04
11 13 0.48
12 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:119294 original size:11 final size:11
Alignment explanation
Indices: 119266--119324 Score: 72
Period size: 10 Copynumber: 5.7 Consensus size: 11
119256 CAGAATAAAC
*
119266 AAAAAAAAG-G
1 AAAAGAAAGAG
119276 AAAA-AAAGAG
1 AAAAGAAAGAG
119286 AAAAGAAAGAG
1 AAAAGAAAGAG
119297 AAAAGAAA-AG
1 AAAAGAAAGAG
*
119307 AAAAG-AAGAA
1 AAAAGAAAGAG
119317 AAAAGAAA
1 AAAAGAAA
119325 TTGAATCAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
9 6 0.14
10 22 0.50
11 16 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAG
Found at i:119321 original size:31 final size:31
Alignment explanation
Indices: 119266--119324 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
119256 CAGAATAAAC
*
119266 AAAAAAAAGGAAAAAAAGAGAAAAGAAAGAG
1 AAAAAAAAGGAAAAAAAGAAAAAAGAAAGAG
*
119297 AAAAGAAAA-GAAAAGAAGAAAAAAGAAA
1 AAAA-AAAAGGAAAAAAAGAAAAAAGAAA
119325 TTGAATCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (31 bp):
AAAAAAAAGGAAAAAAAGAAAAAAGAAAGAG
Found at i:120732 original size:90 final size:89
Alignment explanation
Indices: 120574--120858 Score: 387
Period size: 90 Copynumber: 3.2 Consensus size: 89
120564 TTCAAAAGTT
* * *
120574 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAGTCCTTCGGGCCATCTATAATACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACC-T
*
120639 CAGTACAGGATGTTTTCAAATGAGA
65 CAGTGCAGGATGTTTTCAAATGAGA
* * *
120664 TTTTAGAAACTAATCCTTCGAGGGTTTCTTGATTTGTAAGTCCTTCAGGCCATCCATAAGACCAT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACC-T
120729 CAGTGCAGGATGTTTTCAAATGAGA
65 CAGTGCAGGATGTTTTCAAATGAGA
* * * * *
120754 TTTTAGAAACTAAGCCTTTGGGGGTTTCTTGATTTGTAAGTCATTTGGGCCACCCATAAGTCTCT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGAC-CT
* *
120819 CAG-GCATGATATTTTCAAATGAG-
65 CAGTGCAGGATGTTTTCAAATGAGA
120842 TTTTA-AATACTAAGCCT
1 TTTTAGAA-ACTAAGCCT
120859 GATTTTCAGG
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
87 2 0.01
88 14 0.08
89 18 0.10
90 140 0.80
91 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (89 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTC
AGTGCAGGATGTTTTCAAATGAGA
Found at i:121043 original size:98 final size:102
Alignment explanation
Indices: 120921--121160 Score: 308
Period size: 102 Copynumber: 2.4 Consensus size: 102
120911 TACTCAAAAC
* * * * **
120921 AAGTTTTGTCTCTTTTGAGACAGTTTCTCTCAAAACAAAAGC-ATGAGTCAGTTTCTTTTGAAAC
1 AAGTTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAAGCTATGAATCAGTTTCCCTTGAAAC
120985 AAAGTTCATCTCCCTTGAGACA-TTT-T-TTGAAATA
66 AAAGTTCATCTCCCTTGAGACAGTTTCTCTTGAAATA
* * * ** *
121019 AAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTGTTTCCCTTGAAAT
1 AAGTTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAAGCTATGAATCAGTTTCCCTTGAAAC
* * *
121084 AAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAATA
66 AAAGTTCATCTCCCTTGAGACAGTTTCTCTTGAAATA
*
121121 AAGTTTTGTCTCTCTAGAGACAGTTTCCCTCGAAACAAAA
1 AAGTTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAA
121161 CTCACTTGAG
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 37 0.31
99 34 0.28
100 3 0.02
101 1 0.01
102 46 0.38
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (102 bp):
AAGTTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAAGCTATGAATCAGTTTCCCTTGAAAC
AAAGTTCATCTCCCTTGAGACAGTTTCTCTTGAAATA
Found at i:121117 original size:36 final size:37
Alignment explanation
Indices: 121070--121155 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
121060 CTTTGAATTT
*
121070 GTTTCCCTTGAAATAAA-TTTCGTCTCTCTTGAGACA
1 GTTTCCCTTGAAATAAAGTTTCGTCTCTCTAGAGACA
* *
121106 GTTTCTCTTGAAATAAAGTTTTGTCTCTCTAGAGACA
1 GTTTCCCTTGAAATAAAGTTTCGTCTCTCTAGAGACA
*
121143 GTTTCCCTCGAAA
1 GTTTCCCTTGAAA
121156 CAAAACTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 16 0.36
37 28 0.64
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
GTTTCCCTTGAAATAAAGTTTCGTCTCTCTAGAGACA
Found at i:121966 original size:265 final size:263
Alignment explanation
Indices: 121489--122806 Score: 1628
Period size: 265 Copynumber: 5.0 Consensus size: 263
121479 AAGAAATTGT
* * * * *
121489 TCAACTTTTAACTTGATTCTATCACAGAAAGAGGTAGATCAGCACCGATATCTTGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGACATATCGTTCGATTCCA
* * *
121554 TCACATAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTA
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * *
121619 GCGTCAACTTTTTGCGCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATCTCATTCGATT
131 GCGTCAACTTTTTGC-TGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATT
*
121684 CTATCACAGTAAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
195 CCATCACAG-AAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
*
121749 CAGTG
259 CAGCG
* *
121754 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGACATATCGTTCGATTCCA
* * * *
121819 TCACAGAAGGAGGTGGATCAACATTTTTATTTTTGTTCAAATCCATTGCAGAAGGAGTTGGATCA
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * * *
121884 GCGACAACTTTTTGCGTGATTCTATCACAGAAGGAGGTAGATTAGCAACAATATCTCGTTCGATT
131 GCGTCAACTTTTTGC-TGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATT
*
121949 CCATCACAGAGAGAGGTGGATCGACATTTTTATTTCACTCAAATCCATCGCAGAAGGAGTTGGAT
195 CCATCACAGA-AGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
*
122014 CAACG
259 CAGCG
* * * *
122019 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGATATATCAACATCGACATATCGTTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGACATATCGTTCGA-TTCC
* * *
122084 ATCACAGAAGGAGATGGATCGACATTTTTATTTTTGCTCAAATCCATCGTAGAAGGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
* * * * * *
122149 AGCATCAACTTTTTACTCGTTTCTATCACAGAAGGAGGTAGATCAGTACCAACATTTCGCTCGAT
130 AGCGTCAACTTTTTGCT-GATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGAT
* *
122214 TCCATCACAAAAGGAGGTGGATCGACA--TTT-TTTCGCTCAAATCCATCGCAAAAGGAGTTGGA
194 TCCATCACAGAA-GAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
122276 TCAGCG
258 TCAGCG
* * * * * *
122282 TCAACTTTTAGCTCGATTCTATCACATAAGGAGATAGATCAATATCGACATATCGTTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGACATATCGTTCGA-TTCC
* *
122347 ATCACAGAAGGAGGTGGATCGACA---TT-TTTTCGCTCAAATCCATCACAGAATGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
* * * * *
122408 AGCGTCAACATTTTT-CTCATTTCTATCATAGAAGGAGGTAGATCAGCATCAACATCTTGTTTGA
130 AGCGTCAAC-TTTTTGCTGA-TTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGA
* *
122472 TTCCATCACAGGAGGAGGTGGATCGACA--TTT-GTTCGCTCAAATCCATCGCAGAAGGAGTTGG
193 TTCCATCACA-GAAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGG
*
122534 ATCAGCA
257 ATCAGCG
* * * * * * *
122541 TCAACTTTTTGC-TCATTTCTATCACA-AAAGGAAGTAGATCAGCACCAACATTTCGTTCGATTT
1 TCAACTTTTAGCTTGA-TTCTATCACAGAAA-GAGGTAGATCAACACCGACATATCGTTCGATTC
* * * * *
122604 CATCACAGAAAGG-GGTGGATCGACA---TT-TGTTCACTCAAATCCATCGTAAAAAGAGTTGGA
64 CATCACAG-AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
* * * * * * *
122664 TCAACGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGATATATCGTTCG
128 TCAGCGTCAACTTTTTGCT-GATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCG
* ** * *
122729 ATTTCCATCACAGAAGTTGGTGGATTAACATTTTTATTTTTGCTCAAATCCATCGCATAAGGAGT
192 A-TTCCATCACAGAAG-AGGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGT
122794 TGGATCAGCG
254 TGGATCAGCG
122804 TCA
1 TCA
122807 TCTTCATGCT
Statistics
Matches: 929, Mismatches: 106, Indels: 38
0.87 0.10 0.04
Matches are distributed among these distances:
257 4 0.00
258 106 0.11
259 209 0.22
260 8 0.01
261 3 0.00
263 156 0.17
264 4 0.00
265 298 0.32
266 141 0.15
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (263 bp):
TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGACATATCGTTCGATTCCA
TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
GCGTCAACTTTTTGCTGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTC
CATCACAGAAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
GCG
Found at i:122184 original size:44 final size:44
Alignment explanation
Indices: 121583--122715 Score: 347
Period size: 44 Copynumber: 25.9 Consensus size: 44
121573 GACATTTTTA
* * * * * *
121583 TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAGCGTCAAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * * *
121627 TTTTTGCGCGATTCTATCACAGAAGGAGGTAGATCAACACCAAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * *** * * **
121671 ATCTCATTCGATTCTATCACAGTAA-GAGGTGGATC-G-A-CATTT
1 TTTTTGCTCAATTCCATCACAG-AAGGAGGTGGATCAGCATCA-AC
* * * **
121713 TTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGTGTCAAC
1 TT-TTT-GCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* ** * * * * * *
121759 TTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGA-
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * * **
121802 TATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTA-
1 T-TTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCA--TCAAC
* * ** *
121848 TTTTTGTTCAAATCCATTGCAGAAGGAGTTGGATCAGCGA-CAAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGC-ATCAAC
* * * * *
121892 TTTTTGCGT-GATTCTATCACAGAAGGAGGTAGATTAGCAACAA-
1 TTTTTGC-TCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * **
121935 TATCTCGTTCGATTCCATCACAG-AGAGAGGTGGATC-G-A-CATTT
1 T-TTTTGCTCAATTCCATCACAGAAG-GAGGTGGATCAGCATCA-AC
* * * * * *
121978 TTATTTCACTCAAATCCATCGCAGAAGGAGTTGGATCAACGTCAAC
1 TT-TTT-GCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* ** * * ** * *
122024 TTTTAGCTTGATTCTATCACAGAAGGAGATATATCAACATCGAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * * * **
122068 ATATCGTTCGATTTCCATCACAGAAGGAGATGGATC-GACATTTTTA-
1 TTTTTGCTC-AATTCCATCACAGAAGGAGGTGGATCAG-CA--TCAAC
* ** *
122114 TTTTTGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCATCAAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* ** * * * *
122158 TTTTTACTCGTTTCTATCACAGAAGGAGGTAGATCAGTACCAAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * *
122202 ATTTCGCTCGATTCCATCACAAAAGGAGGTGGATC-G-A-C-AT
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * *
122242 TTTTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCAGCGTCAAC
1 TTTTT-GCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * * * ** *
122287 TTTTAGCTCGATTCTATCACATAAGGAGATAGATCAATATCGAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * * *
122331 ATATCGTTCGATTTCCATCACAGAAGGAGGTGGATC-G-A-C-AT
1 TTTTTGCTC-AATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * *
122372 TTTTTCGCTCAAATCCATCACAGAATGAGTTGGATCAGCGTCAAC
1 TTTTT-GCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * *
122417 ATTTTT-CTCATTTCTATCATAGAAGGAGGTAGATCAGCATCAAC
1 -TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * ** *
122461 ATCTTGTTTGATTCCATCACAGGAGGAGGTGGATC-G-A-C-A-
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * *
122500 TTTGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAAC
1 TTT-TT-GCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * * *
122546 TTTTTGCTCATTTCTATCACAAAAGGAAGTAGATCAGCACCAAC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * *
122590 ATTTCGTTCGATTTCATCACAGAAAGG-GGTGGATC-G-A-C-A-
1 TTTTTGCTCAATTCCATCACAG-AAGGAGGTGGATCAGCATCAAC
* * ** * * * * *
122629 TTTGTTCACTCAAATCCATCGTAAAAAGAGTTGGATCAACGTCAAC
1 TTT-TT-GCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
* * * * *
122675 TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATC
1 TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATC
122716 GATATATCGT
Statistics
Matches: 762, Mismatches: 266, Indels: 122
0.66 0.23 0.11
Matches are distributed among these distances:
39 3 0.00
40 12 0.02
41 97 0.13
42 14 0.02
43 23 0.03
44 463 0.61
45 120 0.16
46 24 0.03
47 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
TTTTTGCTCAATTCCATCACAGAAGGAGGTGGATCAGCATCAAC
Found at i:122288 original size:129 final size:130
Alignment explanation
Indices: 121489--122806 Score: 1464
Period size: 129 Copynumber: 10.0 Consensus size: 130
121479 AAGAAATTGT
* * * * * *
121489 TCAACTTTTAACTTGATTCTATCACAGAAAGAGGTAGATCAGCACCGATATCTT-GTTCGATTCC
1 TCAACTTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACAT-TTCGTTCGATTCC
* * *
121553 ATCACATAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATT
65 ATCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
121618 AGCG
127 AGCG
* * * * *
121622 TCAACTTTTTGCGCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATCTCATTCGATTCTA
1 TCAACTTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCA
121687 TCACAGTAA-GAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
66 TCACAG-AAGGAGGTGGATCGACA-TTTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
121751 GTG
128 GCG
* * * * *
121754 TCAAC-TTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCC
1 TCAACTTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCC
* * * *
121818 ATCACAGAAGGAGGTGGATCAACATTTTTATTTTTGTTCAAATCCATTGCAGAAGGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
121883 AGCG
127 AGCG
* * * * * * *
121887 ACAACTTTTTGCGT-GATTCTATCACAGAAGGAGGTAGATTAGCAACAATATCTCGTTCGATTCC
1 TCAACTTTTTAC-TCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCC
*
121951 ATCACAG-AGAGAGGTGGATCGACATTTTTATTTCACTCAAATCCATCGCAGAAGGAGTTGGATC
65 ATCACAGAAG-GAGGTGGATCGACA-TTTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
122015 AACG
127 AGCG
* * * * * *
122019 TCAAC-TTTTAGCTTGATTCTATCACAGAAGGAGATATATCAACATCGACATATCGTTCGATTTC
1 TCAACTTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGA-TTC
* * *
122083 CATCACAGAAGGAGATGGATCGACATTTTTATTTTTGCTCAAATCCATCGTAGAAGGAGTTGGAT
64 CATCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
*
122148 CAGCA
126 CAGCG
* ** *
122153 TCAACTTTTTACTCGTTTCTATCACAGAAGGAGGTAGATCAGTACCAACATTTCGCTCGATTCCA
1 TCAACTTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCA
* *
122218 TCACAAAAGGAGGTGGATCGACA-TTTTTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCAGCG
66 TCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
* * * * * *
122282 TCAAC-TTTTAGCTCGATTCTATCACATAAGGAGATAGATCAATATCGACATATCGTTCGATTTC
1 TCAACTTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGA-TTC
* *
122346 CATCACAGAAGGAGGTGGATCGACA-TTTTTTCGCTCAAATCCATCACAGAATGAGTTGGATCAG
64 CATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
122410 CG
129 CG
* * * *
122412 TCAACATTTTT-CTC-ATTTCTATCATAGAAGGAGGTAGATCAGCATCAACATCTT-GTTTGATT
1 TCAAC-TTTTTACTCGA-TTCTATCACAGAAGGAGGTAGATCAACACCAACAT-TTCGTTCGATT
* *
122474 CCATCACAGGAGGAGGTGGATCGACA-TTTGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
63 CCATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
122538 GCA
128 GCG
* * * * *
122541 TCAACTTTTTGCTC-ATTTCTATCACAAAAGGAAGTAGATCAGCACCAACATTTCGTTCGATTTC
1 TCAACTTTTTACTCGA-TTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCC
* * * * * *
122605 ATCACAGAAAGG-GGTGGATCGACA-TTTGTTCACTCAAATCCATCGTAAAAAGAGTTGGATCAA
65 ATCACAG-AAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
122668 CG
129 CG
* * * *
122670 TCAAC-TTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGATATATCGTTCGATTTC
1 TCAACTTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGA-TTC
** ** * *
122734 CATCACAGAAGTTGGTGGATTAACATTTTTATTTTTGCTCAAATCCATCGCATAAGGAGTTGGAT
64 CATCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
122799 CAGCG
126 CAGCG
122804 TCA
1 TCA
122807 TCTTCATGCT
Statistics
Matches: 1021, Mismatches: 129, Indels: 69
0.84 0.11 0.06
Matches are distributed among these distances:
128 16 0.02
129 297 0.29
130 133 0.13
131 14 0.01
132 198 0.19
133 231 0.23
134 126 0.12
135 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (130 bp):
TCAACTTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCA
TCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
Found at i:126336 original size:12 final size:13
Alignment explanation
Indices: 126321--126350 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
126311 AATATTGTTT
126321 ATAATTTT-AAAA
1 ATAATTTTAAAAA
126333 ATAATTTTAAAAA
1 ATAATTTTAAAAA
126346 ATAAT
1 ATAAT
126351 GATGAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATTTTAAAAA
Found at i:126686 original size:30 final size:31
Alignment explanation
Indices: 126652--126733 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 31
126642 TCCCATTTCT
*
126652 TTTAGAGTTATTTTTCCTTTAAC-CATATGG
1 TTTAGAGTTATTTTTCCTTTAACTCATATCG
* * * *
126682 TTTAGGGTT-TCTTTTACCTCT--CTCATTTCT
1 TTTAGAGTTAT-TTTT-CCTTTAACTCATATCG
126712 TTTAGAGTTATTTTTCCTTTAA
1 TTTAGAGTTATTTTTCCTTTAA
126734 TCAGATGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
29 6 0.15
30 28 0.72
31 5 0.13
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (31 bp):
TTTAGAGTTATTTTTCCTTTAACTCATATCG
Found at i:131949 original size:24 final size:23
Alignment explanation
Indices: 131898--131957 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
131888 TTTAAGGTAT
*
131898 ATTTTATTATATTTAATATTTTA
1 ATTTTATTATATTTAATATTTGA
*
131921 TTTTTAATT-TATTTAAGTATTTGA
1 ATTTT-ATTATATTTAA-TATTTGA
131945 ATTTT-TTAATATT
1 ATTTTATT-ATATT
131958 GTATTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.07
23 11 0.37
24 17 0.57
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (23 bp):
ATTTTATTATATTTAATATTTGA
Found at i:134354 original size:35 final size:33
Alignment explanation
Indices: 134313--134397 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
134303 ATATTTTGGT
134313 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
134348 TAATTTTTTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
134383 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
134398 TAAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 2 0.05
38 13 0.30
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:138086 original size:51 final size:50
Alignment explanation
Indices: 138014--138117 Score: 145
Period size: 51 Copynumber: 2.1 Consensus size: 50
138004 CCCCGCGTTA
** *
138014 TACCCACGTTGCGCCAGATCAGCCTAAAGCGTGCTTCAGGGGGCGCGCCT
1 TACCCACGTTGCGCCAGATCAGCCTAAAGCGCACTGCAGGGGGCGCGCCT
* * *
138064 TACCCTACGTTGCGTCATATCAGCGTAAAGCGCACTGCAGGGGGCGCGCCT
1 TACCC-ACGTTGCGCCAGATCAGCCTAAAGCGCACTGCAGGGGGCGCGCCT
138115 TAC
1 TAC
138118 TGTAAATGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 5 0.11
51 42 0.89
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (50 bp):
TACCCACGTTGCGCCAGATCAGCCTAAAGCGCACTGCAGGGGGCGCGCCT
Found at i:139285 original size:2 final size:2
Alignment explanation
Indices: 139278--139306 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
139268 ATCAATTTTA
139278 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 A
139307 ATGTTATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:139491 original size:2 final size:2
Alignment explanation
Indices: 139480--139596 Score: 71
Period size: 2 Copynumber: 58.0 Consensus size: 2
139470 ATAGGTATGC
* * * * *
139480 AT AT AA AT AT AT AA AA AT AT AT AT A- AGT AT AA AGT AT A- AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT
* * *
139522 AT A- AGT AT AT GT AT AT AT A- AGT AT AT AT GT AT GAT GT AT AT
1 AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT AT AT AT
* *
139563 AA AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
139597 CATTAAATAT
Statistics
Matches: 89, Mismatches: 17, Indels: 18
0.72 0.14 0.15
Matches are distributed among these distances:
1 4 0.04
2 79 0.89
3 6 0.07
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (2 bp):
AT
Found at i:140507 original size:78 final size:78
Alignment explanation
Indices: 140413--140556 Score: 234
Period size: 78 Copynumber: 1.8 Consensus size: 78
140403 TTATTAATTT
* * *
140413 AATTATCATAATTAACAATTTATATTAACTTTTAAAGAGTAATCATATTAATTATCATAGTTTAT
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
140478 TTTATTGTCAAAA
66 TTTATTGTCAAAA
* * *
140491 AATTATTATAACTAACAATTTGTTTTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
140556 T
66 T
140557 ATAAATTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (78 bp):
AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
TTTATTGTCAAAA
Found at i:153320 original size:2 final size:2
Alignment explanation
Indices: 153313--153385 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
153303 TCAATCTACA
153313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
153355 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 A
153386 ATTTACGAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:153546 original size:83 final size:84
Alignment explanation
Indices: 153414--153617 Score: 277
Period size: 83 Copynumber: 2.4 Consensus size: 84
153404 CGACACACGC
* * * * **
153414 ATGTGTGTCATCTT-TTTTAATGACGTGTGCTTCAATGACACGCCATGTAAGTCATACATGCGTG
1 ATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATG
*
153478 TCACAGATTTATG-ACACAA
65 TCACAAATTTATGAACACAA
153497 ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGT
1 ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGT
*
153562 CATAAATTTATGACACACAA
66 CACAAATTTATGA-ACACAA
* * *
153582 ATCTGTGTTATCTTCATTTATGACAGGGGCTTCAAT
1 ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAAT
153618 TACGCTCAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
83 65 0.61
84 3 0.03
85 39 0.36
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (84 bp):
ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGT
CACAAATTTATGAACACAA
Found at i:153628 original size:85 final size:83
Alignment explanation
Indices: 153417--153653 Score: 271
Period size: 85 Copynumber: 2.8 Consensus size: 83
153407 CACACGCATG
* * * *
153417 TGTGTCATCTT-TTTTAATGAC-GTGTGCTTCAATGACACGCCATGTAAGTCATACATGCGTGTC
1 TGTGTCATCTTCATTT-ATGACAG-GGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTC
* * *
153480 ACAGATTTATGACACAAATG
64 ATAAATTTATGACACAAATC
* *
153500 TGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGTCAT
1 TGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTCAT
153565 AAATTTATGACACACAAATC
66 AAATTTATG--ACACAAATC
* * * * ** * *
153585 TGTGTTATCTTCATTTATGACAGGGGCTTCAATTACGCTCAATGTGCGTCATAAATGTGTGTCAT
1 TGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTCAT
153650 AAAT
66 AAAT
153654 GTGCGTCATA
Statistics
Matches: 132, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
83 61 0.46
84 4 0.03
85 67 0.51
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (83 bp):
TGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTCAT
AAATTTATGACACAAATC
Found at i:153643 original size:13 final size:13
Alignment explanation
Indices: 153625--153689 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
153615 AATTACGCTC
153625 AATGTGCGTCATA
1 AATGTGCGTCATA
*
153638 AATGTGTGTCATA
1 AATGTGCGTCATA
153651 AATGTGCGTCATA
1 AATGTGCGTCATA
*
153664 AATGTGTGTCATA
1 AATGTGCGTCATA
153677 AATGTGCGTCATA
1 AATGTGCGTCATA
153690 GATTTATGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (13 bp):
AATGTGCGTCATA
Found at i:153661 original size:26 final size:26
Alignment explanation
Indices: 153625--153689 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
153615 AATTACGCTC
153625 AATGTGCGTCATAAATGTGTGTCATA
1 AATGTGCGTCATAAATGTGTGTCATA
153651 AATGTGCGTCATAAATGTGTGTCATA
1 AATGTGCGTCATAAATGTGTGTCATA
153677 AATGTGCGTCATA
1 AATGTGCGTCATA
153690 GATTTATGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (26 bp):
AATGTGCGTCATAAATGTGTGTCATA
Found at i:154038 original size:13 final size:13
Alignment explanation
Indices: 154020--154044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
154010 GTTATTTTAT
154020 TAAAAATGAATTC
1 TAAAAATGAATTC
154033 TAAAAATGAATT
1 TAAAAATGAATT
154045 ATTTTTTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (13 bp):
TAAAAATGAATTC
Found at i:156889 original size:2 final size:2
Alignment explanation
Indices: 156884--157190 Score: 111
Period size: 2 Copynumber: 155.5 Consensus size: 2
156874 AGTATATACT
* * *
156884 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA -A CA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
156924 TT TA TA TA T- TA TA TA TA TA -A TA TT TA TA TA CT- TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * ** *
156964 TG TA TA CT- TA TA CA TA TG TA TA CT- TA TA CC TA TT TA TA TA -A
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * * * * * * * **
157005 T- TA CA CA CA TA CA CA CA TA TC TA AA AA TA TC TA TA TA TA GG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
157046 TA TG TA TA TA AA TA TA AA AA TA TA TA TA GTA TA AA GTA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
157089 TA TA -A GTA TA TG TA TA TA -A GTA TA TG TC TGA TG TA TA TA -A
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA T-A TA TA TA TA TA
*
157129 GTA TA CA TA -A GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
157172 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
157191 CATTAACATA
Statistics
Matches: 229, Mismatches: 52, Indels: 48
0.70 0.16 0.15
Matches are distributed among these distances:
1 14 0.06
2 204 0.89
3 11 0.05
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:156942 original size:25 final size:26
Alignment explanation
Indices: 156900--156948 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
156890 AATATATATA
156900 TATATATATATATATATAACATTTTT
1 TATATATATATATATATAACATTTTT
*
156926 TATATAT-TATATATATAATATTT
1 TATATATATATATATATAACATTT
156949 ATATACTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TATATATATATATATATAACATTTTT
Found at i:157531 original size:41 final size:41
Alignment explanation
Indices: 157474--157568 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
157464 TTGTCAAAAA
*
157474 TAAAATAAAATAAAATTT-CCCTCTACCCTCTTCTAAATTCC
1 TAAAAAAAAATAAAATTTCCCCTCTACCCTCTTCTAAATT-C
* *
157515 TAAAAAAAAATCAAATTTCCCCTCTTCCCTCTTCTAAATTC
1 TAAAAAAAAATAAAATTTCCCCTCTACCCTCTTCTAAATTC
157556 TCAAAAAATAAAT
1 T-AAAAAA-AAAT
157569 TTTTCCCTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
41 18 0.38
42 26 0.54
43 4 0.08
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (41 bp):
TAAAAAAAAATAAAATTTCCCCTCTACCCTCTTCTAAATTC
Found at i:158162 original size:79 final size:79
Alignment explanation
Indices: 158007--158163 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
157997 TTATTAATTT
* * *
158007 AATTATCATAATTAACAATTTATATTAACTTTTAAAGAGTAATCATATTAATTATCATAGTTTAT
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
*
158072 TTAATTGTCAAAAA
66 TTAAATGTCAAAAA
* * * * *
158086 AATTATTATAACTAATAATTTGTTTTAACTTTTAAAAAGAAATCATATTAATTATCATGGTTTAT
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
158151 TATAAAT-TCAAAA
66 T-TAAATGTCAAAA
158164 TCTCACAACT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 64 0.94
80 4 0.06
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (79 bp):
AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
TTAAATGTCAAAAA
Found at i:160156 original size:20 final size:21
Alignment explanation
Indices: 160111--160156 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
160101 ATCACATCGA
160111 ATTCATAAATAATTTTAGATG
1 ATTCATAAATAATTTTAGATG
* *
160132 TTTCAT-AATGATTTCTAGAT-
1 ATTCATAAATAATTT-TAGATG
160152 ATTCA
1 ATTCA
160157 ATTGAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (21 bp):
ATTCATAAATAATTTTAGATG
Found at i:164899 original size:32 final size:32
Alignment explanation
Indices: 164863--164994 Score: 149
Period size: 32 Copynumber: 4.1 Consensus size: 32
164853 GTGCCAACCT
* *
164863 AAGGGAATATCTTGGGGCCTGAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTTAGAGCCTACCC
* * * *
164895 AAGGGAGTACCTTAGGGCCTAAGAGCCTATCC
1 AAGGGAATACCTTGGGGCCTTAGAGCCTACCC
*
164927 AA-GGAAGTACCTTGGGGCCTTAGAGCCTACCT
1 AAGGGAA-TACCTTGGGGCCTTAGAGCCTACCC
* * * *
164959 AAAGAAATGCTTTGGGGCCTTAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTTAGAGCCTACCC
164991 AAGG
1 AAGG
164995 TCACTTAGGT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
31 3 0.04
32 77 0.93
33 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (32 bp):
AAGGGAATACCTTGGGGCCTTAGAGCCTACCC
Found at i:173151 original size:67 final size:69
Alignment explanation
Indices: 173003--173162 Score: 173
Period size: 67 Copynumber: 2.3 Consensus size: 69
172993 TTACATCGCG
* * * * *
173003 ACTCGACTCGTGCTTGTTAAAGAAAGGTTTTGTTCACTCGACTCGTTGCTCTTTAAGCTCGTTAA
1 ACTCGACTCGTGCTCGTT-AAGAAA-GTTTTGTTCACGCGACTCGTTACTCGTTAAGCTCATTAA
173068 AATTTC
64 AATTTC
** * *
173074 ACTAAACTCGTGCTCGTTAAGAAA-TTTTGTT-GCGCGACTCGTTACTCGTTAAGCTCATTAAAC
1 ACTCGACTCGTGCTCGTTAAGAAAGTTTTGTTCACGCGACTCGTTACTCGTTAAGCTCATTAAAA
173137 TCTT-
66 T-TTC
*
173141 ACTCGTCTCGTTGCTCGTTAAG
1 ACTCGACTCG-TGCTCGTTAAG
173163 TTCACCGAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
67 34 0.45
68 20 0.27
70 6 0.08
71 15 0.20
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (69 bp):
ACTCGACTCGTGCTCGTTAAGAAAGTTTTGTTCACGCGACTCGTTACTCGTTAAGCTCATTAAAA
TTTC
Found at i:176950 original size:16 final size:15
Alignment explanation
Indices: 176929--176963 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
176919 TTAGAACTTC
176929 TAATGTAATAAAAAT
1 TAATGTAATAAAAAT
176944 ATAATGTAATAAAAAT
1 -TAATGTAATAAAAAT
176960 TAAT
1 TAAT
176964 ATTGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (15 bp):
TAATGTAATAAAAAT
Found at i:179724 original size:3 final size:3
Alignment explanation
Indices: 179718--179762 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
179708 TTAAAAATAA
179718 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
179763 TGTAAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:181884 original size:39 final size:39
Alignment explanation
Indices: 181776--181897 Score: 108
Period size: 39 Copynumber: 3.2 Consensus size: 39
181766 AAATATTTAA
* * *
181776 AAAAAATTAGAATGTCA-ACGTGAAATAATTTAAGAAATT
1 AAAAATTTAGAATGTTAGA-GTGTAATAATTTAAGAAATT
* *
181815 AAAAATTTAGAATATTATGA-TACTAA-AATTTAAGAAATT
1 AAAAATTTAGAATGTTA-GAGT-GTAATAATTTAAGAAATT
** *
181854 AGGAATTTAGAATGTTAGAGTGTAATAATTTGA-AAATT
1 AAAAATTTAGAATGTTAGAGTGTAATAATTTAAGAAATT
*
181892 ATAAAT
1 AAAAAT
181898 AAACATTTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
38 14 0.21
39 49 0.74
40 2 0.03
41 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (39 bp):
AAAAATTTAGAATGTTAGAGTGTAATAATTTAAGAAATT
Found at i:182795 original size:2 final size:2
Alignment explanation
Indices: 182788--182818 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
182778 TTAATATTAA
*
182788 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
182819 AATTGATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Done.