Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 85 of 109
Found at i:17148208 original size:30 final size:27
Alignment explanation
Indices: 17148160--17148215 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 27
17148150 TCATTTTCAT
17148160 TTTATTTTCTAATTTTATTTTATTTTA
1 TTTATTTTCTAATTTTATTTTATTTTA
17148187 TTTATTTTCTTAAGCTTTTATTTTATTTT
1 TTTATTTTC-TAA--TTTTATTTTATTTT
17148216 TACTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 9 0.35
28 3 0.12
30 14 0.54
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (27 bp):
TTTATTTTCTAATTTTATTTTATTTTA
Found at i:17149193 original size:39 final size:39
Alignment explanation
Indices: 17149140--17149215 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
17149130 CTATCTTTCC
17149140 TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTACT
1 TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTACT
*
17149179 TATTTATTTCTTTTCATTGCTTATGCTTGCTTAATTA
1 TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTA
17149216 ATTAATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (39 bp):
TATTTATTTCTTTTCATTGCTTATACTTGCTTAATTACT
Found at i:17160173 original size:3 final size:3
Alignment explanation
Indices: 17160165--17160310 Score: 70
Period size: 3 Copynumber: 52.0 Consensus size: 3
17160155 ATTACTATAC
* *
17160165 TAT TAT TA- TAT TAT TA- TAG TAT TA- TAT TA- TAT TAT TAT TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
17160208 TAT GT-T GA- TAT TA- TAT TAC TAT TAT TA- TAT TAG TAT TA- TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
17160249 TA- TAC TAT AAT ATAT TAT TA- TAT TA- TAT TAGGT TAT CA- TAT TA-
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT TAT
17160292 TAGT TAT TAT TAT TAT TAT
1 TA-T TAT TAT TAT TAT TAT
17160311 CAGATTTTCT
Statistics
Matches: 110, Mismatches: 13, Indels: 40
0.67 0.08 0.25
Matches are distributed among these distances:
2 26 0.24
3 76 0.69
4 5 0.05
5 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:17160176 original size:5 final size:5
Alignment explanation
Indices: 17160168--17160310 Score: 98
Period size: 5 Copynumber: 27.2 Consensus size: 5
17160158 ACTATACTAT
* *
17160168 TATTA TATTA T-TATA GTATTA TATTA TATTA TTATTA TAGTA TGTTGA
1 TATTA TATTA TAT-TA -TATTA TATTA TATTA -TATTA TATTA TATT-A
* *
17160216 TATTA TATTA CTA-T- TATTA TATTA GTATTA TATTA TACTA TAATA TA-T-
1 TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA
*
17160264 TATTA TATTA TATTA GGTTATCA TATTA TAGTTA TTATTA TTATTA T
1 TATTA TATTA TATTA ---TATTA TATTA TA-TTA -TATTA -TATTA T
17160311 CAGATTTTCT
Statistics
Matches: 114, Mismatches: 8, Indels: 32
0.74 0.05 0.21
Matches are distributed among these distances:
3 4 0.04
4 4 0.04
5 68 0.60
6 31 0.27
7 3 0.03
8 4 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:17160301 original size:9 final size:8
Alignment explanation
Indices: 17160165--17160310 Score: 86
Period size: 8 Copynumber: 17.1 Consensus size: 8
17160155 ATTACTATAC
17160165 TATTATTA
1 TATTATTA
17160173 TATTATTA
1 TATTATTA
*
17160181 TAGTATTA
1 TATTATTA
17160189 TATTA-TA
1 TATTATTA
17160196 TTATTATTA
1 -TATTATTA
*
17160205 TAGTATGTTGA
1 TA-T-TATT-A
17160216 TATTATATTA
1 TA-T-TATTA
17160226 CTATTATTA
1 -TATTATTA
*
17160235 TATTAGTA
1 TATTATTA
17160243 T-TATATTA
1 TAT-TATTA
* *
17160251 TACTATAA
1 TATTATTA
17160259 TA-TATTA
1 TATTATTA
17160266 T-TATATTA
1 TAT-TATTA
17160274 TATTAGGTTA
1 TATTA--TTA
17160284 TCA-TATTA
1 T-ATTATTA
17160292 TAGTTATTA
1 TA-TTATTA
17160301 TTATTATTA
1 -TATTATTA
17160310 T
1 T
17160311 CAGATTTTCT
Statistics
Matches: 111, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
7 9 0.08
8 58 0.52
9 20 0.18
10 13 0.12
11 11 0.10
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (8 bp):
TATTATTA
Found at i:17161131 original size:13 final size:13
Alignment explanation
Indices: 17161115--17161145 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17161105 TTTTATCTTC
17161115 ATTTTATTTTTTG
1 ATTTTATTTTTTG
*
17161128 ATTTGATTTTTTG
1 ATTTTATTTTTTG
17161141 ATTTT
1 ATTTT
17161146 CTTAAGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.74
Consensus pattern (13 bp):
ATTTTATTTTTTG
Found at i:17161171 original size:21 final size:20
Alignment explanation
Indices: 17161136--17161202 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
17161126 TGATTTGATT
*
17161136 TTTTGATTTTCTTAAGTTTTA
1 TTTT-ATTTTATTAAGTTTTA
*
17161157 TTTTATCTTTATTAATTTTTTA
1 TTTTAT-TTTATTAA-GTTTTA
* * *
17161179 TTTAATTTTACT-AGTTTTT
1 TTTTATTTTATTAAGTTTTA
17161198 TTTTA
1 TTTTA
17161203 AAAAGAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 8 0.22
20 3 0.08
21 16 0.43
22 10 0.27
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATTAAGTTTTA
Found at i:17161177 original size:22 final size:21
Alignment explanation
Indices: 17161152--17161203 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
17161142 TTTTCTTAAG
* *
17161152 TTTTATTTTATCTTTATTAATT
1 TTTTATTTAAT-TTTACTAATT
*
17161174 TTTTATTTAATTTTACTAGTT
1 TTTTATTTAATTTTACTAATT
17161195 TTTT-TTTAA
1 TTTTATTTAA
17161204 AAAGAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 5 0.19
21 12 0.44
22 10 0.37
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTATTTAATTTTACTAATT
Found at i:17164852 original size:61 final size:62
Alignment explanation
Indices: 17164754--17164885 Score: 185
Period size: 61 Copynumber: 2.1 Consensus size: 62
17164744 TATAGTTCAA
* * * * *
17164754 TTTTTTTTGGGCCTTAACTTTTTCCTAAGTGATCTTTTGCAAGATTTTCAACTTAGCATGTC
1 TTTTTTTTGGGCCTTAACTTTTGCCTAAGTCACCTTTTGCAAGATTTTCAACTTAGCAAGCC
* * *
17164816 TTTTTTTTTGTCC-TAACTTTTGCCTAAGTCACCTTTTGTAAGATTTTCAACTTAGCAAGCC
1 TTTTTTTTGGGCCTTAACTTTTGCCTAAGTCACCTTTTGCAAGATTTTCAACTTAGCAAGCC
17164877 TTTTTTTTG
1 TTTTTTTTG
17164886 TTGTATCATA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
61 50 0.82
62 11 0.18
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (62 bp):
TTTTTTTTGGGCCTTAACTTTTGCCTAAGTCACCTTTTGCAAGATTTTCAACTTAGCAAGCC
Found at i:17175161 original size:13 final size:13
Alignment explanation
Indices: 17175143--17175185 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
17175133 TTTTTAACAA
*
17175143 AAAAAAAGTGAAC
1 AAAAAAAGTAAAC
17175156 AAAAAAAGTAAAC
1 AAAAAAAGTAAAC
17175169 AAACAAAAG-AAAC
1 AAA-AAAAGTAAAC
17175182 AAAA
1 AAAA
17175186 TAAGACAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 1 0.04
13 22 0.79
14 5 0.18
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.05
Consensus pattern (13 bp):
AAAAAAAGTAAAC
Found at i:17176068 original size:18 final size:19
Alignment explanation
Indices: 17176035--17176070 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17176025 GACCGGGACC
17176035 GAACCGCCCAGACCGAACT
1 GAACCGCCCAGACCGAACT
*
17176054 GAACCG-CCGGACCGAAC
1 GAACCGCCCAGACCGAAC
17176071 CGCCTAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.42, G:0.25, T:0.03
Consensus pattern (19 bp):
GAACCGCCCAGACCGAACT
Found at i:17176170 original size:19 final size:19
Alignment explanation
Indices: 17176130--17176171 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
17176120 GTAAAAAAAA
* *
17176130 TATTTTTTTTAATTTTTCT
1 TATTTTTTATAATTATTCT
17176149 TATTTTTTATATATTATT-T
1 TATTTTTTATA-ATTATTCT
17176168 TATT
1 TATT
17176172 AATATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTTATAATTATTCT
Found at i:17177123 original size:194 final size:190
Alignment explanation
Indices: 17176790--17177167 Score: 585
Period size: 194 Copynumber: 2.0 Consensus size: 190
17176780 CACGCATGAT
* * * * * *
17176790 ATTTTTTTACGAAAAATAAATTCGAGCCTCCGAGGATGAGATTCTAAGGTATTCCGAGAAGCGAT
1 ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAGTATTCCAAGAAGAGAT
* * *
17176855 GCCTAAGAAATCTTTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTATTGGAACATTTTAAG
66 GCCTAAGAAATCTCTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGAAACATTTTAAG
17176920 AATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTTTAACATAAC
131 AATTATTTCAATAAAAAGGTTTTAATTTA-TTTTCTCGAGAAT-AATTTTTTTTAACATAAC
*
17176982 ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCAAGTAGAGA
1 ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCT-AAAGTATTCCAAGAAGAGA
* * * *
17177047 TGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGAAATATTTTA
65 TGC-CTAAGAAATCTCTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGAAACATTTTA
*
17177112 AGAATTATTTCAATAAAAAGGTTTTGATTTATTTTCTCGAGAATAATTTTTTTTAA
129 AGAATTATTTCAATAAAAAGGTTTTAATTTATTTTCTCGAGAATAATTTTTTTTAA
17177168 TAAATAAAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
192 54 0.32
193 31 0.18
194 84 0.50
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (190 bp):
ATTTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAGTATTCCAAGAAGAGAT
GCCTAAGAAATCTCTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGAAACATTTTAAG
AATTATTTCAATAAAAAGGTTTTAATTTATTTTCTCGAGAATAATTTTTTTTAACATAAC
Found at i:17180098 original size:32 final size:31
Alignment explanation
Indices: 17180062--17180121 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
17180052 AGGATAAATC
* *
17180062 ATAAATTAATTTCACTAAAATTAAAATTTGAG
1 ATAAATTAA-CTCACTAAAATGAAAATTTGAG
*
17180094 ATAAATTGACTCACTAAAATGAAAATTT
1 ATAAATTAACTCACTAAAATGAAAATTT
17180122 AAGAATCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (31 bp):
ATAAATTAACTCACTAAAATGAAAATTTGAG
Found at i:17186297 original size:21 final size:21
Alignment explanation
Indices: 17186271--17186312 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17186261 AAGTGATGGC
17186271 TGTGACCCGATTCCACAACAG
1 TGTGACCCGATTCCACAACAG
*
17186292 TGTGACCCTATTCCACAACAG
1 TGTGACCCGATTCCACAACAG
17186313 ATAAATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (21 bp):
TGTGACCCGATTCCACAACAG
Found at i:17208599 original size:12 final size:13
Alignment explanation
Indices: 17208573--17208604 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17208563 CCAAAAAGAT
17208573 AAAAAGAAAATAA
1 AAAAAGAAAATAA
17208586 AAAAAGAAAA-AA
1 AAAAAGAAAATAA
17208598 AAAAAGA
1 AAAAAGA
17208605 TGTGATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (13 bp):
AAAAAGAAAATAA
Found at i:17210302 original size:99 final size:99
Alignment explanation
Indices: 17209992--17210580 Score: 671
Period size: 99 Copynumber: 6.0 Consensus size: 99
17209982 CATTTATATT
* ** *
17209992 TTCTCGGTGGTGATATTTGAGTATTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
* * *
17210057 TCTTTCAGTGGCAATATCCGAAGTCATTTGTATC
66 TCCTTCAGTGGCAATATCCAAAGTCATTTGCATC
** * * * * *
17210091 TTCTTGGTGGTGATATCCGAGTGTTAAAACTTGAATTGTATTTTCTCGATGATGATACTC-ATTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
* * * *
17210155 TCCTTTATTGGCGATATCCAAAGTCATTGGCATC
66 TCCTTCAGTGGCAATATCCAAAGTCATTTGCATC
* * ** *
17210189 TTCTCAATGGTGATATTCGAGTGTTAAAACTTGAATTGCATTTTCTCAATGGTGATATTTGAGTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
** * *
17210254 TCCTTCAGTGAAAATATTCAAAGTCAATTGCATC
66 TCCTTCAGTGGCAATATCCAAAGTCATTTGCATC
* ** * * **
17210288 TTCTCAATGGTGATATCTAAGTGTTAAAGCTTGAATTACATTTTCTTGATGGTGATATTCGAGTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
** *
17210353 TCCTTC-GATGGCAATATCTGAAGTCATTTGCATA
66 TCCTTCAG-TGGCAATATCCAAAGTCATTTGCATC
* * * * * *
17210387 TTCTCAGTGGTGATATCCGAATGTTAAAGCTTGGATTGTATTTTCTTAATGGTGATATTCGATTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
**
17210452 TCCTTCAGTGGTGATATCCAAAGTCATTTGCATC
66 TCCTTCAGTGGCAATATCCAAAGTCATTTGCATC
* * * * * *
17210486 TTTTCGGTGGTGATATCCGAGTGCTAAAGCTTGAATTATATTTTTTCGATGGTGATATTCGAGTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
* *
17210551 TCCTTCA-TGGCGATATCCAAAATCATTTGC
66 TCCTTCAGTGGCAATATCCAAAGTCATTTGC
17210581 GTATTTTCGG
Statistics
Matches: 412, Mismatches: 75, Indels: 7
0.83 0.15 0.01
Matches are distributed among these distances:
98 103 0.25
99 308 0.75
100 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (99 bp):
TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
TCCTTCAGTGGCAATATCCAAAGTCATTTGCATC
Found at i:17210456 original size:198 final size:197
Alignment explanation
Indices: 17209992--17210611 Score: 749
Period size: 197 Copynumber: 3.1 Consensus size: 197
17209982 CATTTATATT
* ** * *
17209992 TTCTCGGTGGTGATATTTGAGTATTAAAACTTGAATTATATTTTCTCAATGGTGATATTCGAGTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTGTATTTTCTCAATGGTGATATTCGAGTT
* * * * * *
17210057 TCTTTCAGTGGCAATATCCGAAGTCATTTGTATCTTCTTGGTGGTGATATCCGAGTGTTAAAACT
66 TCCTTCAGTGGAAATATCCAAAGTCATTTGCATCTTCTCGGTGGTGATATCCGAGTGTTAAAGCT
* * * * * * *
17210122 TGAATTGTATTTTCTCGATGATGATACTC-ATTTTCCTTTATTGGCGATATCCAAAGTCATTGGC
131 TGAATTATATTTTCTTGATGGTGATATTCGAGTTTCCTTCA-TGGCGATATCCAAAGTCATTTGC
*
17210186 ATC
195 ATA
* * * *
17210189 TTCTCAATGGTGATATTCGAGTGTTAAAACTTGAATTGCATTTTCTCAATGGTGATATTTGAGTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTGTATTTTCTCAATGGTGATATTCGAGTT
* * * ** **
17210254 TCCTTCAGTGAAAATATTCAAAGTCAATTGCATCTTCTCAATGGTGATATCTAAGTGTTAAAGCT
66 TCCTTCAGTGGAAATATCCAAAGTCATTTGCATCTTCTCGGTGGTGATATCCGAGTGTTAAAGCT
* * **
17210319 TGAATTACATTTTCTTGATGGTGATATTCGAGTTTCCTTCGATGGCAATATCTGAAGTCATTTGC
131 TGAATTATATTTTCTTGATGGTGATATTCGAGTTTCCTTC-ATGGCGATATCCAAAGTCATTTGC
17210384 ATA
195 ATA
* * * * *
17210387 TTCTCAGTGGTGATATCCGAATGTTAAAGCTTGGATTGTATTTTCTTAATGGTGATATTCGATTT
1 TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTGTATTTTCTCAATGGTGATATTCGAGTT
** * *
17210452 TCCTTCAGTGGTGATATCCAAAGTCATTTGCATCTTTTCGGTGGTGATATCCGAGTGCTAAAGCT
66 TCCTTCAGTGGAAATATCCAAAGTCATTTGCATCTTCTCGGTGGTGATATCCGAGTGTTAAAGCT
*
17210517 TGAATTATATTTT-TTCGATGGTGATATTCGAGTTTCCTTCATGGCGATATCCAAAATCATTTGC
131 TGAATTATATTTTCTT-GATGGTGATATTCGAGTTTCCTTCATGGCGATATCCAAAGTCATTTGC
*
17210581 GTA
195 ATA
* * * * *
17210584 TTTTCGGTGGCGATATCCAAGTATTAAA
1 TTCTCAGTGGTGATATCCGAGTGTTAAA
17210612 GTTTAAAATG
Statistics
Matches: 356, Mismatches: 64, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
197 180 0.51
198 175 0.49
199 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (197 bp):
TTCTCAGTGGTGATATCCGAGTGTTAAAACTTGAATTGTATTTTCTCAATGGTGATATTCGAGTT
TCCTTCAGTGGAAATATCCAAAGTCATTTGCATCTTCTCGGTGGTGATATCCGAGTGTTAAAGCT
TGAATTATATTTTCTTGATGGTGATATTCGAGTTTCCTTCATGGCGATATCCAAAGTCATTTGCA
TA
Found at i:17210804 original size:49 final size:49
Alignment explanation
Indices: 17210748--17210870 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 49
17210738 AATGGTACAA
* * * * *
17210748 TTTAAAGTTGTTGAGCTTTTGCTTAGAGGAGCTTTTTCAAGATAAAATT
1 TTTAAAGTTATTGAGCCTCTGCTTAAAAGAGCTTTTTCAAGATAAAATT
* *
17210797 TTTAAAGTTATTGAGCCTCTGTTTAAAAGAGCTTTTTCAAGATGAAATT
1 TTTAAAGTTATTGAGCCTCTGCTTAAAAGAGCTTTTTCAAGATAAAATT
*
17210846 TTTAAAGTTATTGAGCCTCTACTTA
1 TTTAAAGTTATTGAGCCTCTGCTTA
17210871 GAGAAACGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (49 bp):
TTTAAAGTTATTGAGCCTCTGCTTAAAAGAGCTTTTTCAAGATAAAATT
Found at i:17211049 original size:12 final size:12
Alignment explanation
Indices: 17211008--17211055 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
17210998 TAGACACCTA
*
17211008 TTTTATTTTTAT
1 TTTTATTTTTTT
17211020 TTTTATGTTTTTT
1 TTTTAT-TTTTTT
* *
17211033 CTTTCTTTTTTT
1 TTTTATTTTTTT
*
17211045 TTTTCTTTTTT
1 TTTTATTTTTT
17211056 CTTTCATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 22 0.71
13 9 0.29
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTATTTTTTT
Found at i:17211053 original size:23 final size:25
Alignment explanation
Indices: 17211013--17211060 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
17211003 ACCTATTTTA
*
17211013 TTTTTATTTTTATGTTTTTTCTTTC
1 TTTTTATTTTTATCTTTTTTCTTTC
17211038 TTTTT-TTTTT-TCTTTTTTCTTTC
1 TTTTTATTTTTATCTTTTTTCTTTC
17211061 ATCATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
24 5 0.23
25 5 0.23
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.83
Consensus pattern (25 bp):
TTTTTATTTTTATCTTTTTTCTTTC
Found at i:17211068 original size:23 final size:23
Alignment explanation
Indices: 17211018--17211071 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
17211008 TTTTATTTTT
* * * *
17211018 ATTTTTATGTTTTTTCTTTCTTT
1 ATTTTTTTCTTTTTTCTTTCATC
*
17211041 TTTTTTTTCTTTTTTCTTTCATC
1 ATTTTTTTCTTTTTTCTTTCATC
17211064 ATTTTTTT
1 ATTTTTTT
17211072 TGGTGCTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (23 bp):
ATTTTTTTCTTTTTTCTTTCATC
Found at i:17212105 original size:12 final size:11
Alignment explanation
Indices: 17212087--17212119 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
17212077 AATAAATCTT
17212087 ATAAAATAATA
1 ATAAAATAATA
17212098 ATTAAAATAATA
1 A-TAAAATAATA
17212110 ATAAAA-AATA
1 ATAAAATAATA
17212120 TAAGAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 11 0.52
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:17217569 original size:13 final size:13
Alignment explanation
Indices: 17217549--17217590 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17217539 AAAAATGATT
17217549 AAAT-AAAAATTA
1 AAATCAAAAATTA
*
17217561 AAATCAAAAATCA
1 AAATCAAAAATTA
*
17217574 AAATCGATAAATTA
1 AAATC-AAAAATTA
17217588 AAA
1 AAA
17217591 ATCTTATTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.16
13 12 0.48
14 9 0.36
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATCAAAAATTA
Found at i:17220472 original size:40 final size:41
Alignment explanation
Indices: 17220411--17220514 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 41
17220401 AGCTATTCCA
17220411 TAAAATAA-CTTTCACCAAAACAGTCTTATCACATATTTCG
1 TAAAATAACCTTTCACCAAAACAGTCTTATCACATATTTCG
* * * * *
17220451 TAAAATAACCTTT-GCCGAAACAGTCTTATCACCTGTTTTG
1 TAAAATAACCTTTCACCAAAACAGTCTTATCACATATTTCG
**
17220491 TAAAATAA-CTTTCACTGAAACAGT
1 TAAAATAACCTTTCACCAAAACAGT
17220515 ATTTTCTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 4 0.07
40 47 0.85
41 4 0.07
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (41 bp):
TAAAATAACCTTTCACCAAAACAGTCTTATCACATATTTCG
Found at i:17224243 original size:3 final size:3
Alignment explanation
Indices: 17224235--17224263 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17224225 GTTAAAGTTT
17224235 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17224264 GTTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17225499 original size:33 final size:34
Alignment explanation
Indices: 17225439--17225521 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 34
17225429 CCATATCTAG
*
17225439 TAAATTTTATAACTTACTAAAATCAAATTTCTGA
1 TAAATTTTATAACTTACCAAAATCAAATTTCTGA
*
17225473 TAAATTTTA-AACTTACCAGAAA-CAAATTTTTGA
1 TAAATTTTATAACTTACCA-AAATCAAATTTCTGA
17225506 TAAATTTTATAACTTA
1 TAAATTTTATAACTTA
17225522 AAGAAAATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 27 0.60
34 18 0.40
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (34 bp):
TAAATTTTATAACTTACCAAAATCAAATTTCTGA
Found at i:17225535 original size:34 final size:33
Alignment explanation
Indices: 17225439--17225536 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 33
17225429 CCATATCTAG
** *
17225439 TAAATTTTATAACTT-ACTAAAATCAAATTTCTGA
1 TAAATTTTATAACTTAAAGAAAAT--AATTTTTGA
*
17225473 TAAATTTTA-AACTTACCAGAAACA-AATTTTTGA
1 TAAATTTTATAACTTA-AAGAAA-ATAATTTTTGA
17225506 TAAATTTTATAACTTAAAGAAAATGAATTTT
1 TAAATTTTATAACTTAAAGAAAAT-AATTTT
17225537 CAAAAAGTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
32 1 0.02
33 27 0.51
34 21 0.40
35 3 0.06
36 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (33 bp):
TAAATTTTATAACTTAAAGAAAATAATTTTTGA
Found at i:17226226 original size:22 final size:22
Alignment explanation
Indices: 17226201--17226260 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
17226191 CAATCTGACC
17226201 TTAAATTAATAAAATA-TATTTT
1 TTAAATT-ATAAAATATTATTTT
*
17226223 TTAAAATATAAAATATTA-TTT
1 TTAAATTATAAAATATTATTTT
*
17226244 TTAAAATATAAATATAT
1 TTAAATTATAAA-ATAT
17226261 AATTATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 23 0.66
22 12 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAAATTATAAAATATTATTTT
Found at i:17226234 original size:21 final size:22
Alignment explanation
Indices: 17226209--17226261 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
17226199 CCTTAAATTA
17226209 ATAAAATATAT-TTTTTAAAAT
1 ATAAAATATATATTTTTAAAAT
17226230 ATAAAATAT-TATTTTTAAAAT
1 ATAAAATATATATTTTTAAAAT
17226251 AT-AAATATATA
1 ATAAAATATATA
17226262 ATTATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAATATATATTTTTAAAAT
Found at i:17227698 original size:18 final size:18
Alignment explanation
Indices: 17227666--17227714 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
17227656 TCAACTACTC
*
17227666 TTTTTCTTTCTTTCTCTT
1 TTTTTTTTTCTTTCTCTT
17227684 ATTTTTTTTTC-TTCTC-T
1 -TTTTTTTTTCTTTCTCTT
17227701 TTTTTTTTTCTTTC
1 TTTTTTTTTCTTTC
17227715 CCTTCCTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 10 0.36
17 4 0.14
18 5 0.18
19 9 0.32
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTCTTTCTCTT
Found at i:17227712 original size:16 final size:18
Alignment explanation
Indices: 17227666--17227709 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
17227656 TCAACTACTC
*
17227666 TTTTTCTTTCTTTCTCTTA
1 TTTTTTTTTC-TTCTCTTA
17227685 TTTTTTTTTCTTCTCTT-
1 TTTTTTTTTCTTCTCTTA
17227702 TTTTTTTT
1 TTTTTTTT
17227710 CTTTCCCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTCTTCTCTTA
Found at i:17227761 original size:8 final size:8
Alignment explanation
Indices: 17227748--17227786 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
17227738 GCCAACAAAA
17227748 CTTTTTTT
1 CTTTTTTT
17227756 CTTTTTTT
1 CTTTTTTT
17227764 CTTTCTTTCT
1 CTTT-TTT-T
*
17227774 CTTTTCTT
1 CTTTTTTT
17227782 CTTTT
1 CTTTT
17227787 CTCCTCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 18 0.64
9 5 0.18
10 5 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
CTTTTTTT
Found at i:17231174 original size:19 final size:19
Alignment explanation
Indices: 17231152--17231190 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17231142 ATGAAAATGA
17231152 TATTTTTATGTTAAA-ATTT
1 TATTTTTAT-TTAAATATTT
17231171 TATTTTTATTTAAATATTT
1 TATTTTTATTTAAATATTT
17231190 T
1 T
17231191 TTAACTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTTTTATTTAAATATTT
Found at i:17231787 original size:7 final size:7
Alignment explanation
Indices: 17231771--17231880 Score: 50
Period size: 7 Copynumber: 15.4 Consensus size: 7
17231761 TTTCTCCTAA
*
17231771 TTTCTCT
1 TTTCTTT
17231778 TTTCTTT
1 TTTCTTT
17231785 TTT-TTT
1 TTTCTTT
17231791 TTTGCTTT
1 TTT-CTTT
*
17231799 CTCTCTTCT
1 -TTTCTT-T
17231808 TTT-TTT
1 TTTCTTT
*
17231814 TTACTTT
1 TTTCTTT
17231821 TTTCCTTT
1 TTT-CTTT
17231829 TTT-TCTT
1 TTTCT-TT
** **
17231836 CATCTAC
1 TTTCTTT
17231843 TTTCTTT
1 TTTCTTT
*
17231850 TTTATTT
1 TTTCTTT
17231857 TTT-TTT
1 TTTCTTT
17231863 CTTT-TTT
1 -TTTCTTT
17231870 TTTCCTTT
1 TTT-CTTT
17231878 TTT
1 TTT
17231881 TTTCTCGGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
6 16 0.21
7 37 0.47
8 22 0.28
9 3 0.04
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (7 bp):
TTTCTTT
Found at i:17231832 original size:22 final size:22
Alignment explanation
Indices: 17231777--17231883 Score: 67
Period size: 22 Copynumber: 4.7 Consensus size: 22
17231767 CTAATTTCTC
*
17231777 TTTT-CTTTTTTTTTTTTGC-T
1 TTTTCCTTTTTTTTTTTTACTT
* *
17231797 TTCTCTCTTCTTTTTTTTTACTT
1 TTTTC-CTTTTTTTTTTTTACTT
*
17231820 TTTTCCTTTTTTTCTTCATCTACTT
1 TTTTCCTTTTTTT-TT--TTTACTT
* **
17231845 TCTTT-TTTATTTTTTTTTCTTTTT
1 T-TTTCCTT-TTTTTTTTT-TACTT
17231869 TTTTCCTTTTTTTTT
1 TTTTCCTTTTTTTTT
17231884 CTCGGCTAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
20 3 0.05
22 20 0.30
23 18 0.27
24 6 0.09
25 11 0.17
26 8 0.12
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.79
Consensus pattern (22 bp):
TTTTCCTTTTTTTTTTTTACTT
Found at i:17231868 original size:11 final size:11
Alignment explanation
Indices: 17231854--17231884 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17231844 TTCTTTTTTA
17231854 TTTTTTTTT-C
1 TTTTTTTTTCC
17231864 TTTTTTTTTCC
1 TTTTTTTTTCC
17231875 TTTTTTTTTC
1 TTTTTTTTTC
17231885 TCGGCTAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:17231872 original size:40 final size:42
Alignment explanation
Indices: 17231777--17231873 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 42
17231767 CTAATTTCTC
* *
17231777 TTTTCTTTTTTTTTTTTGCTTTCTCTCTTCTTTTTTTTTACTT
1 TTTTCTTTTTTTTTCTTGCTATCTCTCTTCTTTTTTTTTA-TT
*
17231820 TTTTC-CTTTTTTTCTT-C-ATCTACT-TTCTTTTTTATTT-TT
1 TTTTCTTTTTTTTTCTTGCTATCT-CTCTTCTTTTTT-TTTATT
17231859 TTTTCTTTTTTTTTC
1 TTTTCTTTTTTTTTC
17231874 CTTTTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
39 7 0.15
40 20 0.43
41 6 0.13
42 9 0.19
43 5 0.11
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.78
Consensus pattern (42 bp):
TTTTCTTTTTTTTTCTTGCTATCTCTCTTCTTTTTTTTTATT
Found at i:17231954 original size:6 final size:6
Alignment explanation
Indices: 17231943--17231972 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
17231933 CTCTTCATTT
17231943 TTTTTC TTTTTC TTTTTC TTTTTCC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTT-C TTTTT
17231973 TCCAGCCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:17233097 original size:7 final size:7
Alignment explanation
Indices: 17233087--17233171 Score: 57
Period size: 7 Copynumber: 12.0 Consensus size: 7
17233077 TATTTTTTAA
17233087 GTTTTTT
1 GTTTTTT
17233094 GTTTCTTTT
1 G-TT-TTTT
*
17233103 CTTTTTTT
1 GT-TTTTT
17233111 GTTTTTT
1 GTTTTTT
*
17233118 ATTTTTT
1 GTTTTTT
*
17233125 ATTTTTT
1 GTTTTTT
**
17233132 -ACTTTT
1 GTTTTTT
17233138 -TTTTTT
1 GTTTTTT
*
17233144 GTTTTTG
1 GTTTTTT
*
17233151 GTTTTTG
1 GTTTTTT
*
17233158 GTTATTT
1 GTTTTTT
17233165 GTTTTTT
1 GTTTTTT
17233172 TTAGAGGCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
6 8 0.13
7 42 0.67
8 8 0.13
9 5 0.08
ACGTcount: A:0.05, C:0.04, G:0.11, T:0.81
Consensus pattern (7 bp):
GTTTTTT
Found at i:17233332 original size:46 final size:45
Alignment explanation
Indices: 17233206--17233445 Score: 170
Period size: 46 Copynumber: 5.3 Consensus size: 45
17233196 GCTTAAAAAT
* *
17233206 TTTTGAAAATAAATTTAAAAACTCTTTTAAGG-AAAGCCTCAACT-AC
1 TTTTGAAAATAAATTTAAAATCTC-TTT-AGGTAAAGGCTCAA-TAAC
*
17233252 TTTTGAAAATAAATTTAAACA-CTCTTTAAAGTAAAGGCTCAATAAC
1 TTTTGAAAATAAATTTAAA-ATCTCTTT-AGGTAAAGGCTCAATAAC
* * * **
17233298 TTTTGATAATAAATTTTAAAATTTCTTTTGGTAAACACTC---AAC
1 TTTTGAAAATAAA-TTTAAAATCTCTTTAGGTAAAGGCTCAATAAC
* * * * * *
17233341 TTTTAAAAATAAATTTAAAATTTTCATTAGGTAAAAGCTTAATGAC
1 TTTTGAAAATAAATTTAAAA-TCTCTTTAGGTAAAGGCTCAATAAC
** * * *
17233387 TTTTGAAAATAAATTTAAAGGCT-TATTTGAGTAAAGGCTCAACAAT
1 TTTTGAAAATAAATTTAAAATCTCT-TTAG-GTAAAGGCTCAATAAC
*
17233433 TTTTTAAAATAAA
1 TTTTGAAAATAAA
17233446 ACTCATCTTG
Statistics
Matches: 155, Mismatches: 28, Indels: 22
0.76 0.14 0.11
Matches are distributed among these distances:
42 7 0.05
43 28 0.18
45 11 0.07
46 97 0.63
47 12 0.08
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.37
Consensus pattern (45 bp):
TTTTGAAAATAAATTTAAAATCTCTTTAGGTAAAGGCTCAATAAC
Found at i:17233629 original size:31 final size:31
Alignment explanation
Indices: 17233576--17233634 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
17233566 TCATCAATGT
* * *
17233576 GCTAGCTAAACTGAGCTTAAATCTCATCAAA
1 GCTAACTAAACTAAGCTCAAATCTCATCAAA
17233607 GCTAACTAAACTAAGCTCAAATCTCATC
1 GCTAACTAAACTAAGCTCAAATCTCATC
17233635 TGAATGCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (31 bp):
GCTAACTAAACTAAGCTCAAATCTCATCAAA
Found at i:17233814 original size:33 final size:33
Alignment explanation
Indices: 17233766--17233838 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
17233756 TATTGGAGTC
17233766 AACTAAACTGAGCTTAAATCTCATCTAGATGCA
1 AACTAAACTGAGCTTAAATCTCATCTAGATGCA
* * * * * *
17233799 AACTAAATTGGGCTTAACTCTCATTTGGGTGCA
1 AACTAAACTGAGCTTAAATCTCATCTAGATGCA
17233832 AACTAAA
1 AACTAAA
17233839 ATTAGGTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (33 bp):
AACTAAACTGAGCTTAAATCTCATCTAGATGCA
Found at i:17234051 original size:13 final size:13
Alignment explanation
Indices: 17234013--17234058 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
17234003 ATGCTATACT
17234013 TTTTTGTCTCTTTGC
1 TTTTT-TCTCTTT-C
*
17234028 TTTCTTC-CTTTC
1 TTTTTTCTCTTTC
17234040 TTTTTTCTCTTTC
1 TTTTTTCTCTTTC
17234053 TTTTTT
1 TTTTTT
17234059 TTTATTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 7 0.25
13 15 0.54
14 2 0.07
15 4 0.14
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTTTCTCTTTC
Found at i:17235034 original size:22 final size:20
Alignment explanation
Indices: 17235005--17235046 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
17234995 CATAATAAAA
17235005 ATGAATGAATGCATGAATGAT
1 ATGAATGAATGCATG-ATGAT
17235026 ATGATATGAATGCATGATGAT
1 ATGA-ATGAATGCATGATGAT
17235047 TTAAATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (20 bp):
ATGAATGAATGCATGATGAT
Found at i:17235054 original size:22 final size:22
Alignment explanation
Indices: 17235009--17235055 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
17234999 ATAAAAATGA
*
17235009 ATGAATGCATGAATGATATGAT
1 ATGAATGCATGAATGATATAAT
*
17235031 ATGAATGCATG-ATGATTTAAAT
1 ATGAATGCATGAATGATAT-AAT
17235053 ATG
1 ATG
17235056 TATGGCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (22 bp):
ATGAATGCATGAATGATATAAT
Found at i:17235184 original size:7 final size:7
Alignment explanation
Indices: 17235168--17235218 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
17235158 GGGGTCTAGA
17235168 TTAGGGT
1 TTAGGGT
*
17235175 TTAGGAT
1 TTAGGGT
17235182 TTAGGGT
1 TTAGGGT
*
17235189 TTAAGGT
1 TTAGGGT
*
17235196 TTAGAGT
1 TTAGGGT
*
17235203 TTTGGGT
1 TTAGGGT
*
17235210 TTAAGGT
1 TTAGGGT
17235217 TT
1 TT
17235219 TAGGTTTCAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:17235187 original size:14 final size:13
Alignment explanation
Indices: 17235168--17235225 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
17235158 GGGGTCTAGA
17235168 TTAGGGTTTAGGAT
1 TTAGGGTTTAGG-T
17235182 TTAGGGTTTAAGGT
1 TTAGGGTTT-AGGT
* *
17235196 TTAGAGTTTTGGGT
1 TTAG-GGTTTAGGT
*
17235210 TTAAGGTTTTAGGT
1 TT-AGGGTTTAGGT
17235224 TT
1 TT
17235226 CAAATTAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 29 0.76
15 9 0.24
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (13 bp):
TTAGGGTTTAGGT
Found at i:17235225 original size:21 final size:20
Alignment explanation
Indices: 17235172--17235225 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
17235162 TCTAGATTAG
17235172 GGTTTAGGATTTAGGGTTTAA
1 GGTTTAGG-TTTAGGGTTTAA
*
17235193 GGTTTAGAGTTTTGGGTTTAA
1 GGTTTAG-GTTTAGGGTTTAA
17235214 GGTTTTAGGTTT
1 GG-TTTAGGTTT
17235226 CAAATTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (20 bp):
GGTTTAGGTTTAGGGTTTAA
Found at i:17235276 original size:14 final size:14
Alignment explanation
Indices: 17235243--17235282 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17235233 AAGATTTAGG
*
17235243 GTTTTAGGGCTTAG
1 GTTTTAGGGCTTAA
* *
17235257 GGTTTAAGGCTTAA
1 GTTTTAGGGCTTAA
17235271 GTTTTAGGGCTT
1 GTTTTAGGGCTT
17235283 TTAAGATTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.33, T:0.42
Consensus pattern (14 bp):
GTTTTAGGGCTTAA
Found at i:17235322 original size:17 final size:17
Alignment explanation
Indices: 17235300--17235355 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
17235290 TTAGGGTTTC
*
17235300 AAATTTGGGATTTTATG
1 AAATTTGGGATTTTATA
*
17235317 AAATTTGGGGTTTTATA
1 AAATTTGGGATTTTATA
*
17235334 AAATTTGAGG-TTTCATA
1 AAATTTG-GGATTTTATA
17235351 AAATT
1 AAATT
17235356 ATGCAAGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 33 0.94
18 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.45
Consensus pattern (17 bp):
AAATTTGGGATTTTATA
Found at i:17241584 original size:211 final size:207
Alignment explanation
Indices: 17241140--17241758 Score: 807
Period size: 211 Copynumber: 3.0 Consensus size: 207
17241130 AATAATCATC
* * * * *
17241140 ATCATCATCATCATCAACAACAACAAGAACGCCAATAAAAGCACTTACTTATTTGTCAAAATCTT
1 ATCATCATCATCATCAACAACAACAAGAACCCCAACAAAAACACATACATATTTGTCAAAATCTT
* * * * *
17241205 AAAATTTTCTTTGTAAAAGAA-AAAAAAAGAAAAAAATTTAAATTTTCTTGTTAATTTGTGAGCT
66 GAAATTTTCTTTGTAAAAGAAGAAAAAAAGAAAAAAGTTTGAATTTTCTTATTGATTTGTGAGCT
* * * * *
17241269 TTTTTAATCTAGGTCAATGGCAGAATCAA-AAAATAACAAGG-TAA-CAATCATCTAAGTCAATG
131 TTTTTAATCTGGGTCGATGGCAGAAT-AAGGAAATAACAAGGCAAATC-ATCATCTAGGTCAATG
17241331 TTCTTCAATCAATA
194 TTCTTCAATCAATA
* * *
17241345 ATCACCATCATCATCAGCAATAACAAGAACCCCAACAAAAACACATACATATTTGTCAAAATCTT
1 ATCATCATCATCATCAACAACAACAAGAACCCCAACAAAAACACATACATATTTGTCAAAATCTT
* * * *
17241410 GAACTTTTCTTTGTAAAAGAAAAGAATAAAAAGAAAAAAGTTTGAATTTTTTTATTGATGTATGA
66 GAAATTTTCTTTGTAAAAG--AAGAA-AAAAAGAAAAAAGTTTGAATTTTCTTATTGATTTGTGA
* * * *
17241475 GCTTTTTTTATCTGGGTCGATGGCAAAATAAGGAAATAACAAGGCCAAATCATCATCTGGGTCGA
128 GCTTTTTTAATCTGGGTCGATGGCAGAATAAGGAAATAACAAGG-CAAATCATCATCTAGGTCAA
17241540 TGTTCTTCAATCAATA
192 TGTTCTTCAATCAATA
* * *
17241556 ATCATCATTATCATCAACAACAACAAGAACCCTAACAAAAACACATACACATTTGTCAAAATCTT
1 ATCATCATCATCATCAACAACAACAAGAACCCCAACAAAAACACATACATATTTGTCAAAATCTT
* *
17241621 GAATTTTTCTTTGTAAACGAAGAAAAAAAGAAAAAAGTTTGAATTTTCTTATTGATTTGTGAGC-
66 GAAATTTTCTTTGTAAAAGAAGAAAAAAAGAAAAAAGTTTGAATTTTCTTATTGATTTGTGAGCT
* * * * * *
17241685 TTTTTAATCTGAGTCGATGGCGGAATTAGGAAATAATAAGACAAAATCATTATCTAGGTCAATGT
131 TTTTTAATCTGGGTCGATGGCAGAATAAGGAAATAACAAGGC-AAATCATCATCTAGGTCAATGT
17241750 TCTTCAATC
195 TCTTCAATC
17241759 GGTTGTTTAT
Statistics
Matches: 358, Mismatches: 47, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
205 74 0.21
206 1 0.00
207 64 0.18
208 41 0.11
209 72 0.20
211 105 0.29
212 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (207 bp):
ATCATCATCATCATCAACAACAACAAGAACCCCAACAAAAACACATACATATTTGTCAAAATCTT
GAAATTTTCTTTGTAAAAGAAGAAAAAAAGAAAAAAGTTTGAATTTTCTTATTGATTTGTGAGCT
TTTTTAATCTGGGTCGATGGCAGAATAAGGAAATAACAAGGCAAATCATCATCTAGGTCAATGTT
CTTCAATCAATA
Found at i:17242117 original size:23 final size:20
Alignment explanation
Indices: 17242062--17242117 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 20
17242052 GAAAAATTAT
17242062 TATAAT-ATTATATTTATCA
1 TATAATAATTATATTTATCA
17242081 TATTAATATTATTATATTCTATCCAA
1 TA-TAATA--ATTATATT-TAT-C-A
17242107 TATAATAATTA
1 TATAATAATTA
17242118 AACCTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
19 2 0.07
20 4 0.13
23 12 0.40
24 3 0.10
25 6 0.20
26 3 0.10
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATAATTATATTTATCA
Found at i:17242574 original size:32 final size:34
Alignment explanation
Indices: 17242499--17242578 Score: 112
Period size: 32 Copynumber: 2.4 Consensus size: 34
17242489 GATTTTTGAC
*
17242499 AAGTTATAAGTCTTTTTAGAAATAAATTTTCAAA
1 AAGTTATAAATCTTTTTAGAAATAAATTTTCAAA
*
17242533 AAGTCATAAAT-TTTTTA-AAATAAATTTTC-AA
1 AAGTTATAAATCTTTTTAGAAATAAATTTTCAAA
17242564 AAGATTATAAATCTT
1 AAG-TTATAAATCTT
17242579 CCCAAAAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 5 0.12
32 19 0.46
33 8 0.20
34 9 0.22
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (34 bp):
AAGTTATAAATCTTTTTAGAAATAAATTTTCAAA
Found at i:17243702 original size:20 final size:17
Alignment explanation
Indices: 17243650--17243690 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
17243640 AATCAACTTT
*
17243650 TTTATTAATTTT-A-AA
1 TTTATTATTTTTAATAA
17243665 TTTATTATTTTTAATAA
1 TTTATTATTTTTAATAA
17243682 TTTATTATT
1 TTTATTATT
17243691 ATATTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATTATTTTTAATAA
Found at i:17243838 original size:14 final size:15
Alignment explanation
Indices: 17243819--17243849 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
17243809 AAAATTTATG
17243819 ACTTTTCAAAAA-TT
1 ACTTTTCAAAAACTT
17243833 ACTTTTCAAAAACTT
1 ACTTTTCAAAAACTT
17243848 AC
1 AC
17243850 GTAAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTTTTCAAAAACTT
Found at i:17243911 original size:15 final size:15
Alignment explanation
Indices: 17243882--17243911 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17243872 ATAATTTAAC
*
17243882 TTAAAAAATAAAAAA
1 TTAAAAAAAAAAAAA
17243897 TTAAAAAAAAAAAAA
1 TTAAAAAAAAAAAAA
17243912 AACAAAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
TTAAAAAAAAAAAAA
Found at i:17244488 original size:2 final size:2
Alignment explanation
Indices: 17244481--17244507 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17244471 AGTTTTGAGA
17244481 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 A
17244508 AAGGCTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17246985 original size:36 final size:36
Alignment explanation
Indices: 17246945--17247016 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
17246935 TCAAAACTAA
* * * *
17246945 TAATAATGATCGATTTAAATGTCTCTATAAATTTTT
1 TAATAATAATCGATCTAAATGACCCTATAAATTTTT
* *
17246981 TAATAGTAATTGATCTAAATGACCCTATAAATTTTT
1 TAATAATAATCGATCTAAATGACCCTATAAATTTTT
17247017 AAATTAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (36 bp):
TAATAATAATCGATCTAAATGACCCTATAAATTTTT
Found at i:17247231 original size:16 final size:16
Alignment explanation
Indices: 17247212--17247245 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17247202 TTTAAATGAA
* *
17247212 TTTTTTATTATTATAT
1 TTTTTTATAATTAGAT
17247228 TTTTTTATAATTAGAT
1 TTTTTTATAATTAGAT
17247244 TT
1 TT
17247246 AAAAAGTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTTATAATTAGAT
Found at i:17251744 original size:24 final size:24
Alignment explanation
Indices: 17251694--17251745 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
17251684 TGAATTTAAT
* * *
17251694 ATTTTTAAATTTTTGATTTATTTA
1 ATTTTTAAAATTTTGATTTAGTAA
17251718 ATTTTTATAAATTTT-ATTTAGTAA
1 ATTTTTA-AAATTTTGATTTAGTAA
17251742 ATTT
1 ATTT
17251746 ATTCTCATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTTTAAAATTTTGATTTAGTAA
Found at i:17252726 original size:22 final size:22
Alignment explanation
Indices: 17252303--17252757 Score: 93
Period size: 22 Copynumber: 21.3 Consensus size: 22
17252293 TGTAATATGT
17252303 ATAACTTAATAGT-AATC-ATCG
1 ATAACTTAATAGTAAATCAAT-G
* * *
17252324 ATAACTTAGTAGTAAATTAATA
1 ATAACTTAATAGTAAATCAATG
* * *
17252346 ATAATTTAAAAGTAAATGAATG
1 ATAACTTAATAGTAAATCAATG
* * * *
17252368 ATAATTTAGTAGTCAAT-AGTTG
1 ATAACTTAATAGTAAATCA-ATG
* *
17252390 ATAACATT-TTAGTGAATC-A-G
1 ATAAC-TTAATAGTAAATCAATG
*
17252410 -TAA--TAATAATAAATGC-ATG
1 ATAACTTAATAGTAAAT-CAATG
* *
17252429 AT-ACTTTAATGGTAAATCAATT
1 ATAAC-TTAATAGTAAATCAATG
*
17252451 ATAA-TATAAT--T--ATAAATG
1 ATAACT-TAATAGTAAATCAATG
*
17252469 TATAACAGTATAATACTAAATCAATG
1 -ATAAC--T-TAATAGTAAATCAATG
** *
17252495 ATAACTTAATAAAAAATAAATG
1 ATAACTTAATAGTAAATCAATG
** * *
17252517 ATAACTTAGCAGTTAA-CTATTG
1 ATAACTTAATAGTAAATC-AATG
* ** *
17252539 ATAATTTAGCAATAAATCAATG
1 ATAACTTAATAGTAAATCAATG
* * ***
17252561 ATACCTTAATAATAAATTTGTG
1 ATAACTTAATAGTAAATCAATG
* *
17252583 ATAATTTAATAGTAAATAAAT-
1 ATAACTTAATAGTAAATCAATG
* ** *
17252604 TTCAGTTTAATAGT-AATTAAT-
1 AT-AACTTAATAGTAAATCAATG
* * * * * *
17252625 -TGA--TAGTAGTTATTTATTG
1 ATAACTTAATAGTAAATCAATG
* * * *
17252644 AAAATTTAAAAGTAAATC-ATT
1 ATAACTTAATAGTAAATCAATG
*
17252665 ATAACTTAGTAGTAAATC-ATCG
1 ATAACTTAATAGTAAATCAAT-G
* **
17252687 ATAACATAATAGGCAATCAATG
1 ATAACTTAATAGTAAATCAATG
17252709 ATAACTTAATAGTAAATC-ATG
1 ATAACTTAATAGTAAATCAATG
* *
17252730 CATAATTTAAT-GTAAA-CAATA
1 -ATAACTTAATAGTAAATCAATG
17252751 ATAACTT
1 ATAACTT
17252758 GGCAATGAAT
Statistics
Matches: 315, Mismatches: 84, Indels: 71
0.67 0.18 0.15
Matches are distributed among these distances:
16 1 0.00
17 12 0.04
18 12 0.04
19 9 0.03
20 12 0.04
21 49 0.16
22 199 0.63
23 9 0.03
24 1 0.00
25 5 0.02
26 6 0.02
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATG
Found at i:17253000 original size:19 final size:19
Alignment explanation
Indices: 17252976--17253030 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 19
17252966 GGTAACTAAG
*
17252976 TAATAAATTAGTTAATTAT
1 TAATAAATTAGTAAATTAT
*
17252995 TAATAATTTTTTAGTAAATTAT
1 TAATAA---ATTAGTAAATTAT
*
17253017 CAATAAATTAGTAA
1 TAATAAATTAGTAA
17253031 TAAATTAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 13 0.45
22 16 0.55
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (19 bp):
TAATAAATTAGTAAATTAT
Found at i:17253034 original size:22 final size:22
Alignment explanation
Indices: 17253009--17253066 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
17252999 AATTTTTTAG
17253009 TAAATTATCAATAA-ATTAGTAA
1 TAAATTATCAATAACATTA-TAA
* * *
17253031 TAAATTAGCTATAACTTTATAA
1 TAAATTATCAATAACATTATAA
*
17253053 TAAATCATCAATAA
1 TAAATTATCAATAA
17253067 TTTAATGTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (22 bp):
TAAATTATCAATAACATTATAA
Found at i:17253168 original size:22 final size:22
Alignment explanation
Indices: 17253101--17253170 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
17253091 ATCAGTAAGC
* * * *
17253101 CATTTATAATTTAACAGCAAGT
1 CATTCATAAATTAATAGCAAAT
* *
17253123 CCTTCATAAATTAGTAGCAAAT
1 CATTCATAAATTAATAGCAAAT
* *
17253145 CATTCATAAATTAATAGTATAT
1 CATTCATAAATTAATAGCAAAT
17253167 CATT
1 CATT
17253171 GCAAGCGTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.37
Consensus pattern (22 bp):
CATTCATAAATTAATAGCAAAT
Found at i:17253551 original size:22 final size:22
Alignment explanation
Indices: 17253489--17253573 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
17253479 AAAAAATAAG
* * *
17253489 TGACAACTTAGTAGTTAATAAT
1 TGACAACTTAATAGTAAATGAT
* *
17253511 TGATAATTTAATAAG-AAATCGA-
1 TGACAACTTAAT-AGTAAAT-GAT
* * *
17253533 TGATATCTTAATAGTAAATTAT
1 TGACAACTTAATAGTAAATGAT
17253555 TGACAACTTAATAGTAAAT
1 TGACAACTTAATAGTAAAT
17253574 TAATTTCAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.06
22 43 0.88
23 3 0.06
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
TGACAACTTAATAGTAAATGAT
Found at i:17253557 original size:44 final size:44
Alignment explanation
Indices: 17253453--17253567 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 44
17253443 TATAGCAATA
* **
17253453 TAATAGTAAATTAATGATAGGTTAATAAAAAATAAGTGACAACT
1 TAATAGTAAATTATTGATAACTTAATAAAAAATAAGTGACAACT
* * * * * * * *
17253497 TAGTAGTTAATAATTGATAATTTAATAAGAAAT-CGATGATATCT
1 TAATAGTAAATTATTGATAACTTAATAAAAAATAAG-TGACAACT
*
17253541 TAATAGTAAATTATTGACAACTTAATA
1 TAATAGTAAATTATTGATAACTTAATA
17253568 GTAAATTAAT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (44 bp):
TAATAGTAAATTATTGATAACTTAATAAAAAATAAGTGACAACT
Found at i:17253732 original size:22 final size:21
Alignment explanation
Indices: 17253511--17253807 Score: 140
Period size: 22 Copynumber: 13.4 Consensus size: 21
17253501 AGTTAATAAT
17253511 TGATAATTTAATAAG-AAATCGA
1 TGATAATTTAAT-AGTAAATC-A
*
17253533 TGAT-ATCTTAATAGTAAATTA
1 TGATAAT-TTAATAGTAAATCA
* * *
17253554 TTGACAACTTAATAGTAAATTAA
1 -TGATAATTTAATAGTAAA-TCA
* * *
17253577 T-TTCAATTTAATAGTAATTACT
1 TGAT-AATTTAATAGTAAAT-CA
* *
17253599 TGATAAATTTAGTAGTGAATCA
1 TGAT-AATTTAATAGTAAATCA
** **
17253621 CAAATAACGTAATAGTAAATCAA
1 -TGATAATTTAATAGTAAATC-A
*
17253644 TAATAATTTAATAGTTAAA-CA
1 TGATAATTTAATAG-TAAATCA
* * *
17253665 TTGAAAACTTGAA-AGTAAATAAA
1 -TGATAA-TTTAATAGTAAAT-CA
*
17253688 T-ATAATTTAGTAGTAGTTAATCA
1 TGATAATTTA--A-TAGTAAATCA
* *
17253711 TCAGTAATTTAATAGTTAATCAA
1 TGA-TAATTTAATAGTAAATC-A
* *
17253734 TGATAACTTAATAATAAATCA
1 TGATAATTTAATAGTAAATCA
17253755 TAGATAATTTAATA-TAAATCAA
1 T-GATAATTTAATAGTAAATC-A
*
17253777 TGATAACTTAATAGTAAATCA
1 TGATAATTTAATAGTAAATCA
17253798 TGAATAATTT
1 TG-ATAATTT
17253808 TTTATATATC
Statistics
Matches: 209, Mismatches: 40, Indels: 52
0.69 0.13 0.17
Matches are distributed among these distances:
20 3 0.01
21 36 0.17
22 122 0.58
23 34 0.16
24 7 0.03
25 7 0.03
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (21 bp):
TGATAATTTAATAGTAAATCA
Found at i:17253786 original size:43 final size:43
Alignment explanation
Indices: 17253706--17253834 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
17253696 AGTAGTAGTT
*
17253706 AATCATCAG-TAATTTAATAGTTAATCAATGATAACTTAATAATA
1 AATCAT-AGATAATTTAATA-TAAATCAATGATAACTTAATAATA
*
17253750 AATCATAGATAATTTAATATAAATCAATGATAACTTAATAGTA
1 AATCATAGATAATTTAATATAAATCAATGATAACTTAATAATA
** * * *
17253793 AATCAT-GAATAATTTTTTATATATCAATGGTAATTTAATAAT
1 AATCATAG-ATAATTTAATATAAATCAATGATAACTTAATAAT
17253835 TAATTAATGG
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.01
43 58 0.77
44 16 0.21
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (43 bp):
AATCATAGATAATTTAATATAAATCAATGATAACTTAATAATA
Found at i:17253899 original size:22 final size:23
Alignment explanation
Indices: 17253874--17253948 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 23
17253864 TGATGATTTT
17253874 GTAGTAAAT-AATTAAAAAC-TAA
1 GTAGTAAATCAA-TAAAAACATAA
*
17253896 GTAGTAAATCAATAATAACATAA
1 GTAGTAAATCAATAAAAACATAA
** *
17253919 -TAGTAAATGTATAATAACATAA
1 GTAGTAAATCAATAAAAACATAA
*
17253941 -TAATAAAT
1 GTAGTAAAT
17253949 TATTGATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 42 0.89
23 5 0.11
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.29
Consensus pattern (23 bp):
GTAGTAAATCAATAAAAACATAA
Found at i:17253957 original size:22 final size:22
Alignment explanation
Indices: 17253908--17254001 Score: 75
Period size: 22 Copynumber: 4.3 Consensus size: 22
17253898 AGTAAATCAA
*
17253908 TAATAACATAATAGTAAATGTA-
1 TAATAACATAATAATAAAT-TAT
17253930 TAATAACATAATAATAAATTAT
1 TAATAACATAATAATAAATTAT
* ** *
17253952 TGATAATTTAGAT-GTAAATTAT
1 TAATAACATA-ATAATAAATTAT
* * * *
17253974 TGATAACTTAGTAATAAATCAT
1 TAATAACATAATAATAAATTAT
17253996 TAATAA
1 TAATAA
17254002 TTTAGTAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
21 3 0.05
22 54 0.92
23 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (22 bp):
TAATAACATAATAATAAATTAT
Found at i:17253969 original size:44 final size:44
Alignment explanation
Indices: 17253877--17254006 Score: 113
Period size: 44 Copynumber: 3.0 Consensus size: 44
17253867 TGATTTTGTA
* * * * **
17253877 GTAAATAATTAAAAAC-TAAGTAGTAAATCAATAATAACATA-AT
1 GTAAATTATTAATAACATAA-TAATAAATCATTAATAATTTAGAT
* *
17253920 AGTAAATGTA-TAATAACATAATAATAAATTATTGATAATTTAGAT
1 -GTAAAT-TATTAATAACATAATAATAAATCATTAATAATTTAGAT
* * *
17253965 GTAAATTATTGATAACTTAGTAATAAATCATTAATAATTTAG
1 GTAAATTATTAATAACATAATAATAAATCATTAATAATTTAG
17254007 TAATAAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
43 2 0.03
44 61 0.88
45 6 0.09
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (44 bp):
GTAAATTATTAATAACATAATAATAAATCATTAATAATTTAGAT
Found at i:17254006 original size:22 final size:22
Alignment explanation
Indices: 17253941--17254014 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
17253931 AATAACATAA
17253941 TAATAAATTATTGATAATTTAG
1 TAATAAATTATTGATAATTTAG
* *
17253963 -ATGTAAATTATTGATAACTTAG
1 TA-ATAAATTATTGATAATTTAG
* *
17253985 TAATAAATCATTAATAATTTAG
1 TAATAAATTATTGATAATTTAG
17254007 TAATAAAT
1 TAATAAAT
17254015 AAGTAAGTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.02
22 42 0.95
23 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (22 bp):
TAATAAATTATTGATAATTTAG
Found at i:17254014 original size:44 final size:44
Alignment explanation
Indices: 17253932--17254244 Score: 163
Period size: 44 Copynumber: 6.9 Consensus size: 44
17253922 TAAATGTATA
* * * * *
17253932 ATAACATAATAATAAATTATTGATAATTTAG-ATGTAAATTATTG
1 ATAACTTAGTAATAAATTATTAATAATTTAGTA-ATAAATCATTG
* *
17253976 ATAACTTAGTAATAAATCATTAATAATTTAGTAATAAATAAGTAAGTG
1 ATAACTTAGTAATAAATTATTAATAATTTAGTAATAAATCA-T---TG
* * * * * *
17254024 ATTA-GTAGCAAATTAGTTAATTATTGATAATTTTA-TAGTAAATCATCG
1 ATAACTTAG-TAA-TA---AATTATTAATAA-TTTAGTAATAAATCATTG
* * * *
17254072 ATAAATTAATAGTAAATTAGTT-ATAACTTTA-TAACAAATCATT-
1 ATAACTTAGTAATAAATTA-TTAATAA-TTTAGTAATAAATCATTG
* * * *
17254115 AGTAACTTAGTAGTAAATTATCAATAATTTAGTAATAAATCAATC
1 A-TAACTTAGTAATAAATTATTAATAATTTAGTAATAAATCATTG
* * * *
17254160 ATAACTTAGTAATAAATAACTACTAATTTAGTAATAAATTATTG
1 ATAACTTAGTAATAAATTATTAATAATTTAGTAATAAATCATTG
* ** * * *
17254204 ATAA-TCTAGTAATATATCGTTAATAGTTTAATAGTAAATCA
1 ATAACT-TAGTAATAAATTATTAATAATTTAGTAATAAATCA
17254245 CTAATAATAT
Statistics
Matches: 206, Mismatches: 45, Indels: 36
0.72 0.16 0.13
Matches are distributed among these distances:
43 7 0.03
44 150 0.73
45 5 0.02
47 5 0.02
48 12 0.06
49 4 0.02
51 1 0.00
52 18 0.09
53 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (44 bp):
ATAACTTAGTAATAAATTATTAATAATTTAGTAATAAATCATTG
Found at i:17254030 original size:22 final size:22
Alignment explanation
Indices: 17253976--17254020 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17253966 TAAATTATTG
* * *
17253976 ATAACTTAGTAATAAATCATTA
1 ATAATTTAGTAATAAATAAGTA
17253998 ATAATTTAGTAATAAATAAGTA
1 ATAATTTAGTAATAAATAAGTA
17254020 A
1 A
17254021 GTGATTAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAATTTAGTAATAAATAAGTA
Found at i:17254062 original size:22 final size:22
Alignment explanation
Indices: 17254037--17254104 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
17254027 AGTAGCAAAT
* *
17254037 TAGTTAATTATTGATAATTTTA
1 TAGTAAATTATTGATAAATTTA
* * *
17254059 TAGTAAATCATCGATAAATTAA
1 TAGTAAATTATTGATAAATTTA
*
17254081 TAGTAAATTAGTT-ATAACTTTA
1 TAGTAAATTA-TTGATAAATTTA
17254103 TA
1 TA
17254105 ACAAATCATT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (22 bp):
TAGTAAATTATTGATAAATTTA
Found at i:17254146 original size:22 final size:22
Alignment explanation
Indices: 17254121--17254217 Score: 90
Period size: 22 Copynumber: 4.4 Consensus size: 22
17254111 CATTAGTAAC
*
17254121 TTAGTAGTAAATTATCAATAAT
1 TTAGTAATAAATTATCAATAAT
* *
17254143 TTAGTAATAAATCAATC-ATAAC
1 TTAGTAATAAAT-TATCAATAAT
* *
17254165 TTAGTAATAAA-TAACTACTAAT
1 TTAGTAATAAATTATC-AATAAT
**
17254187 TTAGTAATAAATTATTGATAAT
1 TTAGTAATAAATTATCAATAAT
*
17254209 CTAGTAATA
1 TTAGTAATA
17254218 TATCGTTAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.03
22 52 0.88
23 5 0.08
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (22 bp):
TTAGTAATAAATTATCAATAAT
Found at i:17254164 original size:66 final size:66
Alignment explanation
Indices: 17254094--17254217 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
17254084 TAAATTAGTT
* * * * *
17254094 ATAACTTTA-TAACAAATCATTAGTAACTTAGTAGTAAATTATCAATAATTTAGTAATAAATCAA
1 ATAAC-TTAGTAACAAATAACTACTAACTTAGTAATAAATTATCAATAATCTAGTAATAAATCAA
17254158 TC
65 TC
* * **
17254160 ATAACTTAGTAATAAATAACTACTAATTTAGTAATAAATTATTGATAATCTAGTAATA
1 ATAACTTAGTAACAAATAACTACTAACTTAGTAATAAATTATCAATAATCTAGTAATA
17254218 TATCGTTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
65 3 0.06
66 45 0.94
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (66 bp):
ATAACTTAGTAACAAATAACTACTAACTTAGTAATAAATTATCAATAATCTAGTAATAAATCAAT
C
Found at i:17254174 original size:11 final size:11
Alignment explanation
Indices: 17254072--17254200 Score: 55
Period size: 11 Copynumber: 11.7 Consensus size: 11
17254062 TAAATCATCG
*
17254072 ATAAATTAATA
1 ATAAATTAGTA
* *
17254083 GTAAATTAGTT
1 ATAAATTAGTA
*
17254094 ATAACTTTA-TA
1 ATAA-ATTAGTA
* * *
17254105 ACAAATCATTA
1 ATAAATTAGTA
* *
17254116 GTAACTTAGTA
1 ATAAATTAGTA
*
17254127 GTAAATTA-TCA
1 ATAAATTAGT-A
*
17254138 ATAATTTAGTA
1 ATAAATTAGTA
* * *
17254149 ATAAATCAATC
1 ATAAATTAGTA
*
17254160 ATAACTTAGTA
1 ATAAATTAGTA
* *
17254171 ATAAATAACTA
1 ATAAATTAGTA
* *
17254182 CTAATTTAGTA
1 ATAAATTAGTA
17254193 ATAAATTA
1 ATAAATTA
17254201 TTGATAATCT
Statistics
Matches: 80, Mismatches: 34, Indels: 8
0.66 0.28 0.07
Matches are distributed among these distances:
10 3 0.04
11 73 0.91
12 4 0.05
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (11 bp):
ATAAATTAGTA
Found at i:17254297 original size:22 final size:22
Alignment explanation
Indices: 17254230--17254298 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
17254220 TCGTTAATAG
* *
17254230 TTTAATAGTAAATCACTAATAA
1 TTTAATAGTAAATCAATGATAA
*
17254252 TATAATAGTAAATCAATGATAA
1 TTTAATAGTAAATCAATGATAA
* * *
17254274 TTTAATTGTTAATCATTGATAA
1 TTTAATAGTAAATCAATGATAA
17254296 TTT
1 TTT
17254299 TTTTTATACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (22 bp):
TTTAATAGTAAATCAATGATAA
Found at i:17254601 original size:22 final size:22
Alignment explanation
Indices: 17254576--17254617 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17254566 ATCATAAGTT
17254576 ATCAAAAAATTACTAAAATTAC
1 ATCAAAAAATTACTAAAATTAC
*
17254598 ATCAAAAAGTTACTAAAATT
1 ATCAAAAAATTACTAAAATT
17254618 TTATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (22 bp):
ATCAAAAAATTACTAAAATTAC
Found at i:17254625 original size:21 final size:21
Alignment explanation
Indices: 17254574--17254721 Score: 86
Period size: 21 Copynumber: 7.0 Consensus size: 21
17254564 ATATCATAAG
*
17254574 TTATCAAAAAATTACTAAAATT
1 TTAT-AAAAAGTTACTAAAATT
**
17254596 ACATCAAAAAGTTACTAAAATT
1 TTAT-AAAAAGTTACTAAAATT
* *
17254618 TTATAAAAATTTACCAAAATT
1 TTATAAAAAGTTACTAAAATT
* * *
17254639 GTATTAATAGTTA-TCAAAATT
1 TTATAAAAAGTTACT-AAAATT
* * * *
17254660 ATATCATAAGTTACCAAAATT
1 TTATAAAAAGTTACTAAAATT
*
17254681 ATT-TCAAAAGTTA-TCAAAATT
1 -TTATAAAAAGTTACT-AAAATT
* * *
17254702 TTATTAAAGGTTATTAAAAT
1 TTATAAAAAGTTACTAAAAT
17254722 CAAAATTATA
Statistics
Matches: 98, Mismatches: 22, Indels: 13
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.02
21 73 0.74
22 23 0.23
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (21 bp):
TTATAAAAAGTTACTAAAATT
Found at i:17254626 original size:22 final size:21
Alignment explanation
Indices: 17254574--17254638 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
17254564 ATATCATAAG
17254574 TTATCAAAAAATTACTAAAATT
1 TTAT-AAAAAATTACTAAAATT
** *
17254596 ACATCAAAAAGTTACTAAAATT
1 TTAT-AAAAAATTACTAAAATT
* *
17254618 TTATAAAAATTTACCAAAATT
1 TTATAAAAAATTACTAAAATT
17254639 GTATTAATAG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 15 0.42
22 21 0.58
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.34
Consensus pattern (21 bp):
TTATAAAAAATTACTAAAATT
Found at i:17254651 original size:42 final size:42
Alignment explanation
Indices: 17254574--17254714 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
17254564 ATATCATAAG
* * **
17254574 TTATCAAAAAATTACTAAAATTACATCAAAAAGTTA-CTAAAATT
1 TTAT-AAAAAGTTACCAAAATTATTTC-AAAAGTTATC-AAAATT
* * *
17254618 TTATAAAAATTTACCAAAATTGTATT-AATAGTTATCAAAATT
1 TTATAAAAAGTTACCAAAATTAT-TTCAAAAGTTATCAAAATT
* * *
17254660 ATATCATAAGTTACCAAAATTATTTCAAAAGTTATCAAAATT
1 TTATAAAAAGTTACCAAAATTATTTCAAAAGTTATCAAAATT
* *
17254702 TTATTAAAGGTTA
1 TTATAAAAAGTTA
17254715 TTAAAATCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.03
42 55 0.71
43 16 0.21
44 5 0.06
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (42 bp):
TTATAAAAAGTTACCAAAATTATTTCAAAAGTTATCAAAATT
Found at i:17254679 original size:63 final size:64
Alignment explanation
Indices: 17254590--17254721 Score: 153
Period size: 63 Copynumber: 2.1 Consensus size: 64
17254580 AAAAATTACT
* *
17254590 AAAATTACATCAAAAAGTTACTAAAATT-TTATAAAAATTTACCAAAATTGTATTAATA-GTTAT
1 AAAATTACATCAAAAAGTTACCAAAATTATT-TAAAAAGTTACCAAAATTGTATTAA-AGGTTAT
17254653 C
64 C
* * * * * *
17254654 AAAATTATATC-ATAAGTTACCAAAATTATTTCAAAAGTTATCAAAATTTTATTAAAGGTTATT
1 AAAATTACATCAAAAAGTTACCAAAATTATTTAAAAAGTTACCAAAATTGTATTAAAGGTTATC
17254717 AAAAT
1 AAAAT
17254722 CAAAATTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.02
63 45 0.78
64 12 0.21
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (64 bp):
AAAATTACATCAAAAAGTTACCAAAATTATTTAAAAAGTTACCAAAATTGTATTAAAGGTTATC
Found at i:17256964 original size:9 final size:8
Alignment explanation
Indices: 17256950--17257043 Score: 50
Period size: 9 Copynumber: 11.2 Consensus size: 8
17256940 GGCTCTTGAT
17256950 TTTTTTCTA
1 TTTTTT-TA
17256959 TTTTTTCTCA
1 TTTTTT-T-A
*
17256969 TTTTTGT-
1 TTTTTTTA
17256976 -TTTTTTA
1 TTTTTTTA
17256983 TTTTTTTA
1 TTTTTTTA
17256991 TTTTTTT-
1 TTTTTTTA
* *
17256998 TATTTTCA
1 TTTTTTTA
17257006 TCTTTTTTA
1 T-TTTTTTA
* **
17257015 CTTCTCTCAA
1 -TT-TTTTTA
17257025 TTTTTTTGA
1 TTTTTTT-A
17257034 TTTTTTTA
1 TTTTTTTA
17257042 TT
1 TT
17257044 GGATAAATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
6 5 0.08
7 5 0.08
8 20 0.31
9 25 0.38
10 10 0.15
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTTTTA
Found at i:17256986 original size:7 final size:8
Alignment explanation
Indices: 17256969--17257043 Score: 53
Period size: 8 Copynumber: 9.0 Consensus size: 8
17256959 TTTTTTCTCA
*
17256969 TTTTTGTT
1 TTTTTATT
17256977 TTTTTATT
1 TTTTTATT
17256985 TTTTTATT
1 TTTTTATT
*
17256993 TTTTT-TA
1 TTTTTATT
*
17257000 TTTTCATCT
1 TTTTTAT-T
17257009 TTTTTACTT
1 TTTTTA-TT
* **
17257018 CTCTCAATT
1 -TTTTTATT
17257027 TTTTTGATT
1 TTTTT-ATT
17257036 TTTTTATT
1 TTTTTATT
17257044 GGATAAATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
7 5 0.10
8 26 0.51
9 16 0.31
10 4 0.08
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTATT
Found at i:17257011 original size:17 final size:17
Alignment explanation
Indices: 17256975--17257013 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
17256965 CTCATTTTTG
**
17256975 TTTTTTTATTTTTTTAT
1 TTTTTTTATTTTCATAT
*
17256992 TTTTTTTATTTTCATCT
1 TTTTTTTATTTTCATAT
17257009 TTTTT
1 TTTTT
17257014 ACTTCTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTATTTTCATAT
Found at i:17267036 original size:17 final size:17
Alignment explanation
Indices: 17267016--17267048 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17267006 AATTTTTGTT
17267016 TTTAATTTATATATATA
1 TTTAATTTATATATATA
*
17267033 TTTAATTTTTATATAT
1 TTTAATTTATATATAT
17267049 GTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTAATTTATATATATA
Found at i:17277167 original size:10 final size:10
Alignment explanation
Indices: 17277130--17277389 Score: 94
Period size: 10 Copynumber: 26.5 Consensus size: 10
17277120 TAATCTTTAA
17277130 AAAAAATTTCT
1 AAAAAATTT-T
*
17277141 AAAAAA-TTC
1 AAAAAATTTT
17277150 AAAGAAATTTT
1 AAA-AAATTTT
*
17277161 AAAAAATTCT
1 AAAAAATTTT
*
17277171 --AAAATTAT
1 AAAAAATTTT
*
17277179 AAAATAA-TTC
1 AAAA-AATTTT
*
17277189 AAAAAATCTT
1 AAAAAATTTT
**
17277199 -AAATTTTTT
1 AAAAAATTTT
***
17277208 TTTAAATTTT
1 AAAAAATTTT
* *
17277218 CAAAAATTCT
1 AAAAAATTTT
**
17277228 AAAATTTTTT
1 AAAAAATTTT
* *
17277238 CAAAAATTAT
1 AAAAAATTTT
*
17277248 AAAATAA-ATT
1 AAAA-AATTTT
**
17277258 AAAATTTTTTTT
1 AAAA--AATTTT
* *
17277270 AGAAAA-TTC
1 AAAAAATTTT
17277279 AAAAAA--TT
1 AAAAAATTTT
*
17277287 -AAAAACTT-
1 AAAAAATTTT
*
17277295 AAAAAATTCT
1 AAAAAATTTT
*
17277305 CAAAAATTTT
1 AAAAAATTTT
17277315 AAAAAATTTT
1 AAAAAATTTT
17277325 AAAAAA-TTT
1 AAAAAATTTT
** **
17277334 AAAATGTCCT
1 AAAAAATTTT
17277344 AAAAAATTTTT
1 AAAAAA-TTTT
*
17277355 AAAAAATTAT
1 AAAAAATTTT
*
17277365 AAAAACTTTT
1 AAAAAATTTT
*
17277375 AAAAAAATTT
1 AAAAAATTTT
17277385 AAAAA
1 AAAAA
17277390 TATATAAAGA
Statistics
Matches: 176, Mismatches: 57, Indels: 33
0.66 0.21 0.12
Matches are distributed among these distances:
7 5 0.03
8 8 0.05
9 32 0.18
10 102 0.58
11 24 0.14
12 5 0.03
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:17277252 original size:57 final size:58
Alignment explanation
Indices: 17277154--17277270 Score: 132
Period size: 57 Copynumber: 2.0 Consensus size: 58
17277144 AAATTCAAAG
* *
17277154 AAATTTTAAAAAATTCTAAAATTATAAAATAATTCAAAAAAT-CTTAAATTTTTTTTT
1 AAATTTTAAAAAATTCTAAAATTATAAAATAATTCAAAAAATAATTAAAATTTTTTTT
* * * *
17277211 AAATTTTCAAAAATTCTAAAATTTTTTCAAA-AATT-ATAAAATAAATTAAAATTTTTTTT
1 AAATTTTAAAAAATTCTAAAA--TTATAAAATAATTCAAAAAAT-AATTAAAATTTTTTTT
17277270 A
1 A
17277271 GAAAATTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
57 26 0.52
58 4 0.08
59 20 0.40
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.44
Consensus pattern (58 bp):
AAATTTTAAAAAATTCTAAAATTATAAAATAATTCAAAAAATAATTAAAATTTTTTTT
Found at i:17277286 original size:9 final size:9
Alignment explanation
Indices: 17277267--17277428 Score: 80
Period size: 9 Copynumber: 17.1 Consensus size: 9
17277257 TAAAATTTTT
*
17277267 TTTAGAAAA
1 TTTAAAAAA
*
17277276 TTCAAAAAA
1 TTTAAAAAA
17277285 -TT-AAAAA
1 TTTAAAAAA
*
17277292 CTTAAAAAA
1 TTTAAAAAA
*
17277301 TTCTCAAAAAT
1 TT-T-AAAAAA
17277312 TTTAAAAAA
1 TTTAAAAAA
17277321 TTTTAAAAAA
1 -TTTAAAAAA
**
17277331 TTTAAAATG
1 TTTAAAAAA
*
17277340 TCCTAAAAAA
1 T-TTAAAAAA
17277350 TTTTTAAAAAA
1 --TTTAAAAAA
*
17277361 TTATAAAAACT
1 TT-TAAAAA-A
17277372 TTTAAAAAAA
1 TTT-AAAAAA
17277382 TTT-AAAAA
1 TTTAAAAAA
* *
17277390 TATATAAAGA
1 TTTA-AAAAA
*
17277400 TTCTAGAAAAT
1 TT-TA-AAAAA
*
17277411 TTTTAAAAA
1 TTTAAAAAA
17277420 -TTAAAAAA
1 TTTAAAAAA
17277428 T
1 T
17277429 AAGTAAGGAA
Statistics
Matches: 115, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
7 5 0.04
8 17 0.15
9 32 0.28
10 32 0.28
11 28 0.24
12 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:17277316 original size:20 final size:20
Alignment explanation
Indices: 17277293--17277419 Score: 84
Period size: 20 Copynumber: 6.3 Consensus size: 20
17277283 AATTAAAAAC
17277293 TTAAAAAATTCTCAAAAA-TT
1 TTAAAAAATTCT-AAAAACTT
* *
17277313 TTAAAAAATTTTAAAAA-AT
1 TTAAAAAATTCTAAAAACTT
** * *
17277332 TTAAAATGTCCTAAAAAATTT
1 TTAAAAAATTCT-AAAAACTT
*
17277353 TTAAAAAATTATAAAAACTT
1 TTAAAAAATTCTAAAAACTT
17277373 TTAAAAAAATT-TAAAAA--T
1 TT-AAAAAATTCTAAAAACTT
* * *
17277391 ATATAAAGATTCTAGAAAATTT
1 TTA-AAAAATTCTA-AAAACTT
17277413 TTAAAAA
1 TTAAAAA
17277420 TTAAAAAATA
Statistics
Matches: 83, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
17 1 0.01
18 8 0.10
19 16 0.19
20 35 0.42
21 20 0.24
22 3 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAAAAAATTCTAAAAACTT
Found at i:17277416 original size:30 final size:27
Alignment explanation
Indices: 17277307--17277425 Score: 105
Period size: 29 Copynumber: 4.1 Consensus size: 27
17277297 AAAATTCTCA
* *
17277307 AAAATTTTAAAAAATTTTAAAAAATTT
1 AAAATTCTAAAAAATTTTAAAAAATAT
17277334 AAAATGTCCTAAAAAATTTTTAAAAAATTAT
1 AAAAT-T-CTAAAAAA-TTTTAAAAAA-TAT
* *
17277365 AAAAACTTTTAAAAAAATTTAAAAATATAT
1 -AAAA-TTCTAAAAAATTTTAAAAA-ATAT
* *
17277395 AAAGATTCTAGAAAATTTTTAAAAAT-T
1 AAA-ATTCTAAAAAATTTTAAAAAATAT
17277422 AAAA
1 AAAA
17277426 AATAAGTAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.01
27 9 0.12
28 3 0.04
29 25 0.33
30 22 0.29
31 10 0.13
32 5 0.07
33 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (27 bp):
AAAATTCTAAAAAATTTTAAAAAATAT
Found at i:17277536 original size:19 final size:18
Alignment explanation
Indices: 17277500--17277543 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
17277490 AAAATTGATG
**
17277500 ATTTTAATAAAATTTAAA
1 ATTTTAATAAAAAATAAA
17277518 ATTTTAATTAAAAAATAAA
1 ATTTTAA-TAAAAAATAAA
*
17277537 AGTTTAA
1 ATTTTAA
17277544 AAATAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTTTAATAAAAAATAAA
Found at i:17277558 original size:26 final size:25
Alignment explanation
Indices: 17277505--17277559 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
17277495 TGATGATTTT
*
17277505 AATAAAATTTAAAATTTTAATTAAAA
1 AATAAAATTTAAAA-TATAATTAAAA
17277531 AATAAAAGTTTAAAA-ATAATTAAGAA
1 AATAAAA-TTTAAAATATAATTAA-AA
17277557 AAT
1 AAT
17277560 TTCATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.27
26 12 0.46
27 7 0.27
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAAAATTTAAAATATAATTAAAA
Found at i:17277574 original size:16 final size:16
Alignment explanation
Indices: 17277553--17277584 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17277543 AAAATAATTA
*
17277553 AGAAAATTTCATTTTT
1 AGAAAATTTAATTTTT
17277569 AGAAAATTTAATTTTT
1 AGAAAATTTAATTTTT
17277585 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
AGAAAATTTAATTTTT
Found at i:17277649 original size:35 final size:35
Alignment explanation
Indices: 17277610--17277694 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 35
17277600 AAATTTCAAA
*
17277610 AATTTTAAAAAT-TTTCAAATTATGATAATTT-TTAT
1 AATTTTAAAAATAATTCAAATT-T-ATAATTTATTAT
* * *
17277645 AATTTTTAAAATAATTCATATTTTTAATTTATTAT
1 AATTTTAAAAATAATTCAAATTTATAATTTATTAT
*
17277680 AA-TTTAAAAAAAATT
1 AATTTTAAAAATAATT
17277695 TATAAATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
34 17 0.40
35 18 0.43
36 7 0.17
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (35 bp):
AATTTTAAAAATAATTCAAATTTATAATTTATTAT
Found at i:17277731 original size:29 final size:29
Alignment explanation
Indices: 17277670--17277760 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 29
17277660 TCATATTTTT
** *
17277670 AATTTATTATAATTTAAAAAAAATTTATA-
1 AATTT-TTATAATTTTTAAAAAATTTTTAG
*
17277699 AATTTTTATAATTTTTCAAAAATTTTTAG
1 AATTTTTATAATTTTTAAAAAATTTTTAG
* * * *
17277728 AATTGTGTAGAATTTTTTAAAATTTTTTGAG
1 AATT-TTTATAATTTTTAAAAAATTTTT-AG
17277759 AA
1 AA
17277761 ATTTAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 19 0.37
29 9 0.18
30 19 0.37
31 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (29 bp):
AATTTTTATAATTTTTAAAAAATTTTTAG
Found at i:17277933 original size:30 final size:29
Alignment explanation
Indices: 17277889--17277954 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
17277879 ATTTCTAAAG
* ** *
17277889 AATTTTTAATATTTTTTGAGAATTTTTTA
1 AATTTTTAAAATTTTTAAAGAATTTTTAA
17277918 AATTTTATAAAATTTTTAAAGAATTTTTAA
1 AATTTT-TAAAATTTTTAAAGAATTTTTAA
17277948 AATTTTT
1 AATTTTT
17277955 TTTATGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (29 bp):
AATTTTTAAAATTTTTAAAGAATTTTTAA
Found at i:17277951 original size:9 final size:9
Alignment explanation
Indices: 17277594--17277954 Score: 79
Period size: 9 Copynumber: 38.6 Consensus size: 9
17277584 TTTGAATTTT
*
17277594 TTTTTTAAA
1 TTTTTAAAA
*
17277603 -TTTCAAAA
1 TTTTTAAAA
*
17277611 ATTTTAAAA
1 TTTTTAAAA
* *
17277620 ATTTTCAAA
1 TTTTTAAAA
* * *
17277629 TTATGATAA
1 TTTTTAAAA
*
17277638 TTTTTATAA
1 TTTTTAAAA
17277647 TTTTTAAAA
1 TTTTTAAAA
** * *
17277656 TAATTCATA
1 TTTTTAAAA
17277665 TTTTT--AA
1 TTTTTAAAA
*
17277672 TTTATTATAA
1 TTT-TTAAAA
**
17277682 TTTAAAAAA
1 TTTTTAAAA
**
17277691 AATTTATAAA
1 TTTTTA-AAA
*
17277701 TTTTTATAA
1 TTTTTAAAA
17277710 TTTTTCAAAAA
1 TTTTT--AAAA
*
17277721 TTTTTAGAA
1 TTTTTAAAA
* *
17277730 TTGTGTAGAAT
1 TT-TTTA-AAA
17277741 TTTTTAAAA
1 TTTTTAAAA
17277750 TTTTTTGAGAAA
1 -TTTTT-A-AAA
**
17277762 TTTAAAAAA
1 TTTTTAAAA
*
17277771 TTTTTACAA
1 TTTTTAAAA
** *
17277780 TTGTTTTGAG
1 TT-TTTAAAA
**
17277790 TTTTT--TG
1 TTTTTAAAA
*
17277797 TTTTT-AAG
1 TTTTTAAAA
*
17277805 TTTTAAAAA
1 TTTTTAAAA
*
17277814 TTTTTTAAA
1 TTTTTAAAA
**
17277823 TTTAGAAAA
1 TTTTTAAAA
*
17277832 -TTTAAAAA
1 TTTTTAAAA
*
17277840 TTTTTCAAA
1 TTTTTAAAA
17277849 TTTTTATAAA
1 TTTTTA-AAA
** **
17277859 AGTTTAACTTTT
1 TTTTTAA---AA
17277871 TTTTTAAAA
1 TTTTTAAAA
*
17277880 TTTCTAAAGAA
1 TTT-TTAA-AA
*
17277891 TTTTTAATAT
1 TTTTTAA-AA
*
17277901 TTTTTGAGAA
1 TTTTT-AAAA
*
17277911 TTTTTTAAA
1 TTTTTAAAA
17277920 TTTTATAAAA
1 TTTT-TAAAA
17277930 TTTTTAAAGAA
1 TTTTT-AA-AA
17277941 TTTTTAAAA
1 TTTTTAAAA
17277950 TTTTT
1 TTTTT
17277955 TTTATGTTAA
Statistics
Matches: 251, Mismatches: 75, Indels: 52
0.66 0.20 0.14
Matches are distributed among these distances:
7 10 0.04
8 19 0.08
9 119 0.47
10 67 0.27
11 28 0.11
12 8 0.03
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:17277954 original size:20 final size:20
Alignment explanation
Indices: 17277871--17277948 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
17277861 TTTAACTTTT
*
17277871 TTTTTAAAATTTCTAAAGAA
1 TTTTTAAAATTTTTAAAGAA
* **
17277891 TTTTTAATATTTTTTGAGAA
1 TTTTTAAAATTTTTAAAGAA
*
17277911 TTTTTTAAA-TTTTATAA-AA
1 TTTTTAAAATTTTTA-AAGAA
17277930 TTTTTAAAGAATTTTTAAA
1 TTTTT-AA-AATTTTTAAA
17277949 ATTTTTTTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
19 11 0.24
20 25 0.56
21 4 0.09
22 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTAAAATTTTTAAAGAA
Found at i:17277956 original size:11 final size:10
Alignment explanation
Indices: 17277870--17277955 Score: 70
Period size: 11 Copynumber: 8.6 Consensus size: 10
17277860 GTTTAACTTT
17277870 TTTTTTAAAA
1 TTTTTTAAAA
*
17277880 -TTTCTAAAGA
1 TTTTTTAAA-A
* *
17277890 ATTTTTAATA
1 TTTTTTAAAA
*
17277900 TTTTTTGAGAA
1 TTTTTT-AAAA
17277911 TTTTTT-AAA
1 TTTTTTAAAA
*
17277920 TTTTATAAAA
1 TTTTTTAAAA
17277930 -TTTTTAAAGA
1 TTTTTTAAA-A
*
17277940 ATTTTTAAAA
1 TTTTTTAAAA
17277950 TTTTTT
1 TTTTTT
17277956 TTATGTTAAC
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
9 21 0.35
10 17 0.28
11 22 0.37
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:17278403 original size:16 final size:15
Alignment explanation
Indices: 17278376--17278414 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
17278366 TGAATAATAA
*
17278376 AAATATAAATATATT
1 AAATAAAAATATATT
17278391 AAATTAAAAATATATT
1 AAA-TAAAAATATATT
17278407 AAATAAAA
1 AAATAAAA
17278415 TAAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAAAATATATT
Found at i:17279436 original size:3 final size:3
Alignment explanation
Indices: 17279428--17279461 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
17279418 CACAATTATT
17279428 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
17279462 TTGTGTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:17291358 original size:26 final size:29
Alignment explanation
Indices: 17291324--17291384 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 29
17291314 AAAAAGAGTA
* *
17291324 AAATAAATTT-GTTAATTTA-ACA-TAAT
1 AAATAAATTTCATTAATTGATACATTAAT
17291350 AAATAAATTTCATTAATTGATACATTAAT
1 AAATAAATTTCATTAATTGATACATTAAT
17291379 AAATAA
1 AAATAA
17291385 TTTAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 10 0.33
27 7 0.23
28 3 0.10
29 10 0.33
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATAAATTTCATTAATTGATACATTAAT
Found at i:17291414 original size:20 final size:20
Alignment explanation
Indices: 17291389--17291429 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17291379 AAATAATTTA
17291389 AATAAAATTAAT-TATTTATT
1 AATAAAATTAATGT-TTTATT
*
17291409 AATAAATTTAATGTTTTATT
1 AATAAAATTAATGTTTTATT
17291429 A
1 A
17291430 TATTTAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AATAAAATTAATGTTTTATT
Found at i:17292990 original size:15 final size:16
Alignment explanation
Indices: 17292946--17292992 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
17292936 TTTATTATAT
*
17292946 TTATAT-AATCAATTA
1 TTATATCAATAAATTA
*
17292961 TTATATCATTAAATTA
1 TTATATCAATAAATTA
*
17292977 TTA-ATGAATAAATTA
1 TTATATCAATAAATTA
17292992 T
1 T
17292993 AATTTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (16 bp):
TTATATCAATAAATTA
Found at i:17294963 original size:17 final size:16
Alignment explanation
Indices: 17294941--17294989 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
17294931 TATATTAATT
17294941 ATCATGTAATAATAACA
1 ATCATGTAATAATAA-A
*
17294958 ATCATGTAAATATATAAT
1 ATCATGT-AATA-ATAAA
*
17294976 ATCATGCAATAATA
1 ATCATGTAATAATA
17294990 TAAAATACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 10 0.36
19 4 0.14
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (16 bp):
ATCATGTAATAATAAA
Found at i:17294990 original size:18 final size:18
Alignment explanation
Indices: 17294940--17294992 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
17294930 ATATATTAAT
17294940 TATCATGTAATAATA-ACA
1 TATCATGTAATAATATA-A
17294958 -ATCATGTAA-ATATATAA
1 TATCATGTAATA-ATATAA
*
17294975 TATCATGCAATAATATAA
1 TATCATGTAATAATATAA
17294993 AATACCATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 1 0.03
17 13 0.43
18 15 0.50
19 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (18 bp):
TATCATGTAATAATATAA
Found at i:17295277 original size:20 final size:20
Alignment explanation
Indices: 17295254--17295296 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17295244 AAATAAATTA
* * *
17295254 ATAATCATGTAATTAAATAT
1 ATAATCATGCAAATAAAAAT
17295274 ATAATCATGCAAATAAAAAT
1 ATAATCATGCAAATAAAAAT
17295294 ATA
1 ATA
17295297 TAAACCATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATCATGCAAATAAAAAT
Found at i:17295316 original size:23 final size:23
Alignment explanation
Indices: 17295268--17295323 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
17295258 TCATGTAATT
* *
17295268 AAATATAT-AATCATGCAAATAA
1 AAATATATAAACCATGCAAACAA
* *
17295290 AAATATATAAACCATGCATACAC
1 AAATATATAAACCATGCAAACAA
*
17295313 AAATAAATAAA
1 AAATATATAAA
17295324 TTAATAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.61, C:0.12, G:0.04, T:0.23
Consensus pattern (23 bp):
AAATATATAAACCATGCAAACAA
Found at i:17295364 original size:105 final size:109
Alignment explanation
Indices: 17295208--17295416 Score: 277
Period size: 105 Copynumber: 2.0 Consensus size: 109
17295198 ATAAATATGT
* * *
17295208 AAATAAATATATTAATAATCATACAATCACACAAACAAATAAATTAATAATCATG-TAATTA-AA
1 AAATAAATAAATTAATAATCATACAATCACACAAACAAATAAATTAATAATCATGCAAATAATAA
*
17295271 TA-T-ATAATCATGCAAATAAAAATATATAAACCATGCATACAC
66 TATTAATAATCATACAAATAAAAATATATAAACCATGCATACAC
* * * **
17295313 AAATAAATAAATTAATAATCATGCAATTAGACATGC-AATCAAA-TATATAATCATGCAAATAAT
1 AAATAAATAAATTAATAATCATACAATCACACAAACAAAT-AAATTA-ATAATCATGCAAATAAT
17295376 AATATTAATAATCATACAAATAAAAATATATAAACCATGCA
64 AATATTAATAATCATACAAATAAAAATATATAAACCATGCA
17295417 AATAAATATA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
104 5 0.06
105 42 0.47
106 4 0.04
107 4 0.04
108 1 0.01
109 33 0.37
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (109 bp):
AAATAAATAAATTAATAATCATACAATCACACAAACAAATAAATTAATAATCATGCAAATAATAA
TATTAATAATCATACAAATAAAAATATATAAACCATGCATACAC
Found at i:17295387 original size:24 final size:22
Alignment explanation
Indices: 17295353--17295422 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 22
17295343 ACATGCAATC
17295353 AAATATATAATCATGCAAATAA
1 AAATATATAATCATGCAAATAA
* *
17295375 TAATATTAATAATCATACAAATAA
1 AAATA-T-ATAATCATGCAAATAA
*
17295399 AAATATATAAACCATGCAAATAA
1 AAATATAT-AATCATGCAAATAA
17295422 A
1 A
17295423 TATACAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.15
23 15 0.38
24 19 0.47
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (22 bp):
AAATATATAATCATGCAAATAA
Found at i:17295451 original size:55 final size:54
Alignment explanation
Indices: 17295383--17295564 Score: 183
Period size: 55 Copynumber: 3.4 Consensus size: 54
17295373 AATAATATTA
* *
17295383 ATAATCATACAAATAAAAATATATAAACCATGCAAATAAATATACAATTAAATAT
1 ATAATCATGCAAATAAAAATATATAAATCATGCAAA-AAATATACAATTAAATAT
** ** * *
17295438 ATAATCGCGCAAATATTAATATATTAATCATGC-AAACATATACAATT--A-AT
1 ATAATCATGCAAATAAAAATATATAAATCATGCAAAAAATATACAATTAAATAT
* * * * **
17295488 ATAATCATGCAACTAATAATACATAAATCATGCAAAAAAACATGTAATTAAATAT
1 ATAATCATGCAAATAAAAATATATAAATCATGC-AAAAAATATACAATTAAATAT
*
17295543 ATAATCATGCAAATAAATATAT
1 ATAATCATGCAAATAAAAATAT
17295565 TAATAATCAA
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
50 29 0.29
51 1 0.01
52 10 0.10
53 11 0.11
54 3 0.03
55 46 0.46
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (54 bp):
ATAATCATGCAAATAAAAATATATAAATCATGCAAAAAATATACAATTAAATAT
Found at i:17295472 original size:23 final size:23
Alignment explanation
Indices: 17295433--17295523 Score: 60
Period size: 23 Copynumber: 3.8 Consensus size: 23
17295423 TATACAATTA
**
17295433 AATATA-TAATCGCGCAAATATT
1 AATATATTAATCATGCAAATATT
*
17295455 AATATATTAATCATGCAAACATAT
1 AATATATTAATCATGCAAATAT-T
* *
17295479 ACA-ATTAATATAATCATGCAACTAAT
1 A-ATA-T-AT-TAATCATGCAAATATT
* *
17295505 AATACATAAATCATGCAAA
1 AATATATTAATCATGCAAA
17295524 AAAACATGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
22 6 0.11
23 22 0.42
24 5 0.09
25 3 0.06
26 5 0.09
27 12 0.23
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (23 bp):
AATATATTAATCATGCAAATATT
Found at i:17295570 original size:24 final size:24
Alignment explanation
Indices: 17295543--17295746 Score: 211
Period size: 24 Copynumber: 9.0 Consensus size: 24
17295533 AATTAAATAT
17295543 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
17295567 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
17295591 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
*
17295613 TATAATCATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
17295638 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
**
17295658 ATAATCACACAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
17295682 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
**
17295702 ATAATCACACAAATAAATATA-T-
1 ATAATCATGCAAATAAATATATTA
*
17295724 -TAATCATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
17295747 GGCAAATAAA
Statistics
Matches: 148, Mismatches: 17, Indels: 31
0.76 0.09 0.16
Matches are distributed among these distances:
20 36 0.24
21 17 0.11
22 2 0.01
23 18 0.12
24 74 0.50
25 1 0.01
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:17295582 original size:44 final size:45
Alignment explanation
Indices: 17295536--17295746 Score: 236
Period size: 44 Copynumber: 4.7 Consensus size: 45
17295526 AACATGTAAT
* *
17295536 TAAATATA-TAATCATGCAAATAAATATATTAATAATCA-AGCAAT
1 TAAATATATTAATCATGCAAACAAATATATTAATAATCACA-CAAA
* * *
17295580 TAAATATATTAATAATCATGCAATCAAAT-TA-AATATAATCATACAAA
1 TAAATATA-T--TAATCATGCAAACAAATATATTA-ATAATCACACAAA
* **
17295627 TAAATATATTAATAAT-CATGCAAATATATTAATAATCACACAAA
1 TAAATATATTAATCATGCAAACAAATATATTAATAATCACACAAA
* **
17295671 TAAATATATTAATAAT-CATGCAAATATATTAATAATCACACAAA
1 TAAATATATTAATCATGCAAACAAATATATTAATAATCACACAAA
17295715 TAAATATATTAATCATGCAAACAAATATATTA
1 TAAATATATTAATCATGCAAACAAATATATTA
17295747 GGCAAATAAA
Statistics
Matches: 146, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
43 7 0.05
44 87 0.60
45 14 0.10
46 2 0.01
47 20 0.14
48 16 0.11
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (45 bp):
TAAATATATTAATCATGCAAACAAATATATTAATAATCACACAAA
Found at i:17295591 original size:105 final size:103
Alignment explanation
Indices: 17295232--17295602 Score: 262
Period size: 105 Copynumber: 3.6 Consensus size: 103
17295222 ATAATCATAC
* * * * * *
17295232 AATCACACAAACA-AATAAATTAATAATCATGTAATTAA-ATA-T-ATAATCATGCAAATAAAAA
1 AATCACGCAAATATAATATATTAATAATCAAGCAATAAATATATTAATAATCATGCAAATAAAAA
* * *
17295293 TATATAAACCATGCATACACAA-ATA-AA-TAAAT-TAAT
66 TACATAAACCATGCA-AAAAAACATACAATTAAATAT-AT
* * * * * *
17295329 AATCATGCAATTAGACATGCAATCAAATATATAATCATGCAA-ATAATAATATTAATAATCATAC
1 AATCACGCAAATATA-AT---AT--ATTA-ATAATCAAGCAATA-AAT-ATATTAATAATCATGC
* * *
17295393 AAATAAAAATATATAAACCATGCAAATAAATATACAATTAAATATAT
57 AAATAAAAATACATAAACCATGCAAAAAAACATACAATTAAATATAT
* * * * *
17295440 AATCGCGCAAATATTAATATATTAATCATGCAAACATATACAAT-TAAT-ATAATCATGCAACTA
1 AATCACGCAAATA-TAATATATTAATAAT-CAAGCA-ATA-AATATATTAATAATCATGCAAATA
* * **
17295503 ATAATACATAAATCATGCAAAAAAACATGTAATTAAATATAT
62 AAAATACATAAACCATGCAAAAAAACATACAATTAAATATAT
*
17295545 AATCATGCAAATA-AATATATTAATAATCAAGCAATTAAATATATTAATAATCATGCAA
1 AATCACGCAAATATAATATATTAATAATCAAGCAA-TAAATATATTAATAATCATGCAA
17295603 TCAAATTAAA
Statistics
Matches: 214, Mismatches: 36, Indels: 42
0.73 0.12 0.14
Matches are distributed among these distances:
97 9 0.04
98 1 0.00
99 2 0.01
101 4 0.02
102 11 0.05
103 25 0.12
104 3 0.01
105 76 0.36
106 10 0.05
107 4 0.02
108 10 0.05
109 36 0.17
110 2 0.01
111 19 0.09
112 2 0.01
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (103 bp):
AATCACGCAAATATAATATATTAATAATCAAGCAATAAATATATTAATAATCATGCAAATAAAAA
TACATAAACCATGCAAAAAAACATACAATTAAATATAT
Found at i:17295785 original size:20 final size:18
Alignment explanation
Indices: 17295752--17295789 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
17295742 TATTAGGCAA
17295752 ATAAATTATCATGCAAAT
1 ATAAATTATCATGCAAAT
17295770 ATAATATTAGTCATGCAAAT
1 ATAA-ATTA-TCATGCAAAT
17295790 TCATACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (18 bp):
ATAAATTATCATGCAAAT
Done.