Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009260.1 Hibiscus syriacus cultivar Beakdansim tig00112911_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: 220692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:198 original size:19 final size:19
Alignment explanation
Indices: 137--200 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
127 AAGAGATACA
*
137 AAAAATGAAAAAAAGATAAC
1 AAAAAT-AAAAAAATATAAC
*
157 AAATAA-AAATAAATATAAC
1 AAA-AATAAAAAAATATAAC
*
176 AAAAATAAAAAAATATACC
1 AAAAATAAAAAAATATAAC
195 AAAAAT
1 AAAAAT
201 GTAGCTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 2 0.05
19 31 0.82
20 3 0.08
21 2 0.05
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAAATAAAAAAATATAAC
Found at i:409 original size:29 final size:29
Alignment explanation
Indices: 343--410 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 29
333 AAAAATTAAC
*
343 TAAATGAAACAAAAAAATAAAATAAAAATA
1 TAAATGAAA-AAAAAAACAAAATAAAAATA
*
373 TAAA-GAAAAGAACAAACAAAAT-AAAATGA
1 TAAATGAAAA-AAAAAACAAAATAAAAAT-A
402 -AAATGAAAA
1 TAAATGAAAA
411 TAATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 9 0.27
29 20 0.61
30 4 0.12
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.13
Consensus pattern (29 bp):
TAAATGAAAAAAAAAACAAAATAAAAATA
Found at i:2173 original size:36 final size:36
Alignment explanation
Indices: 2132--2204 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
2122 TTCATGCCAA
2132 AGGCATTTAACCTTTCATAAAACTTGCATTATTGGC
1 AGGCATTTAACCTTTCATAAAACTTGCATTATTGGC
*
2168 AGGCATTTAACCTTTCATATAACTTGCATTATTGGC
1 AGGCATTTAACCTTTCATAAAACTTGCATTATTGGC
2204 A
1 A
2205 ACTTTCTGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (36 bp):
AGGCATTTAACCTTTCATAAAACTTGCATTATTGGC
Found at i:2271 original size:80 final size:80
Alignment explanation
Indices: 2174--2801 Score: 757
Period size: 80 Copynumber: 7.9 Consensus size: 80
2164 TGGCAGGCAT
* * * * * ** * *
2174 TTAACCTTTCATATAACTTGCATTATTGGCAACTTTCTGCCAAATGCACAGTTAGGCAATTAATA
1 TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAATC
2239 TTTTACTCAAAGGTA
66 TTTTACTCAAAGGTA
* * * * *
2254 TTAACCTTTCATCTAACTGGCATGATTGATACCTTTCTGTCAAATGCATAGCTAAGCAATTAGTC
1 TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAATC
2319 TTTTACTCAAAGGTA
66 TTTTACTCAAAGGTA
* * *
2334 TTTACCTTTCATCTAACTGGCATGATTGACATCTTTCTATCAAATGCACA-CTAGG-AATTAGTC
1 TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAATC
* *
2397 TTTTTCTCAAAGGTGT
66 TTTTACTCAAAGGT-A
* * * * *
2413 TTAACCTTTCATGTAATTGACATGATTGGCACCTTTCTATC-AATGCACAGCTAGACAATTAATC
1 TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAATC
2477 TTTTACTCAAAGGTA
66 TTTTACTCAAAGGTA
* * * *
2492 TTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGCAATTAAT
1 -TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAAT
*
2557 CTTTTACTCAGAGGTA
65 CTTTTACTCAAAGGTA
** * * * *
2573 TTTAACCTTTCATCTAACTAACATGATTGACACCTTTATGTCAAATG-GCAGCTAGGCAATTAGT
1 -TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAAT
2637 CTTTTACTCAAAGGTA
65 CTTTTACTCAAAGGTA
* * * * *
2653 TTCAACATTTCATCTAACT-GCATGGTTGACACCTTTCTATCAAATGCATAACTAGGCAATTAGT
1 TT-AACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAAT
2717 C-TTTACTC-AAGGTA
65 CTTTTACTCAAAGGTA
* * * *
2731 TTTAACCTTTCATCTAACTGGCATGATTGACACATTTTTATCAAATGCACAACTAAGCAATTAAT
1 -TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAAT
*
2796 ATTTTA
65 CTTTTA
2802 TTTTAAAACA
Statistics
Matches: 475, Mismatches: 63, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
78 50 0.11
79 116 0.24
80 230 0.48
81 79 0.17
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (80 bp):
TTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGCTAGGCAATTAATC
TTTTACTCAAAGGTA
Found at i:2731 original size:239 final size:238
Alignment explanation
Indices: 2216--2801 Score: 793
Period size: 239 Copynumber: 2.5 Consensus size: 238
2206 CTTTCTGCCA
** *
2216 AATGCACAGTTAGGCAATTAATATTTTACTCAAAGGTA-TTAACCTTTCATCTAACTGGCATGAT
1 AATGCACAACTAGGCAATTAAT-CTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAT
* * * * *
2280 TGATACCTTTCTGTCAAATGCATAGCTAAGCAATTAGTCTTTTACTCAAAGGTATTTACCTTTCA
65 TGACACCTTTATGTCAAATGCACAACTAAGCAATTAATCTTTTACTCAAAGGTATTTACCTTTCA
** * * *
2345 TCTAACTGGCATGATTGACATCTTTCTATCAAATGCACACTAGGAATTAGTCTTTTTCTCAAAGG
130 TCTAACTAACATGATTGACACCTTTATATCAAATGCACACTAGGAATTAGTCTTTTACTCAAAGG
* * * * * *
2410 TGTTTAACCTTTCATGTAATTGACATGATTGGCACCTTTCTATC
195 TATTCAACATTTCATCTAACTGACATGATTGACACCTTTCTATC
* * *
2454 AATGCACAGCTAGACAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 AATGCACAACTAGGCAATTAATC-TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAT
* *
2519 TGACACCTTTATGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAGAGGTATTTAACCTTTC
65 TGACACCTTTATGTCAAATGCACAACTAAGCAATTAATCTTTTACTCAAAGGTATTT-ACCTTTC
* *
2584 ATCTAACTAACATGATTGACACCTTTATGTCAAATGGCA-GCTAGGCAATTAGTCTTTTACTCAA
129 ATCTAACTAACATGATTGACACCTTTATATCAAAT-GCACACTAGG-AATTAGTCTTTTACTCAA
*
2648 AGGTATTCAACATTTCATCTAACTG-CATGGTTGACACCTTTCTATC
192 AGGTATTCAACATTTCATCTAACTGACATGATTGACACCTTTCTATC
* *
2694 AAATGCATAACTAGGCAATTAGTCTTTACTC-AAGGTATTTAACCTTTCATCTAACTGGCATGAT
1 -AATGCACAACTAGGCAATTAATCTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGAT
* * * *
2758 TGACACATTTTTATCAAATGCACAACTAAGCAATTAATATTTTA
65 TGACACCTTTATGTCAAATGCACAACTAAGCAATTAATCTTTTA
2802 TTTTAAAACA
Statistics
Matches: 307, Mismatches: 35, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
238 34 0.11
239 146 0.48
240 68 0.22
241 59 0.19
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (238 bp):
AATGCACAACTAGGCAATTAATCTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATT
GACACCTTTATGTCAAATGCACAACTAAGCAATTAATCTTTTACTCAAAGGTATTTACCTTTCAT
CTAACTAACATGATTGACACCTTTATATCAAATGCACACTAGGAATTAGTCTTTTACTCAAAGGT
ATTCAACATTTCATCTAACTGACATGATTGACACCTTTCTATC
Found at i:2758 original size:319 final size:319
Alignment explanation
Indices: 2172--2801 Score: 876
Period size: 319 Copynumber: 2.0 Consensus size: 319
2162 ATTGGCAGGC
* * * * **
2172 ATTTAACCTTTCATATAACTTGCATTATTGGCAACTTTCTGCCAAATGCACAGTTAGGCAATTAA
1 ATTTAACCTTTCATATAACTGGCATAATTGACAACTTTATGCCAAATGCACAACTAGGCAATTAA
** * *
2237 TATTTTACTCAAAGGTATTAACCTTTCATCTAACTGGCATGATTGATACCTTTCTGTCAAATGCA
66 TATTTTACTCAAAGGTATTAACCTTTCATCTAACTAACATGATTGACACCTTTATGTCAAATGCA
* * *
2302 TAGCTAAGCAATTAGTCTTTTACTCAAAGGTATTTACCTTTCATCTAACTGGCATGATTGACATC
131 -AGCTAAGCAATTAGTCTTTTACTCAAAGGTATTAACATTTCATCTAACTGGCATGATTGACACC
* * * * *
2367 TTTCTATCAAATGCACACTAGGAATTAGTCTTTTTCTCAAAGGTGTTTAACCTTTCATGTAATTG
195 TTTCTATCAAATGCAAACTAGGAATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTG
* * * *
2432 ACATGATTGGCACCTTTCTATC-AATGCACAGCT-AGACAATTAATCTTTTACTCAAAGGT
260 ACATGATTGACACATTTCTATCAAATGCACAACTAAG-CAATTAATATTTTACTCAAAGGT
* * *
2491 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGCAATTAA
1 ATTTAACCTTTCATATAACTGGCATAATTGACAACTTTATGCCAAATGCACAACTAGGCAATTAA
* *
2556 TCTTTTACTCAGAGGTATTTAACCTTTCATCTAACTAACATGATTGACACCTTTATGTCAAATGG
66 TATTTTACTCAAAGGTA-TTAACCTTTCATCTAACTAACATGATTGACACCTTTATGTCAAAT-G
* *
2621 C-AGCTAGGCAATTAGTCTTTTACTCAAAGGTATTCAACATTTCATCTAACT-GCATGGTTGACA
129 CAAGCTAAGCAATTAGTCTTTTACTCAAAGGTATT-AACATTTCATCTAACTGGCATGATTGACA
2684 CCTTTCTATCAAATGCATAACTAGGCAATTAGTC-TTTACTC-AAGGTATTTAACCTTTCATCTA
193 CCTTTCTATCAAATGCA-AACTAGG-AATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
2747 ACTGGCATGATTGACACATTTTTATCAAATGCACAACTAAGCAATTAATATTTTA
256 ACTGACATGATTGACACATTTCTATCAAATGCACAACTAAGCAATTAATATTTTA
2802 TTTTAAAACA
Statistics
Matches: 273, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
319 171 0.63
320 90 0.33
321 12 0.04
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (319 bp):
ATTTAACCTTTCATATAACTGGCATAATTGACAACTTTATGCCAAATGCACAACTAGGCAATTAA
TATTTTACTCAAAGGTATTAACCTTTCATCTAACTAACATGATTGACACCTTTATGTCAAATGCA
AGCTAAGCAATTAGTCTTTTACTCAAAGGTATTAACATTTCATCTAACTGGCATGATTGACACCT
TTCTATCAAATGCAAACTAGGAATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGA
CATGATTGACACATTTCTATCAAATGCACAACTAAGCAATTAATATTTTACTCAAAGGT
Found at i:3368 original size:94 final size:94
Alignment explanation
Indices: 3207--3386 Score: 274
Period size: 94 Copynumber: 1.9 Consensus size: 94
3197 ACCATGGTAT
* * * *
3207 CGATACTTCTATATTGTGGTACAATACTCCCTTGCAGTATCGATACCATTTTCTACATTATGTAT
1 CGATACTTCTATACTATGGTACAATACTCCCTTGCAGTATCGATACCATTTTCGACATTATGGAT
*
3272 CCATGGTATCGATACTTTCCTCCTAGTAC
66 CCATGATATCGATACTTTCCTCCTAGTAC
*
3301 CGATACTTCTATACTATGGTACAAATACTCCCATT-CAGTATCGATACCA-TTTCGACATTCTGG
1 CGATACTTCTATACTATGGTAC-AATACTCCC-TTGCAGTATCGATACCATTTTCGACATTATGG
3364 ATCCATGATATCGATACTTTCCT
64 ATCCATGATATCGATACTTTCCT
3387 TTTTTGTGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
94 53 0.68
95 23 0.29
96 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (94 bp):
CGATACTTCTATACTATGGTACAATACTCCCTTGCAGTATCGATACCATTTTCGACATTATGGAT
CCATGATATCGATACTTTCCTCCTAGTAC
Found at i:5200 original size:10 final size:10
Alignment explanation
Indices: 5185--5210 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
5175 TTGCTATTTT
5185 AAAAAAAACA
1 AAAAAAAACA
5195 AAAAAAAACA
1 AAAAAAAACA
5205 AAAAAA
1 AAAAAA
5211 GCCGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:12134 original size:5 final size:5
Alignment explanation
Indices: 12124--12149 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12114 AATTCAACGG
12124 TCCGA TCCGA TCCGA TCCGA TCCGA T
1 TCCGA TCCGA TCCGA TCCGA TCCGA T
12150 AATTCTCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.23
Consensus pattern (5 bp):
TCCGA
Found at i:17410 original size:20 final size:21
Alignment explanation
Indices: 17371--17411 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17361 CAGTCTGAAT
17371 GCTGAACGGTTCAACATTCAGC
1 GCTGAACGGTTC-ACATTCAGC
*
17393 GCTGAATGGTTC-CATTCAG
1 GCTGAACGGTTCACATTCAG
17412 AGCCAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
GCTGAACGGTTCACATTCAGC
Found at i:25512 original size:36 final size:37
Alignment explanation
Indices: 25434--25581 Score: 219
Period size: 36 Copynumber: 4.0 Consensus size: 37
25424 AACAATTCTT
* *
25434 CAGTTGCATGTTGTAGCGCAAACAATTCTTTTTTTTTAA
1 CAGTTGCATGTTGTAGCACAACCAATTC--TTTTTTTAA
*
25473 CAGTTGCATGTTGTGGCACAACCAATTC-TTTTTTAA
1 CAGTTGCATGTTGTAGCACAACCAATTCTTTTTTTAA
25509 CAGTTGCATGTTGTAGCACAACCAATTCCTTTTTTTAA
1 CAGTTGCATGTTGTAGCACAACCAATT-CTTTTTTTAA
*
25547 CAGTTGCACGTT-TAGCACAACCAATTCTTTTTTTA
1 CAGTTGCATGTTGTAGCACAACCAATTCTTTTTTTA
25582 CTTCGATTTT
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
36 43 0.42
37 15 0.15
38 19 0.19
39 25 0.25
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (37 bp):
CAGTTGCATGTTGTAGCACAACCAATTCTTTTTTTAA
Found at i:25580 original size:75 final size:75
Alignment explanation
Indices: 25434--25579 Score: 233
Period size: 75 Copynumber: 2.0 Consensus size: 75
25424 AACAATTCTT
* * * *
25434 CAGTTGCATGTTGTAGCGCAAACAATTCTTTTTTTTTAACAGTTGCATGTTGTGGCACAACCAAT
1 CAGTTGCATGTTGTAGCACAAACAATTCTCTTTTTTTAACAGTTGCACGTTGTAGCACAACCAAT
25499 TCTTTTTTAA
66 TCTTTTTTAA
*
25509 CAGTTGCATGTTGTAGCACAACCAATTC-CTTTTTTTAACAGTTGCACGTT-TAGCACAACCAAT
1 CAGTTGCATGTTGTAGCACAAACAATTCTCTTTTTTTAACAGTTGCACGTTGTAGCACAACCAAT
25572 TCTTTTTT
66 TCTTTTTT
25580 TACTTCGATT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 20 0.30
74 20 0.30
75 26 0.39
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (75 bp):
CAGTTGCATGTTGTAGCACAAACAATTCTCTTTTTTTAACAGTTGCACGTTGTAGCACAACCAAT
TCTTTTTTAA
Found at i:28732 original size:307 final size:307
Alignment explanation
Indices: 28178--28796 Score: 1159
Period size: 307 Copynumber: 2.0 Consensus size: 307
28168 AAATAAAAAG
28178 ACTTCTAACAGATTTGTAATAAAACAACAAAATTAAAGAAAAAGGACTTCTAAAACCGGCTTCTT
1 ACTTCTAACAGATTTGTAATAAAACAACAAAATTAAAGAAAAAGGACTTCTAAAACCGGCTTCTT
28243 TCTATACTCCCCTCAAGTTGGGTGCATATGTTACACAAACCGAGCTTGGACTTGAATTCATCGAA
66 TCTATACTCCCCTCAAGTTGGGTGCATATGTTACACAAACCGAGCTTGGACTTGAATTCATCGAA
* * *
28308 GTTGGTTCTTGTGAGAGCTTTGGTGATGATGTTAGCAAGTTGTAGTTGAGTGGTAATGTAACTTA
131 GTTGGTTCTTGGGAGAGCTTTGGTGATGATGTCAGCAAGTTGTAGCTGAGTGGTAATGTAACTTA
28373 GTTGAACTATCCCATTGTTGATCTCTAAAATGAAATGTCTGTCAATCTCCACATGCTTGGTTCTA
196 GTTGAACTATCCCATTGTTGATCTCTAAAATGAAATGTCTGTCAATCTCCACATGCTTGGTTCTA
*
28438 TCATGGTGTACTAGATTTTTAGCTATACTTAT-TGCGGATTGGTTGTC
261 TCATGGTGTACTAGATTTTCAGCTATACTTATGT-CGGATTGGTTGTC
28485 ACTTCTAACAGATTTGTAATAAAACAACAAAATTAAAGAAAAAGGACTTCTAAAACCGGCTTCTT
1 ACTTCTAACAGATTTGTAATAAAACAACAAAATTAAAGAAAAAGGACTTCTAAAACCGGCTTCTT
28550 TCTATACTCCCCTCAAGTTGGGTGCATATGTTACACAAACCGAGCTTGGACTTGAATTCATCGAA
66 TCTATACTCCCCTCAAGTTGGGTGCATATGTTACACAAACCGAGCTTGGACTTGAATTCATCGAA
28615 GTTGGTTCTTGGGAGAGCTTTGGTGATGATGTCAGCAAGTTGTAGCTGAGTGGTAATGTAACTTA
131 GTTGGTTCTTGGGAGAGCTTTGGTGATGATGTCAGCAAGTTGTAGCTGAGTGGTAATGTAACTTA
* *
28680 GTTGAACTATCCCATTGTTGATCTCTAAACTGAAATGTCTGTCAATCTCCACATGCTTGGTTCTT
196 GTTGAACTATCCCATTGTTGATCTCTAAAATGAAATGTCTGTCAATCTCCACATGCTTGGTTCTA
*
28745 TCATGGTGTACTGGATTTTCAGCTATACTTATGTCGGATTGGTTGTC
261 TCATGGTGTACTAGATTTTCAGCTATACTTATGTCGGATTGGTTGTC
28792 ACTTC
1 ACTTC
28797 GCATTTTGAT
Statistics
Matches: 304, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
307 303 1.00
308 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (307 bp):
ACTTCTAACAGATTTGTAATAAAACAACAAAATTAAAGAAAAAGGACTTCTAAAACCGGCTTCTT
TCTATACTCCCCTCAAGTTGGGTGCATATGTTACACAAACCGAGCTTGGACTTGAATTCATCGAA
GTTGGTTCTTGGGAGAGCTTTGGTGATGATGTCAGCAAGTTGTAGCTGAGTGGTAATGTAACTTA
GTTGAACTATCCCATTGTTGATCTCTAAAATGAAATGTCTGTCAATCTCCACATGCTTGGTTCTA
TCATGGTGTACTAGATTTTCAGCTATACTTATGTCGGATTGGTTGTC
Found at i:33927 original size:80 final size:80
Alignment explanation
Indices: 33794--33954 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
33784 TCAAATGTTT
33794 TAGAGTTATTTTTAAACATATATTATACTTACTCCTTTCTTATAGTAAAATAAATCATTCATATT
1 TAGAGTTATTTTTAAACATATATTATACTTACTCCTTTCTTATAGTAAAATAAATCATTCATATT
33859 AACAATGTTAAATAA
66 AACAATGTTAAATAA
*
33874 TAGAGTTATTTTTAAACATATATTATACTTATTCCTTTCTTATAGTAAAATAAATCATTCATATT
1 TAGAGTTATTTTTAAACATATATTATACTTACTCCTTTCTTATAGTAAAATAAATCATTCATATT
*
33939 AGCAATGTTAAATAA
66 AACAATGTTAAATAA
33954 T
1 T
33955 TCTAATAGGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (80 bp):
TAGAGTTATTTTTAAACATATATTATACTTACTCCTTTCTTATAGTAAAATAAATCATTCATATT
AACAATGTTAAATAA
Found at i:37218 original size:58 final size:59
Alignment explanation
Indices: 37128--37272 Score: 177
Period size: 60 Copynumber: 2.5 Consensus size: 59
37118 TTGGTCCTTA
* * * **
37128 TTTGAATATTCCAATTTTATCCCCAAATTATGA-CTCATTCTAAATTAGTCCTTAAACT
1 TTTGAATATTCTAATTTCATCCCCAAACTATGACCTCATTCTAAATTAGTCCCCAAACT
* * * *
37186 TTTGAACATTCTAATTTCATCCCTC-AACTATGACCCTCTTTCTACATTGGTCCCCAAACT
1 TTTGAATATTCTAATTTCATCCC-CAAACTATGA-CCTCATTCTAAATTAGTCCCCAAACT
37246 TTTGAATATTCTAATTTCATCCCCAAA
1 TTTGAATATTCTAATTTCATCCCCAAA
37273 TTCACTCAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 27 0.37
59 2 0.03
60 44 0.60
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.39
Consensus pattern (59 bp):
TTTGAATATTCTAATTTCATCCCCAAACTATGACCTCATTCTAAATTAGTCCCCAAACT
Found at i:37268 original size:29 final size:29
Alignment explanation
Indices: 37128--37272 Score: 75
Period size: 29 Copynumber: 4.9 Consensus size: 29
37118 TTGGTCCTTA
* *
37128 TTTGAATATTCCAATTTTATCCCCAAA-T
1 TTTGAATATTCTAATTTCATCCCCAAACT
* * * **
37156 TATGACTCATTCTAAATT-AGTCCTTAAACT
1 TTTGAAT-ATTCTAATTTCA-TCCCCAAACT
*
37186 TTTGAACATTCTAATTTCATCCCTC-AAC-
1 TTTGAATATTCTAATTTCATCCC-CAAACT
* * * **
37214 TATGACCCTCTTTCTACA-TTGGTCCCCAAACT
1 TTTGA--AT-ATTCTA-ATTTCATCCCCAAACT
37246 TTTGAATATTCTAATTTCATCCCCAAA
1 TTTGAATATTCTAATTTCATCCCCAAA
37273 TTCACTCAAA
Statistics
Matches: 82, Mismatches: 23, Indels: 23
0.64 0.18 0.18
Matches are distributed among these distances:
28 11 0.13
29 44 0.54
30 8 0.10
31 14 0.17
32 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.39
Consensus pattern (29 bp):
TTTGAATATTCTAATTTCATCCCCAAACT
Found at i:37516 original size:60 final size:59
Alignment explanation
Indices: 37421--37592 Score: 177
Period size: 60 Copynumber: 2.9 Consensus size: 59
37411 GGAATGTTTA
** * * *
37421 AAAAGTTTGGGGACTAATTTAGAATGAATGCCATAGTTTGGGGATGAAATTAAAAT-ATT
1 AAAAGTTTGAAGACTAATTTAAAATGAA-GGCATAGTTTGAGGATGAAATTAAAATAATT
* * * *
37480 CAAAAGTTTGAAGACTAATTTAAAATGATAGGCATAGTTAGAAGATAAAATTGAAATAATT
1 -AAAAGTTTGAAGACTAATTTAAAATGA-AGGCATAGTTTGAGGATGAAATTAAAATAATT
* * * *
37541 AAAAGTTT-AAGACCAATTTAAAATGAAGGTTATACTTTGAGGATGCAATTAA
1 AAAAGTTTGAAGACTAATTTAAAATGAAGG-CATAGTTTGAGGATGAAATTAA
37593 CTCTAAAAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
58 3 0.03
59 32 0.35
60 53 0.58
61 4 0.04
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (59 bp):
AAAAGTTTGAAGACTAATTTAAAATGAAGGCATAGTTTGAGGATGAAATTAAAATAATT
Found at i:41838 original size:25 final size:23
Alignment explanation
Indices: 41810--41865 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
41800 TTTTTGATAA
*
41810 AAATATACTAAAATTTTAATATTTT
1 AAATATACT-AAATTATAAT-TTTT
*
41835 AAATAAAACTAAATTATAATTTTT
1 AAAT-ATACTAAATTATAATTTTT
41859 ATAATAT
1 A-AATAT
41866 TTAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 6 0.23
25 16 0.62
26 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATACTAAATTATAATTTTT
Found at i:43326 original size:16 final size:17
Alignment explanation
Indices: 43305--43346 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
43295 TTATTTAATG
43305 ATAATAATATA-TATAT
1 ATAATAATATATTATAT
*
43321 ATAATAATATATTTTAT
1 ATAATAATATATTATAT
*
43338 TTAATAATA
1 ATAATAATA
43347 ATAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATAATATATTATAT
Found at i:43348 original size:39 final size:35
Alignment explanation
Indices: 43293--43366 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 35
43283 TATTATTATT
*
43293 TTTTATTTAATGATAATAATATATATATATAATAATATA
1 TTTTATTTAATAATAATAATA-AT-TA-A-AATAATATA
43332 TTTTATTTAATAATAATAATAATTAAAATAATATA
1 TTTTATTTAATAATAATAATAATTAAAATAATATA
43367 ATGAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 9 0.26
36 1 0.03
37 2 0.06
38 2 0.06
39 20 0.59
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (35 bp):
TTTTATTTAATAATAATAATAATTAAAATAATATA
Found at i:43614 original size:76 final size:76
Alignment explanation
Indices: 43488--44050 Score: 1090
Period size: 76 Copynumber: 7.4 Consensus size: 76
43478 GAAATATTGA
43488 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
43553 AGGCTTTTTGG
66 AGGCTTTTTGG
43564 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
43629 AGGCTTTTTGG
66 AGGCTTTTTGG
*
43640 AAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
43705 AGGCTTTTTGG
66 AGGCTTTTTGG
*
43716 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAATCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
43781 AGGCTTTTTGG
66 AGGCTTTTTGG
43792 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
43857 AGGCTTTTTGG
66 AGGCTTTTTGG
43868 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
43933 AGGCTTTTTTGG
66 AGGC-TTTTTGG
43945 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
44010 AGGCTTTTTGG
66 AGGCTTTTTGG
*
44021 AAACATCATGCACTGAAGGGCTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
44051 TGAGAAATAG
Statistics
Matches: 481, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
76 405 0.84
77 76 0.16
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:44797 original size:22 final size:22
Alignment explanation
Indices: 44720--44796 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
44710 CATAAAGCTT
44720 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* * * *
44742 TCATCTTTAAAAAGAAAATTTT
1 TCATCTTTGAAAAGAGAATCTA
* **
44764 TCATCTCTGAAGTGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
44786 TCATCTTTGAA
1 TCATCTTTGAA
44797 GAGTGTAGAT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:55251 original size:25 final size:23
Alignment explanation
Indices: 55223--55278 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
55213 TTTTTGATAA
*
55223 AAATATACTAAAATTTTAATATTTT
1 AAATATACT-AAATTATAAT-TTTT
*
55248 AAATAAAACTAAATTATAATTTTT
1 AAAT-ATACTAAATTATAATTTTT
55272 ATAATAT
1 A-AATAT
55279 TTAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 6 0.23
25 16 0.62
26 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATACTAAATTATAATTTTT
Found at i:55999 original size:13 final size:13
Alignment explanation
Indices: 55981--56006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55971 CGTACTCCGC
55981 CGCCGGCCACCGT
1 CGCCGGCCACCGT
55994 CGCCGGCCACCGT
1 CGCCGGCCACCGT
56007 AAACGGTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:57180 original size:18 final size:17
Alignment explanation
Indices: 57157--57190 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57147 CGATATCATA
*
57157 ATATTATTTTTTCATATT
1 ATATTATATTTT-ATATT
57175 ATATTATATTTTATAT
1 ATATTATATTTTATAT
57191 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:66628 original size:39 final size:39
Alignment explanation
Indices: 66585--66682 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
66575 GGTCGGCGAT
*
66585 TTGGGTGGAGGAGCGTAAGTTAGTAGC-TTGGTTGGTGCC
1 TTGGGTGGAGGAGCATAAGTTAGTAGCTTTGG-TGGTGCC
* * *
66624 TTGGGTGGAGGATG-ATAAGTTGGTGGCTTTGGTGGTGCT
1 TTGGGTGGAGGA-GCATAAGTTAGTAGCTTTGGTGGTGCC
66663 TTGGGTGGAGGAGCATAAGT
1 TTGGGTGGAGGAGCATAAGT
66683 GTTGAAAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 46 0.88
40 5 0.10
ACGTcount: A:0.16, C:0.07, G:0.45, T:0.32
Consensus pattern (39 bp):
TTGGGTGGAGGAGCATAAGTTAGTAGCTTTGGTGGTGCC
Found at i:73588 original size:40 final size:40
Alignment explanation
Indices: 73539--73626 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
73529 AGATCAATAG
*
73539 CTCTAATACCATGTTGAGAAGATAGAATTTAATGAATAAC
1 CTCTGATACCATGTTGAGAAGATAGAATTTAATGAATAAC
* * *
73579 CTCTGATACCGTGTTGAGAAGATATAATTTACTGAATAAC
1 CTCTGATACCATGTTGAGAAGATAGAATTTAATGAATAAC
73619 CTCTGATA
1 CTCTGATA
73627 ATATTCATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (40 bp):
CTCTGATACCATGTTGAGAAGATAGAATTTAATGAATAAC
Found at i:76518 original size:16 final size:17
Alignment explanation
Indices: 76494--76540 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
76484 TAAAAATATG
* *
76494 ACATGATGATATA-ATA
1 ACATAATGATATATACA
76510 ACATAATGATATTATTACA
1 ACATAATGATA-TA-TACA
76529 ACATAATGATAT
1 ACATAATGATAT
76541 TATTACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 2 0.08
18 1 0.04
19 13 0.50
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (17 bp):
ACATAATGATATATACA
Found at i:76531 original size:19 final size:19
Alignment explanation
Indices: 76509--76547 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
76499 ATGATATAAT
76509 AACATAATGATATTATTAC
1 AACATAATGATATTATTAC
76528 AACATAATGATATTATTAC
1 AACATAATGATATTATTAC
76547 A
1 A
76548 TGATGGCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (19 bp):
AACATAATGATATTATTAC
Found at i:76548 original size:16 final size:16
Alignment explanation
Indices: 76494--76548 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
76484 TAAAAATATG
* * *
76494 ACATGATGATATAATA
1 ACATAATGATATTATT
76510 ACATAATGATATTATT
1 ACATAATGATATTATT
76526 ACAACATAATGATATTATT
1 ---ACATAATGATATTATT
76545 ACAT
1 ACAT
76549 GATGGCAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 17 0.52
19 16 0.48
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.36
Consensus pattern (16 bp):
ACATAATGATATTATT
Found at i:78257 original size:27 final size:28
Alignment explanation
Indices: 78227--78282 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
78217 TATGATTTTT
*
78227 TTTGCTACACCTTTCACCAT-AAACTTA
1 TTTGCTACAACTTTCACCATGAAACTTA
*
78254 TTTGCTACAACTTTCACCATGAAGCTTA
1 TTTGCTACAACTTTCACCATGAAACTTA
78282 T
1 T
78283 CTGTGAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.38
Consensus pattern (28 bp):
TTTGCTACAACTTTCACCATGAAACTTA
Found at i:80560 original size:19 final size:18
Alignment explanation
Indices: 80509--80557 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
80499 AATCTCTTTA
80509 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
80528 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
80547 ATTTTTTATTT
1 ATTTTTTATTT
80558 TAAAAGCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:83837 original size:13 final size:13
Alignment explanation
Indices: 83798--83862 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
83788 GTCATAAATC
83798 TATGACGCACATT
1 TATGACGCACATT
* *
83811 GATGACACACATT
1 TATGACGCACATT
* *
83824 TATGACTCATATT
1 TATGACGCACATT
**
83837 TATGACGCGTATT
1 TATGACGCACATT
*
83850 TATGACGCGCATT
1 TATGACGCACATT
83863 GAGCGTCATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:83905 original size:83 final size:84
Alignment explanation
Indices: 83811--83991 Score: 197
Period size: 85 Copynumber: 2.2 Consensus size: 84
83801 GACGCACATT
* * *
83811 GATGACACACATTTATGACTCAT-ATTTATGACGCG-TATTTATGACGCGCATTGAGCGTCATTG
1 GATGACACACATTTATGACTCATAATTTATGACACGCT-TGTATGACGCACATTGAGCGTCATTG
* * *
83874 AAGCCCCCGTCA-TAAATGAA
65 AAGCACACGTCATTAAA-AAA
* * ** * * *
83894 GATGAAACACATTTGTGTGTCATAAATTTATGACACGCTTGTATGACTCACATTGCGTGTCATTG
1 GATGACACACATTTATGACTCAT-AATTTATGACACGCTTGTATGACGCACATTGAGCGTCATTG
83959 AAGCACACGTCATTAAAAAA
65 AAGCACACGTCATTAAAAAA
83979 GATGACACACATT
1 GATGACACACATT
83992 CGTGTGTCGT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
83 19 0.24
85 56 0.70
86 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (84 bp):
GATGACACACATTTATGACTCATAATTTATGACACGCTTGTATGACGCACATTGAGCGTCATTGA
AGCACACGTCATTAAAAAA
Found at i:84094 original size:2 final size:2
Alignment explanation
Indices: 84087--84125 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
84077 ATAATACTAA
84087 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
84126 AGCAATCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84448 original size:30 final size:30
Alignment explanation
Indices: 84412--84478 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
84402 AGAATATGCA
84412 AAAACAATATCAACAAAAGGTAAGCAAAAT
1 AAAACAATATCAACAAAAGGTAAGCAAAAT
84442 AAAACAATATCAACAAAAGGTAAGCAAAAT
1 AAAACAATATCAACAAAAGGTAAGCAAAAT
84472 AAAACAA
1 AAAACAA
84479 AGATGTCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.66, C:0.13, G:0.09, T:0.12
Consensus pattern (30 bp):
AAAACAATATCAACAAAAGGTAAGCAAAAT
Found at i:93283 original size:18 final size:18
Alignment explanation
Indices: 93237--93287 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
93227 AATCTCGTTA
93237 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
93256 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
93275 ATTTTTTATTTAA
1 ATTTTTTATTTAA
93288 AAAGAAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.36
19 17 0.61
20 1 0.04
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:93355 original size:16 final size:15
Alignment explanation
Indices: 93317--93370 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
93307 CCCCTTTTTA
* *
93317 TATTTATTACTATTAA
1 TATTTATTATTA-TAT
93333 TATTTATTATTATAT
1 TATTTATTATTATAT
* *
93348 TATATTATTTTTTTAT
1 TAT-TTATTATTATAT
93364 TATTTAT
1 TATTTAT
93371 ATCTTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 9 0.27
16 24 0.73
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTATTATTATAT
Found at i:94008 original size:6 final size:6
Alignment explanation
Indices: 93997--94023 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
93987 AAGTAGGATC
93997 TTGAGG TTGAGG TTGAGG TTGAGG TTG
1 TTGAGG TTGAGG TTGAGG TTGAGG TTG
94024 GGTGGCAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (6 bp):
TTGAGG
Found at i:95325 original size:24 final size:22
Alignment explanation
Indices: 95298--95350 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
95288 ATAAGTAGAA
95298 CAATAACAATAATAAACAGTAAAT
1 CAATAACAAT-ATAAACA-TAAAT
*
95322 CAATAAACAATATCAACATAAAT
1 CAAT-AACAATATAAACATAAAT
95345 CAATAA
1 CAATAA
95351 AGCACAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 9 0.33
24 10 0.37
25 6 0.22
ACGTcount: A:0.62, C:0.15, G:0.02, T:0.21
Consensus pattern (22 bp):
CAATAACAATATAAACATAAAT
Found at i:95347 original size:23 final size:25
Alignment explanation
Indices: 95298--95351 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
95288 ATAAGTAGAA
95298 CAAT-AACAATAATAAACAGTAAAT
1 CAATAAACAATAATAAACAGTAAAT
*
95322 CAATAAACAAT-ATCAACA-TAAAT
1 CAATAAACAATAATAAACAGTAAAT
95345 CAATAAA
1 CAATAAA
95352 GCACAAACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 12 0.43
24 10 0.36
25 6 0.21
ACGTcount: A:0.63, C:0.15, G:0.02, T:0.20
Consensus pattern (25 bp):
CAATAAACAATAATAAACAGTAAAT
Found at i:95477 original size:20 final size:20
Alignment explanation
Indices: 95442--95502 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
95432 CCATTGTAAC
*
95442 AATAAACACTTTTGCAAAAT
1 AATAAACACATTTGCAAAAT
* *
95462 AACT-AATACATTTGCAAAAC
1 AA-TAAACACATTTGCAAAAT
*
95482 AATAAACACATTTGCGAAAT
1 AATAAACACATTTGCAAAAT
95502 A
1 A
95503 GAAAATTACC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (20 bp):
AATAAACACATTTGCAAAAT
Found at i:100100 original size:34 final size:34
Alignment explanation
Indices: 100062--100362 Score: 181
Period size: 34 Copynumber: 7.9 Consensus size: 34
100052 AGCTATGACA
*
100062 TCTTTCATGCCAATAATGCACCCATATGCATTAT
1 TCTTTTATGCCAATAATGCACCCATATGCATTAT
** *
100096 TCTTTTATGCTGATAATGCGCCCATATGCATTTCACT
1 TCTTTTATGCCAATAATGCACCCATATGCA-TT-A-T
100133 ATGACATCCTTTCATGCCAATAATGCACCCATATGCATTAT
1 -T--C-T--TTT-ATGCCAATAATGCACCCATATGCATTAT
* * * *
100174 TCTTTTAGGTCGATAATGTACCCATATGCATTTCAGCTAT
1 TCTTTTATGCCAATAATGCACCCATATGCA--T----TAT
*
100214 GGCATCCTTTTATGCCAGTAATGCACCCATATGCATTAT
1 ----T-CTTTTATGCCAATAATGCACCCATATGCATTAT
* * *
100253 TCTTTTAGGCCGATAATGCACCCACATGCATTTCAGCT
1 TCTTTTATGCCAATAATGCACCCATATGCA-TT-A--T
*
100291 ATGGCATCCTTTCATGCCAA-AATGCACCTATATGCATTAT
1 -T--C-T--TTT-ATGCCAATAATGCACCCATATGCATTAT
*
100331 TCTTTTATGCCGATAATGCACCCATATGCATT
1 TCTTTTATGCCAATAATGCACCCATATGCATT
100363 TCAGATATGA
Statistics
Matches: 208, Mismatches: 26, Indels: 66
0.69 0.09 0.22
Matches are distributed among these distances:
33 6 0.03
34 91 0.44
35 8 0.04
36 4 0.02
37 3 0.01
38 3 0.01
39 5 0.02
40 6 0.03
41 3 0.01
42 3 0.01
43 8 0.04
44 39 0.19
45 29 0.14
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (34 bp):
TCTTTTATGCCAATAATGCACCCATATGCATTAT
Found at i:100114 original size:78 final size:79
Alignment explanation
Indices: 99976--100389 Score: 631
Period size: 78 Copynumber: 5.3 Consensus size: 79
99966 ACATTATATT
* *
99976 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT-TGTTTATTCTGATAATGCACC
1 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCT-TTTATGCTGATAATGCACC
100040 CATATGCATTTCAGC
65 CATATGCATTTCAGC
*
100055 TATGACAT-CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCGCCC
1 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
100119 ATATGCATTTCA-C
66 ATATGCATTTCAGC
* *
100132 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTA-GGTCGATAATGTACC
1 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCT-GATAATGCACC
100196 CATATGCATTTCAGC
65 CATATGCATTTCAGC
* * * * *
100211 TATGGCATCCTTTTATGCCAGTAATGCACCCATATGCATTATTCTTTTAGGCCGATAATGCACCC
1 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
*
100276 ACATGCATTTCAGC
66 ATATGCATTTCAGC
* * *
100290 TATGGCATCCTTTCATGCCAA-AATGCACCTATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
*
100354 ATATGCATTTCAGA
66 ATATGCATTTCAGC
*
100368 TATGACATCTTTTCATGCCAAT
1 TATGACATCCTTTCATGCCAAT
100390 TTAATTATGA
Statistics
Matches: 308, Mismatches: 21, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
77 11 0.04
78 198 0.64
79 98 0.32
80 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.36
Consensus pattern (79 bp):
TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
ATATGCATTTCAGC
Found at i:100326 original size:157 final size:155
Alignment explanation
Indices: 99976--100389 Score: 634
Period size: 157 Copynumber: 2.6 Consensus size: 155
99966 ACATTATATT
*
99976 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT-TGTTTATTCTGATAATGCACC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCT-TTTAGTC-GATAATGCACC
* *
100040 CATATGCATTTCAGCTATGACATCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATG
64 CATATGCATTTCAGCTATGACATCTTTTATGCCAATAATGCACCCATATGCATTATTCTTTTAGG
* * *
100105 CTGATAATGCGCCCATATGCATTTCAC
129 CCGATAATGCACCCACATGCATTTCAC
* *
100132 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGTCGATAATGTACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTA-GTCGATAATGCACCC
* *
100197 ATATGCATTTCAGCTATGGCATCCTTTTATGCCAGTAATGCACCCATATGCATTATTCTTTTAGG
65 ATATGCATTTCAGCTATGACAT-CTTTTATGCCAATAATGCACCCATATGCATTATTCTTTTAGG
100262 CCGATAATGCACCCACATGCATTTCAGC
129 CCGATAATGCACCCACATGCATTTCA-C
* *
100290 TATGGCATCCTTTCATGCCAA-AATGCACCTATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTA-GTCGATAATGCACCC
*
100354 ATATGCATTTCAGATATGACATCTTTTCATGCCAAT
65 ATATGCATTTCAGCTATGACATCTTTT-ATGCCAAT
100390 TTAATTATGA
Statistics
Matches: 235, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
156 83 0.35
157 131 0.56
158 21 0.09
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.36
Consensus pattern (155 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGTCGATAATGCACCCA
TATGCATTTCAGCTATGACATCTTTTATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCC
GATAATGCACCCACATGCATTTCAC
Found at i:100955 original size:95 final size:95
Alignment explanation
Indices: 100820--101007 Score: 279
Period size: 95 Copynumber: 2.0 Consensus size: 95
100810 CAATACTTCT
* * * * *
100820 ATACTATGGTATCGATACCCTCTTCTGGTATCAATACCAATTTTAGCTTCGATGTTGCCTGGTAT
1 ATACTATGGTACCAATACCCTCTTCCGGTATCAATACCAATTTTAGATTCGATGTTACCTGGTAT
100885 CGATACCCTTACCATGGTATCGATACTAGC
66 CGATACCCTTACCATGGTATCGATACTAGC
** * *
100915 ATACTATGGTACCAATACCC-CTTTCCGGTATGGATTCCAATTTTAGATTCGATGTTATCTGGTA
1 ATACTATGGTACCAATACCCTC-TTCCGGTATCAATACCAATTTTAGATTCGATGTTACCTGGTA
100979 TCGATACCCTTACCATGGTATCGATACTA
65 TCGATACCCTTACCATGGTATCGATACTA
101008 CTCATCGGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 1 0.01
95 82 0.99
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (95 bp):
ATACTATGGTACCAATACCCTCTTCCGGTATCAATACCAATTTTAGATTCGATGTTACCTGGTAT
CGATACCCTTACCATGGTATCGATACTAGC
Found at i:101019 original size:19 final size:19
Alignment explanation
Indices: 100995--101051 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
100985 CCCTTACCAT
100995 GGTATCGATACTACTCATC
1 GGTATCGATACTACTCATC
* *
101014 GGTATCGATATTGATTCAATC
1 GGTATCGATACT-ACTC-ATC
**
101035 AATATCGATACTACTCA
1 GGTATCGATACTACTCA
101052 GCTAATTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 12 0.40
20 6 0.20
21 12 0.40
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (19 bp):
GGTATCGATACTACTCATC
Found at i:101987 original size:43 final size:43
Alignment explanation
Indices: 101939--102030 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
101929 CTGCATGGGT
**
101939 TCCTCTACGGAGGGTAACATCCCCGTCTTATTTCTACATGAGA
1 TCCTCTACGGAGGACAACATCCCCGTCTTATTTCTACATGAGA
* ** * * *
101982 TCCTCTACTGAGGACATTATCCCCGTCTTGTTTCTATATGGGA
1 TCCTCTACGGAGGACAACATCCCCGTCTTATTTCTACATGAGA
102025 TCCTCT
1 TCCTCT
102031 TCTGAGGGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (43 bp):
TCCTCTACGGAGGACAACATCCCCGTCTTATTTCTACATGAGA
Found at i:102036 original size:43 final size:43
Alignment explanation
Indices: 101957--102042 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
101947 GGAGGGTAAC
101957 ATCCCCGTCTTATTTCTACATGAGATCCTCTACTGAGGACATT
1 ATCCCCGTCTTATTTCTACATGAGATCCTCTACTGAGGACATT
* * * * *
102000 ATCCCCGTCTTGTTTCTATATGGGATCCTCTTCTGAGGGCATT
1 ATCCCCGTCTTATTTCTACATGAGATCCTCTACTGAGGACATT
102043 GCCTCCATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (43 bp):
ATCCCCGTCTTATTTCTACATGAGATCCTCTACTGAGGACATT
Found at i:102987 original size:18 final size:18
Alignment explanation
Indices: 102966--103014 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
102956 AAGACATTAA
*
102966 TATCCAACCAACAAATAC
1 TATCCAACAAACAAATAC
102984 TATCCAACAAACAAATAC
1 TATCCAACAAACAAATAC
103002 TATCCAACAAACA
1 TATCCAACAAACA
103015 TATAATATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (18 bp):
TATCCAACAAACAAATAC
Found at i:103023 original size:18 final size:18
Alignment explanation
Indices: 102963--103023 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
102953 ATCAAGACAT
*
102963 TAATATCCAACCAACAAA
1 TAATATCCAACAAACAAA
*
102981 TACTATCCAACAAACAAA
1 TAATATCCAACAAACAAA
* *
102999 TACTATCCAACAAACATA
1 TAATATCCAACAAACAAA
103017 TAATATC
1 TAATATC
103024 TACCATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (18 bp):
TAATATCCAACAAACAAA
Found at i:105978 original size:31 final size:33
Alignment explanation
Indices: 105883--105979 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 33
105873 CGGTGTCGAA
* *
105883 CTATACAAGGAATTACCAGCAGCGACTAAACCTG
1 CTATACAAGGAATTACCAACAGCGACTGAA-CTG
* * * *
105917 CTAGAGATAGGAATTACCAATCGGTG-CTGAA-T-
1 CTATACA-AGGAATTACCAA-CAGCGACTGAACTG
105949 CTATACAAGGAATTACCAACAGCGACTGAAC
1 CTATACAAGGAATTACCAACAGCGACTGAAC
105980 CTGTCAAAGC
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
30 3 0.06
31 17 0.35
32 5 0.10
33 1 0.02
34 5 0.10
35 15 0.31
36 3 0.06
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (33 bp):
CTATACAAGGAATTACCAACAGCGACTGAACTG
Found at i:111141 original size:28 final size:28
Alignment explanation
Indices: 111073--111170 Score: 105
Period size: 27 Copynumber: 3.6 Consensus size: 28
111063 TTTACTCTAT
**
111073 GGGTATTTTGGTCA-TTTTGCGGTTTAA
1 GGGTATTTTGGTCATTTTTGTAGTTTAA
** * *
111100 GGGTATTTCAGTCATTTTATTTAG-TTAG
1 GGGTATTTTGGTCATTTT-TGTAGTTTAA
111128 GGGTATTTTGGTCA-TTTTGTAGTTTAA
1 GGGTATTTTGGTCATTTTTGTAGTTTAA
111155 GGGTA-TTTGGTCATTT
1 GGGTATTTTGGTCATTT
111171 CCTTCAGTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
26 12 0.21
27 25 0.44
28 18 0.32
29 2 0.04
ACGTcount: A:0.17, C:0.06, G:0.27, T:0.50
Consensus pattern (28 bp):
GGGTATTTTGGTCATTTTTGTAGTTTAA
Found at i:112070 original size:19 final size:19
Alignment explanation
Indices: 112048--112097 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
112038 CTCAGTCCAA
*
112048 ACCGGTCTAGCCAGTTCAG
1 ACCGGTCCAGCCAGTTCAG
*
112067 ACCGGACCAGCCAGTTCAG
1 ACCGGTCCAGCCAGTTCAG
112086 ACCGGTCCAGCC
1 ACCGGTCCAGCC
112098 TACTCCCCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.22, C:0.38, G:0.26, T:0.14
Consensus pattern (19 bp):
ACCGGTCCAGCCAGTTCAG
Found at i:115441 original size:3 final size:3
Alignment explanation
Indices: 115433--115459 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
115423 TATGTAACAT
115433 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
115460 ATAAAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:115805 original size:79 final size:78
Alignment explanation
Indices: 115674--115920 Score: 289
Period size: 79 Copynumber: 3.1 Consensus size: 78
115664 ATATCAGATA
* * * * *
115674 GATGGATATGCTTCACTATTCTTCCGTGAAGGCTTAAGATGGCCCGGAGGACTTCATCGTCATGC
1 GATGGATTTGCTTCACTACTCTT-CGTGAAGGCTTAAAATGGCACGGAGGACTTAATCGTCATGC
115739 TC-AGAAGGCTTACT
65 TCGA-AAGGCTTACT
* *
115753 GATGGATTTGCTTCATTACTCTTCGTTGAAGGCTTAAAATGGCATGGAGGACTTAATCGTCATGC
1 GATGGATTTGCTTCACTACTCTTCG-TGAAGGCTTAAAATGGCACGGAGGACTTAATCGTCATGC
115818 TCGAAAGGCTTACT
65 TCGAAAGGCTTACT
* ** * ** * * *
115832 GATGGATTTGCTTCACTACACTTCGGTGAAGGCTTATGATGGCCCAAAGGATTTAAGCATCATGC
1 GATGGATTTGCTTCACTACTCTTC-GTGAAGGCTTAAAATGGCACGGAGGACTTAATCGTCATGC
* *
115897 TCGAAAGACTTACA
65 TCGAAAGGCTTACT
115911 GATGGATTTG
1 GATGGATTTG
115921 ATCATCATGC
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
78 2 0.01
79 141 0.97
80 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (78 bp):
GATGGATTTGCTTCACTACTCTTCGTGAAGGCTTAAAATGGCACGGAGGACTTAATCGTCATGCT
CGAAAGGCTTACT
Found at i:115927 original size:34 final size:34
Alignment explanation
Indices: 115880--115982 Score: 145
Period size: 34 Copynumber: 3.0 Consensus size: 34
115870 ATGGCCCAAA
* * *
115880 GGATTTAAGCATCATGCTCGAAAGACTTACAGAT
1 GGATTTGATCATCATGCTCGAAAGACTTACTGAT
115914 GGATTTGATCATCATGCTCGGAAA-ACTTACTGAT
1 GGATTTGATCATCATGCTC-GAAAGACTTACTGAT
* *
115948 GGGTTTGATCATCATGCTCGGAAGACTTACTGAT
1 GGATTTGATCATCATGCTCGAAAGACTTACTGAT
115982 G
1 G
115983 ACCCGAAGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
33 3 0.05
34 55 0.89
35 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (34 bp):
GGATTTGATCATCATGCTCGAAAGACTTACTGAT
Found at i:117412 original size:5 final size:5
Alignment explanation
Indices: 117402--117426 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
117392 TCAGGCTCAC
117402 AATCA AATCA AATCA AATCA AATCA
1 AATCA AATCA AATCA AATCA AATCA
117427 TAAACATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AATCA
Found at i:122274 original size:17 final size:16
Alignment explanation
Indices: 122243--122276 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
122233 TTTTTTAAAT
122243 ACATATTAATATATAC
1 ACATATTAATATATAC
*
122259 ACATATATATTATATAC
1 ACATAT-TAATATATAC
122276 A
1 A
122277 TGGAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
ACATATTAATATATAC
Found at i:122458 original size:2 final size:2
Alignment explanation
Indices: 122453--122481 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
122443 TCAACACACC
122453 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
122482 CTTTAATAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:126360 original size:21 final size:20
Alignment explanation
Indices: 126332--126370 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
126322 CATGACATGA
*
126332 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
126352 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
126371 GACTTTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:133593 original size:21 final size:21
Alignment explanation
Indices: 133560--133603 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
133550 CTATTTTTTC
*
133560 AAAAAAAACAAAAAAGG-CAA
1 AAAAAAAAAAAAAAAGGTCAA
133580 AAAAACAAAAAAAAAAGGTCAA
1 AAAAA-AAAAAAAAAAGGTCAA
133602 AA
1 AA
133604 TTTCAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAGGTCAA
Found at i:136487 original size:50 final size:50
Alignment explanation
Indices: 136393--136487 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
136383 CACACTCCAA
** * *
136393 TTTGCCTTTTCATTGCGACTAGGAGGGTTAGTTAGAGTCATATTATCGTG
1 TTTGCCTTTTCATTGCGACTAGGAGGACTAGATAGAGACATATTATCGTG
** *
136443 TTTGCCTTTTCATTTTGACTAGGAGGACTCGATAG-GACATTATTA
1 TTTGCCTTTTCATTGCGACTAGGAGGACTAGATAGAGACA-TATTA
136488 ATCTATTATC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
49 3 0.08
50 34 0.92
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (50 bp):
TTTGCCTTTTCATTGCGACTAGGAGGACTAGATAGAGACATATTATCGTG
Found at i:136976 original size:10 final size:10
Alignment explanation
Indices: 136963--136997 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
136953 CAAAAAAGGC
136963 AAAAAAACTA
1 AAAAAAACTA
*
136973 AAAAAAACAAA
1 AAAAAAAC-TA
136984 AAAAAAACTA
1 AAAAAAACTA
136994 AAAA
1 AAAA
136998 GTCAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.06
Consensus pattern (10 bp):
AAAAAAACTA
Found at i:136977 original size:11 final size:11
Alignment explanation
Indices: 136963--136997 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
136953 CAAAAAAGGC
136963 AAAAAAACT-A
1 AAAAAAACTAA
*
136973 AAAAAAACAAA
1 AAAAAAACTAA
136984 AAAAAAACTAA
1 AAAAAAACTAA
136995 AAA
1 AAA
136998 GTCAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAAAAACTAA
Found at i:136988 original size:9 final size:9
Alignment explanation
Indices: 136946--136988 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
136936 TATTTTTTTC
136946 AAAAAAACA
1 AAAAAAACA
**
136955 AAAAAGGC-
1 AAAAAAACA
136963 AAAAAAACTA
1 AAAAAAAC-A
136973 AAAAAAACA
1 AAAAAAACA
136982 AAAAAAA
1 AAAAAAA
136989 AACTAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 6 0.21
9 14 0.50
10 8 0.29
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.02
Consensus pattern (9 bp):
AAAAAAACA
Found at i:136997 original size:9 final size:8
Alignment explanation
Indices: 136945--136987 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
136935 CTATTTTTTT
136945 CAAAAAAA
1 CAAAAAAA
*
136953 CAAAAAAGG
1 CAAAAAA-A
136962 CAAAAAAA
1 CAAAAAAA
136970 CTAAAAAAAA
1 C--AAAAAAA
136980 CAAAAAAA
1 CAAAAAAA
136988 AAACTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 15 0.50
9 7 0.23
10 8 0.27
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.02
Consensus pattern (8 bp):
CAAAAAAA
Found at i:145732 original size:97 final size:97
Alignment explanation
Indices: 145452--145739 Score: 479
Period size: 97 Copynumber: 2.9 Consensus size: 97
145442 AGTAGTAAAG
* *
145452 TAATGAAGACTTTAACTTGAACTAAGAAAGTAATAAACACTTTTAACTTTGTTTCATAACCTAAC
1 TAATGAAGACTTTAACTTGAACAAAAAAAGTAATAAACAC-TTTAACTTTGTTTCATAACCTAAC
145517 AAGTAAAGTCCTAAACTAATAAACTAATACAGTC
65 -AGTAAAGTCCTAAACTAATAAACTAATACAGTC
* *
145551 TAATGAAGACTTTAACTTGAACAAAAAAAAGAAATAAACACTTTAACCTTGTTTCATAACCTAAC
1 TAATGAAGACTTTAACTTGAAC-AAAAAAAGTAATAAACACTTTAACTTTGTTTCATAACCTAAC
*
145616 AGTAAAGTCCTAAAATAATAAACTAATACAGTC
65 AGTAAAGTCCTAAACTAATAAACTAATACAGTC
*
145649 TAATGAAGACTTTAACTTGAACAAAAAAAGTAATAAACACTTTAACTTTATTTCATAACCTAACA
1 TAATGAAGACTTTAACTTGAACAAAAAAAGTAATAAACACTTTAACTTTGTTTCATAACCTAACA
*
145714 GTAAAGTTCTAAACTAAT-AACTAATA
66 GTAAAGTCCTAAACTAATAAACTAATA
145740 AACTAATACA
Statistics
Matches: 178, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
96 8 0.04
97 56 0.31
98 54 0.30
99 45 0.25
100 15 0.08
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (97 bp):
TAATGAAGACTTTAACTTGAACAAAAAAAGTAATAAACACTTTAACTTTGTTTCATAACCTAACA
GTAAAGTCCTAAACTAATAAACTAATACAGTC
Found at i:145796 original size:11 final size:11
Alignment explanation
Indices: 145782--145853 Score: 51
Period size: 11 Copynumber: 6.6 Consensus size: 11
145772 TATTTAAAAA
145782 ATATTAATAAC
1 ATATTAATAAC
*
145793 ATATTAA-ACC
1 ATATTAATAAC
145803 ATTCATTAATAAC
1 A-T-ATTAATAAC
** **
145816 ATATTACCAGT
1 ATATTAATAAC
145827 ATATTAA-AA-
1 ATATTAATAAC
*
145836 ATATTAATAAT
1 ATATTAATAAC
145847 ATATTAA
1 ATATTAA
145854 ACCATTCCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 7 0.15
10 6 0.12
11 26 0.54
12 6 0.12
13 3 0.06
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (11 bp):
ATATTAATAAC
Found at i:145880 original size:9 final size:9
Alignment explanation
Indices: 145866--145940 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
145856 CATTCCATAA
145866 CATATTAAC
1 CATATTAAC
145875 CATATTAAAGC
1 CATATT-AA-C
*
145886 CTTCATT-AC
1 CAT-ATTAAC
* *
145895 AATATTAAT
1 CATATTAAC
145904 CATATTAAAC
1 CATATT-AAC
* *
145914 CATCCTTTAC
1 CAT-ATTAAC
145924 CATATTAAC
1 CATATTAAC
145933 CATATTAA
1 CATATTAA
145941 TAATAACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
8 3 0.06
9 26 0.52
10 13 0.26
11 5 0.10
12 3 0.06
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.36
Consensus pattern (9 bp):
CATATTAAC
Found at i:145883 original size:29 final size:29
Alignment explanation
Indices: 145847--145940 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 29
145837 TATTAATAAT
145847 ATATTAAACCATTCCATAACATATTAACC
1 ATATTAAACCATTCCATAACATATTAACC
* *
145876 ATATTAAAGCC-TT-CATTACAATATTAATC
1 ATATTAAA-CCATTCCATAAC-ATATTAACC
* *
145905 ATATTAAACCA-TCCTTTACCATATTAACC
1 ATATTAAACCATTCC-ATAACATATTAACC
145934 ATATTAA
1 ATATTAA
145941 TAATAACATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
28 8 0.15
29 42 0.78
30 4 0.07
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (29 bp):
ATATTAAACCATTCCATAACATATTAACC
Found at i:146038 original size:19 final size:18
Alignment explanation
Indices: 145997--146042 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
145987 CCATTTGTTT
145997 TAATAACATATTAATAGTA
1 TAATAACATATTAATAG-A
146016 TAATAACATATTAA-ATGA
1 TAATAACATATTAATA-GA
146034 GTAATAACA
1 -TAATAACA
146043 GTATGATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (18 bp):
TAATAACATATTAATAGA
Found at i:148181 original size:18 final size:18
Alignment explanation
Indices: 148160--148194 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
148150 ATATTTTATG
148160 TAGGCAATAACTTTTGTA
1 TAGGCAATAACTTTTGTA
* *
148178 TAGGCATTAGCTTTTGT
1 TAGGCAATAACTTTTGT
148195 GCAGGTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (18 bp):
TAGGCAATAACTTTTGTA
Found at i:148350 original size:21 final size:21
Alignment explanation
Indices: 148325--148394 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
148315 TAAGAATGTA
148325 CAAATGTTGATTTATGTTATG
1 CAAATGTTGATTTATGTTATG
*
148346 AAAATGTTGATTTATGTTATG
1 CAAATGTTGATTTATGTTATG
*
148367 CAAATGTTGATTTAGGTTATG
1 CAAATGTTGATTTATGTTATG
148388 CAAATGT
1 CAAATGT
148395 GCAAATGTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (21 bp):
CAAATGTTGATTTATGTTATG
Found at i:148393 original size:147 final size:139
Alignment explanation
Indices: 148201--148478 Score: 394
Period size: 140 Copynumber: 1.9 Consensus size: 139
148191 TTGTGCAGGT
148201 AAATATTGATTTATGTTATGCAATGTTGATTTAGGTTATAAAAATGTGCAAATGTTGATTTTAGG
1 AAATATTGATTTATGTTATGCAATGTTGATTTAGGTTATAAAAATGTGCAAA---TG----TAGG
* *
148266 TTATGCATATTCTAATGTTGCAAATGTACAGATTATACTTAGCATTTGCTAAGAATGTACAAATG
59 TTATGCAGATTCTAATGTTGCAAATGTACAAATTATACTTAGCATTTGCTAAGAATGTACAAATG
148331 TTGATTTATGTTATGA
124 TTGATTTATGTTATGA
* **
148347 AAATGTTGATTTATGTTATGCAAATGTTGATTTAGGTTATGCAAATGTGCAAATGTAGGTTATGC
1 AAATATTGATTTATGTTATGC-AATGTTGATTTAGGTTATAAAAATGTGCAAATGTAGGTTATGC
* * * * *
148412 AGATTCTAATGTTGCAGATGTACAAATTATACTTAGCATTTGTTATGAATGTGCAAATTTTGATT
65 AGATTCTAATGTTGCAAATGTACAAATTATACTTAGCATTTGCTAAGAATGTACAAATGTTGATT
148477 TA
130 TA
148479 GGTACCTACA
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
140 70 0.58
144 2 0.02
146 20 0.17
147 29 0.24
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (139 bp):
AAATATTGATTTATGTTATGCAATGTTGATTTAGGTTATAAAAATGTGCAAATGTAGGTTATGCA
GATTCTAATGTTGCAAATGTACAAATTATACTTAGCATTTGCTAAGAATGTACAAATGTTGATTT
ATGTTATGA
Found at i:148846 original size:157 final size:157
Alignment explanation
Indices: 148560--148926 Score: 578
Period size: 157 Copynumber: 2.3 Consensus size: 157
148550 GATTCACTAC
148560 TATTTTATTTGTACTTCACATATCAAACAAGATAAATATCAAATATTTTACTTTGTTGTTAATTT
1 TATTTTATTTGTACTTCACATATCAAACAAGATAAATATCAAATATTTTACTTTGTTGTTAATTT
* *
148625 TAGGTGCTTTGATCCACTACTGTTTCTAATCTTTTAACTTGTTTTTCACTCATGCCTTAAACAAA
66 CAGGTGCTTTGATCCACTACTGTTTCTAATCTTTTAACTTGTTTTTCACTCATGCCATAAACAAA
148690 ACACTATCTAAT-AAAATACATATCAAA
131 ACACTATC-AATCAAAATACATATCAAA
* * * *
148717 TATTTTATTTGTACTTTACATAGCAAACAAGATAAATATAAAATATTTTACTTTTTTCGTTAATT
1 TATTTTATTTGTACTTCACATATCAAACAAGATAAATATCAAATATTTTACTTTGTT-GTTAATT
* * * *
148782 TCAGGTG-TCTTGATCCGCTATTGTTTCTAATCTTTTAACTTG-TTTTCACTCATGTCATCAACA
65 TCAGGTGCT-TTGATCCACTACTGTTTCTAATCTTTTAACTTGTTTTTCACTCATGCCATAAACA
148845 AAACACTATCAATCAAAATACATATCAAA
129 AAACACTATCAATCAAAATACATATCAAA
* *
148874 CATTTTATTTGTACTTCACATATCAAACAAGATAAAGATCAAATATTTTACTT
1 TATTTTATTTGTACTTCACATATCAAACAAGATAAATATCAAATATTTTACTT
148927 AGTCTTCACA
Statistics
Matches: 192, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
156 3 0.02
157 145 0.76
158 44 0.23
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.41
Consensus pattern (157 bp):
TATTTTATTTGTACTTCACATATCAAACAAGATAAATATCAAATATTTTACTTTGTTGTTAATTT
CAGGTGCTTTGATCCACTACTGTTTCTAATCTTTTAACTTGTTTTTCACTCATGCCATAAACAAA
ACACTATCAATCAAAATACATATCAAA
Found at i:148995 original size:46 final size:46
Alignment explanation
Indices: 148933--149022 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
148923 ACTTAGTCTT
* *
148933 CACATATCAAACAAAATACATAACCAAACATTTTACCTGGTCTTCA
1 CACATATAAAACAAAATACACAACCAAACATTTTACCTGGTCTTCA
* *
148979 CACATATAAAACAAAATACACAACCAAACATTTTTCTTGGTCTT
1 CACATATAAAACAAAATACACAACCAAACATTTTACCTGGTCTT
149023 AAAACATCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (46 bp):
CACATATAAAACAAAATACACAACCAAACATTTTACCTGGTCTTCA
Found at i:149407 original size:64 final size:64
Alignment explanation
Indices: 149332--149480 Score: 199
Period size: 64 Copynumber: 2.3 Consensus size: 64
149322 CAAGCCACTG
* * *
149332 AAAAAATTTACAACGATTCTAGGGGAAATTGAAGGCAAAAATAATATAAAAATTCATAGTAATA
1 AAAAAATTTACAACGATTCTAGGGGAAATTCAAGGCAAAAATAATACAAAAATTCATAGCAATA
* * * * * *
149396 AAAAAACTTACAATGATTGTAGGGGATATTCAAGTCAAACATAATACAAAAATTCATAGCAATA
1 AAAAAATTTACAACGATTCTAGGGGAAATTCAAGGCAAAAATAATACAAAAATTCATAGCAATA
* *
149460 AATAAATTTACAACCATTCTA
1 AAAAAATTTACAACGATTCTA
149481 TACGACAACA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 71 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (64 bp):
AAAAAATTTACAACGATTCTAGGGGAAATTCAAGGCAAAAATAATACAAAAATTCATAGCAATA
Found at i:150383 original size:64 final size:64
Alignment explanation
Indices: 150256--150375 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
150246 TATGTTATTT
* *
150256 CATTTAACCCGAAATATTATGAAGTACAATAACATATTAGGTAGCACTTATATAATAAAATAGG
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATAAAATAGG
*
150320 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAAT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAAT
150376 GTAATAGGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (64 bp):
CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATAAAATAGG
Found at i:150826 original size:200 final size:198
Alignment explanation
Indices: 150413--150917 Score: 692
Period size: 200 Copynumber: 2.5 Consensus size: 198
150403 TTTTCTAACT
* * * *
150413 AAACCGATTTATTTATACAGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
150478 TATTTTTGAGATCGATACAATTTA-AAATGTATCGACACTTTATGGGTGCACCTCGTTGGGCATT
66 TGTTTTTGGGATCGATAC-TTTTATAAATGTATCGGCACTTTATGCGTGCACCTCGTTGGGCATT
* * *
150542 CATTTTGGAAAAAAGTATCCACACAAATTTAAAAAGTGTCAATACATTATGTTGACCTATTCTCT
130 CATTCTGGAAAAAAGTATCCACACAAATTCAAAAAGTGTCAATACATTATGTTGACATATTCTCT
150607 CATA
195 CATA
150611 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTCGA
1 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
150675 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGGCACTTTATGCGTGCACCTCATTTGGGCAT
66 TGTTTTTGGGATCGATACTTTT-ATAAATGTATCGGCACTTTATGCGTGCACCTC-GTTGGGCAT
* * * * * *
150740 TCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTTGACATGTTCT
129 TCATTCTGGA-AAAAAGTATCCACACAAATTCAAAAAGTGTCAATACATTATGTTGACATATTCT
*
150805 CTCTTA
193 CTCATA
* * * * **
150811 AAACCGGTATATTTATACCGGTTACATTGTTAATTTACCTATTATATTATAATTATTGGTTTTAA
1 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
150876 TGTTTTTGGGGTCGATACTTTTATAAAATGTAT-GGACACTTT
66 TGTTTTTGGGATCGATACTTTTAT-AAATGTATCGG-CACTTT
150918 TGTTTACTTG
Statistics
Matches: 273, Mismatches: 27, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
196 3 0.01
197 22 0.08
198 83 0.30
199 17 0.06
200 110 0.40
201 38 0.14
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (198 bp):
AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTATAAATGTATCGGCACTTTATGCGTGCACCTCGTTGGGCATTC
ATTCTGGAAAAAAGTATCCACACAAATTCAAAAAGTGTCAATACATTATGTTGACATATTCTCTC
ATA
Found at i:155798 original size:199 final size:200
Alignment explanation
Indices: 155309--156037 Score: 1074
Period size: 200 Copynumber: 3.7 Consensus size: 200
155299 AAAAGTGTCG
* * *
155309 ATTATGTATACCTATTTTCTAATT-AACCGGTATATTTCTACCGGTTACATTGGAAATTTACCTA
1 ATTATGTATACCTGTTTTCTAATTAAACCGGTATATATCTACCGATTACATTGGAAATTTACCTA
* * * *
155373 TTACATTATAATTATCTATTTCGATGTTTTTGGGATCGCTATTTTTAATTAATGTATCGATACTT
66 TTACATTATAATTATCTATTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
* * *
155438 GATGTGTGCACCCAGTTTGGGTATTCATTCTGGACAAAAAGTATCGACA-TAATTTAAAATA-TG
131 TATGCGTGCACCCAGTTT-GGTATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAA-AGTG
155501 TCGATAC
194 TCGATAC
*
155508 ATTATGTTTACCTGTTTTCTAATTAAACCGGTATATATCTACCGATTACATTGGAAATTTACCTA
1 ATTATGTATACCTGTTTTCTAATTAAACCGGTATATATCTACCGATTACATTGGAAATTTACCTA
* *
155573 TTACATTATAATTATATGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
66 TTACATTATAATTATCTATTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
* * * *
155638 TACGCGTGCACCCTGTTTGGCATTCATTTTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTC
131 TATGCGTGCACCCAGTTTGGTATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTC
155703 -ACTAC
196 GA-TAC
* * * *
155708 ATTATGTAAACTTGTTTTCTAATT-AACCGGTATATTTCTACC-ACTTACATTAGAAATTTACCT
1 ATTATGTATACCTGTTTTCTAATTAAACCGGTATATATCTACCGA-TTACATTGGAAATTTACCT
* *
155771 ATTACATTATAATTTTCTATTTCGATGTTTTTGGGATCGAAACTTTTAATAAATGTATCGACACT
65 ATTACATTATAATTATCTATTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACT
* * * * **
155836 TTATGCGTACACCCCGTTTGGTGTTCATTCTAGACAAAAAGTATCGACACAAATTTAAGTAGTGT
130 TTATGCGTGCACCCAGTTTGGTATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGT
155901 CGATAC
195 CGATAC
* *
155907 ATTATGTTTACCTGTTTTCTAATTAAACTGGTATATATCTACCGATTACATTGGAAATTTACCTA
1 ATTATGTATACCTGTTTTCTAATTAAACCGGTATATATCTACCGATTACATTGGAAATTTACCTA
* * *
155972 TTACATTATAATTATTTGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
66 TTACATTATAATTATCTATTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
156037 T
131 T
156038 TTTTACCTGT
Statistics
Matches: 476, Mismatches: 46, Indels: 15
0.89 0.09 0.03
Matches are distributed among these distances:
198 1 0.00
199 229 0.48
200 245 0.51
201 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (200 bp):
ATTATGTATACCTGTTTTCTAATTAAACCGGTATATATCTACCGATTACATTGGAAATTTACCTA
TTACATTATAATTATCTATTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
TATGCGTGCACCCAGTTTGGTATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTC
GATAC
Found at i:160741 original size:200 final size:198
Alignment explanation
Indices: 160392--161555 Score: 1507
Period size: 200 Copynumber: 5.8 Consensus size: 198
160382 GTGAAATTTT
* * * * * *
160392 AAAAGGTATCGACACAAATTT-AAAGAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAAC
1 AAAAAGTATCGACACAAATTTCACA-AGTGTCGATACATTATGTAGACCGATTCTCTAATAAAAC
** * * *
160456 AGACATATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
65 -GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTT
* * * * **
160521 TTTGGGATAGATAATTTTTATAAATGTATCGACACTATATGCGTGCA-CCTCGTTGGGCATAGAT
129 TTTAGGATCGATACTTTTTATAAATGTATCGACACT-TATGCGTGCACCCT-TTTGGGCATTCAT
160585 TTTGGAC
192 TTTGGAC
* * * * * * *
160592 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATATTGACCGCTTTTCTAATTAAATC
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCGATTCTCTAA-TAAAAC
* * *
160657 GGTATATTTATACCAGTTACATT-AGAAATTTACCTATTACATTATAATTATCGGTTTCCATGTT
65 GGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *
160721 TTTAGGATCGACACTTTTTATAAATGAATCAACACGTTATGCGTGCACCCTTTTGGGCATTCATT
129 TTTAGGATCGATACTTTTTATAAATGTATCGACAC-TTATGCGTGCACCCTTTTGGGCATTCATT
*
160786 ATGGAC
193 TTGGAC
* *
160792 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATG-ATGACCGCTTTTCTCAAT-AAA
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTA-GACCGATTCTCT-AATAAAA
* *
160855 CTGGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
64 C-GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGT
*
160920 TTTTAGGATCGACACTTTTTATAAATGTATCGACACGTTATGCGTGCACCCTTTTGGGCATTCAT
128 TTTTAGGATCGATACTTTTTATAAATGTATCGACAC-TTATGCGTGCACCCTTTTGGGCATTCAT
*
160985 TCTGGAC
192 TTTGGAC
* *
160992 -AAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAA-C
* * *
161056 AGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
* *
161121 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCATGCACCCTTTTGGGCATTCATTT
130 TTAGGATCGATACTTTTTATAAATGTATCGACAC-TTATGCGTGCACCCTTTTGGGCATTCATTT
161186 TGGAC
194 TGGAC
* * * *
161191 AAAAAGTATCGACAAAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATC
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAA-C
* * * * *
161256 GGTATATTTGTACCGATTACATTGAAAAATTACCTATTACATTATAATTTTGGGTTTCGATATTT
65 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
161321 TTAGGATCGATACTTTTTATAACTGTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATT
130 TTAGGATCGATACTTTTTATAAATGTATCGACAC-TTATGCGTGCA-CCCTTTTGGGCATTCATT
**
161386 CTACG-C
193 -TTGGAC
* * *
161392 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAA-C
* * * * *
161457 GGTATATTTATACCGGTTATATTGAAAAATTACCGT-TAACATTAGAATTATGGGTTTCGTTGTT
65 GGTATATTTATACCGGTTACATTGAAAAATTACC-TATTACATTATAATTATCGGTTTCGATGTT
* *
161521 TTTGGGATCGATACTTTTTATAATTGTATCGACAC
129 TTTAGGATCGATACTTTTTATAAATGTATCGACAC
161556 ATCTGTTAAC
Statistics
Matches: 877, Mismatches: 71, Indels: 31
0.90 0.07 0.03
Matches are distributed among these distances:
198 2 0.00
199 181 0.21
200 509 0.58
201 182 0.21
202 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (198 bp):
AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAACG
GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TAGGATCGATACTTTTTATAAATGTATCGACACTTATGCGTGCACCCTTTTGGGCATTCATTTTG
GAC
Found at i:161218 original size:399 final size:398
Alignment explanation
Indices: 160417--161555 Score: 1599
Period size: 399 Copynumber: 2.8 Consensus size: 398
160407 AAATTTAAAG
* ** *
160417 AGTGTCGATACATTATGTTGACCGCTTTTCT-AATTAAACAGACATATTTATACTGGTTACATTG
1 AGTGTCGATACATTATG-TGACCGCTTTTCTCAA-TAAACTGGTATATTTATACCGGTTACATTG
* * * *
160481 TAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATAGATAATTTTTATAAAT
64 AAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACTTTTTATAAAT
* ** *
160546 GTATCGACACTATATGCGTGCA-CCTCGTTGGGCATAGATTTTGGACAAAAAGTATCGACACAAA
129 GTATCGACACT-TATGCGTGCACCCT-TTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAA
* * * * ** * * * * *
160610 TTTAAAAAGTGTCGATACATTATATTGACCGCTTTTCTAATTAAATCGGTATATTTATACCAGTT
192 TTTCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
* * * * *
160675 ACATT-AGAAATTTACCTATTACATTATAATTATCGGTTTCCATGTTTTTAGGATCGACACTTTT
257 ACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTT
* * *
160739 TATAAATGAATCAACACGTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAAAAAGTATCGA
321 TATAAATGTATCGACACGTTATGCATGCACCCTTTTGGGCATTCATTATGGACAAAAAGTATCGA
* *
160804 CACAAATTTCACA
386 CAAAAATTCCACA
*
160817 AGTGTCGATACATTATGATGACCGCTTTTCTCAATAAACTGGTATATTTATACCGGTTACATTGG
1 AGTGTCGATACATTATG-TGACCGCTTTTCTCAATAAACTGGTATATTTATACCGGTTACATTGA
*
160882 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGACACTTTTTATAAATG
65 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACTTTTTATAAATG
160947 TATCGACACGTTATGCGTGCACCCTTTTGGGCATTCATTCTGGAC-AAAAGTATCGACACAAATT
130 TATCGACAC-TTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATT
*
161011 TCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCAGTATATTTATACCGGTTAC
194 TCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTAC
*
161076 ATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGATACTTTTTAT
259 ATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTAT
* *
161141 AAATGTATCGACACTTTATGCATGCACCCTTTTGGGCATTCATTTTGGACAAAAAGTATCGACAA
324 AAATGTATCGACACGTTATGCATGCACCCTTTTGGGCATTCATTATGGACAAAAAGTATCGACAA
161206 AAATTCCACA
389 AAATTCCACA
** * * * *
161216 AGTGTCGATACATTATGTAGACCTATTCTCTC-ATAAAATCGGTATATTTGTACCGATTACATTG
1 AGTGTCGATACATTATGT-GACCGCTTTTCTCAATAAACT-GGTATATTTATACCGGTTACATTG
* * * * *
161280 AAAAATTACCTATTACATTATAATTTTGGGTTTCGATATTTTTAGGATCGATACTTTTTATAACT
64 AAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACTTTTTATAAAT
*
161345 GTATCGACACTTTATGCGTGCACCCCTTTTGGGCATTCATTCTACG-CAAAAAGTATCGACACAA
129 GTATCGACAC-TTATGCGTGCA-CCCTTTTGGGCATTCATTCT-GGACAAAAAGTATCGACACAA
*
161409 ATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
191 ATTTCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
* * * *
161474 TATATTGAAAAATTACCGT-TAACATTAGAATTATGGGTTTCGTTGTTTTTGGGATCGATACTTT
256 TACATTGAAAAATTACC-TATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTT
*
161538 TTATAATTGTATCGACAC
320 TTATAAATGTATCGACAC
161556 ATCTGTTAAC
Statistics
Matches: 667, Mismatches: 62, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
398 7 0.01
399 325 0.49
400 174 0.26
401 160 0.24
402 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (398 bp):
AGTGTCGATACATTATGTGACCGCTTTTCTCAATAAACTGGTATATTTATACCGGTTACATTGAA
AATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTAGGATCGATACTTTTTATAAATGT
ATCGACACTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTC
ACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACAT
TGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAA
ATGTATCGACACGTTATGCATGCACCCTTTTGGGCATTCATTATGGACAAAAAGTATCGACAAAA
ATTCCACA
Found at i:165655 original size:21 final size:20
Alignment explanation
Indices: 165629--165674 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
165619 AGTATCGGCA
165629 CATTTTTACAACCTATAATAT
1 CATTTTT-CAACCTATAATAT
*
165650 CA-TTTTCTACCTATAATAT
1 CATTTTTCAACCTATAATAT
165669 CATTTT
1 CATTTT
165675 ATAAAAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 14 0.61
20 7 0.30
21 2 0.09
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.48
Consensus pattern (20 bp):
CATTTTTCAACCTATAATAT
Found at i:166567 original size:182 final size:181
Alignment explanation
Indices: 166085--166555 Score: 715
Period size: 182 Copynumber: 2.6 Consensus size: 181
166075 TACGCGTACT
*
166085 TATTAAAGTATCGACACTTTCAACATATCCGGTAACGCTTTACCGGTTTAGTCATTTCGAGA---
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCG
** * * * *
166147 GTGATT--T-TTTTTACCTATTATATTGTTAAGTG-TTGATACATTTTTATAAAGTATCGACACT
66 GTTTTTCATATTTTTACCTGTTATATTGTTATG-GATCGATACATTTTTATAAAGTATCGAAACT
*
166208 TTATAGGCTCTATTACTGCTTGCCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTATAGGCGCTATTACTGCTTGCCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
166260 TAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCG
166325 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAAACT
66 GTTTT-TCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAAACT
*
166390 TTATAGGCGCTATTACTGCTT-CTCTTTTAAATTCCAAAAGTGTCGATGCTTA
130 TTATAGGCGCTATTACTGCTTGC-CTTTTAAATTCCAAAAGTGTCGATACTTA
* *
166442 TATTAAAGTATCGACACTTTCAACATATTCGGTAGCGCTTTACCGGTTTGGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCG
*
166507 GTTTTGTCATATTTTTACCTGTTATATTGATATGGATCGATACATTTTT
66 GTTTT-TCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
166556 TATTTGTATC
Statistics
Matches: 269, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
175 58 0.22
178 3 0.01
179 1 0.00
181 3 0.01
182 204 0.76
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (181 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCG
GTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAAACTT
TATAGGCGCTATTACTGCTTGCCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:166871 original size:5 final size:5
Alignment explanation
Indices: 166861--166892 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
166851 ATATTATGTC
*
166861 ATTTT ATTTT ATTTT ATTTT ATTTT AATTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
166893 ATTTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:171404 original size:292 final size:292
Alignment explanation
Indices: 170880--171464 Score: 1152
Period size: 292 Copynumber: 2.0 Consensus size: 292
170870 TGTACATAAT
*
170880 CTCCAAACGTCATCAGAAACATTACCATCCACAGATGGCTATCAACAGTAAAAATAGGAACAAAA
1 CTCCAAACGTCATCAGAAACATTACCATCCACAGATGGCTATCAAAAGTAAAAATAGGAACAAAA
170945 AACATGTTCAGCACTTCATCCTTTTCCTTTTCTGCACTCTGCACATTGCATCTATTCAGAGAACA
66 AACATGTTCAGCACTTCATCCTTTTCCTTTTCTGCACTCTGCACATTGCATCTATTCAGAGAACA
*
171010 AGGAAATGATACCAAAAGTGGAGCAGAGAAGTTTAACAAAATGACTACTAGCAAAACAAAGCACA
131 AAGAAATGATACCAAAAGTGGAGCAGAGAAGTTTAACAAAATGACTACTAGCAAAACAAAGCACA
171075 AATGAGTTTCATGCATTTTTATAAATGATAGAATGCTTTTTTATCACCAAAAGAAGGCGAACATT
196 AATGAGTTTCATGCATTTTTATAAATGATAGAATGCTTTTTTATCACCAAAAGAAGGCGAACATT
171140 GTACCATATTCAATAAATGCAACCCGATAGTA
261 GTACCATATTCAATAAATGCAACCCGATAGTA
171172 CTCCAAACGTCATCAGAAACATTACCATCCACAGATGGCTATCAAAAGTAAAAATAGGAACAAAA
1 CTCCAAACGTCATCAGAAACATTACCATCCACAGATGGCTATCAAAAGTAAAAATAGGAACAAAA
171237 AACATGTTCAGCACTTCATCCTTTTCCTTTTCTGCACTCTGCACATTGCATCTATTCAGAGAACA
66 AACATGTTCAGCACTTCATCCTTTTCCTTTTCTGCACTCTGCACATTGCATCTATTCAGAGAACA
171302 AAGAAATGATACCAAAAGTGGAGCAGAGAAGTTTAACAAAATGACTACTAGCAAAACAAAGCACA
131 AAGAAATGATACCAAAAGTGGAGCAGAGAAGTTTAACAAAATGACTACTAGCAAAACAAAGCACA
171367 AATGAGTTTCATGCATTTTTATAAATGATAGAATGCTTTTTTATCACCAAAAGAAGGCGAACATT
196 AATGAGTTTCATGCATTTTTATAAATGATAGAATGCTTTTTTATCACCAAAAGAAGGCGAACATT
171432 GTACCATATTCAATAAATGCAACCCGATAGTA
261 GTACCATATTCAATAAATGCAACCCGATAGTA
171464 C
1 C
171465 CAAGTGATTT
Statistics
Matches: 291, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
292 291 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (292 bp):
CTCCAAACGTCATCAGAAACATTACCATCCACAGATGGCTATCAAAAGTAAAAATAGGAACAAAA
AACATGTTCAGCACTTCATCCTTTTCCTTTTCTGCACTCTGCACATTGCATCTATTCAGAGAACA
AAGAAATGATACCAAAAGTGGAGCAGAGAAGTTTAACAAAATGACTACTAGCAAAACAAAGCACA
AATGAGTTTCATGCATTTTTATAAATGATAGAATGCTTTTTTATCACCAAAAGAAGGCGAACATT
GTACCATATTCAATAAATGCAACCCGATAGTA
Found at i:189548 original size:20 final size:22
Alignment explanation
Indices: 189518--189581 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
189508 TGCATCCCTT
189518 TGAATGTGCATCGAT-ACACCA
1 TGAATGTGCATCGATCACACCA
* *
189539 TGAA-GTGCATCGATGCACGCCT
1 TGAATGTGCATCGAT-CACACCA
189561 TGAATGTGCATCGATGCACAC
1 TGAATGTGCATCGAT-CACAC
189582 AAGGCCATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 10 0.27
21 4 0.11
22 8 0.22
23 15 0.41
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (22 bp):
TGAATGTGCATCGATCACACCA
Found at i:192362 original size:65 final size:63
Alignment explanation
Indices: 192245--192452 Score: 233
Period size: 65 Copynumber: 3.2 Consensus size: 63
192235 TTTCAAAGTG
* * **
192245 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
192308 TC
62 TC
* *
192310 ATGCATCGATGCACATACTATGCATCGATGCACTCAGGGT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTT
*
192374 G
63 C
* *
192375 ATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
*
192439 ATGCATTGATGCAC
1 ATGCATCGATGCAC
192453 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 48 0.38
65 67 0.54
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:196274 original size:21 final size:21
Alignment explanation
Indices: 196207--196286 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 21
196197 CAGAACCCCA
*
196207 GGGGGGTATCGATTCCC-C-T
1 GGGGGGAATCGATTCCCTCAT
*
196226 GTGGGGGAATCGGTTCCCTTCA-
1 G-GGGGGAATCGATTCCC-TCAT
** *
196248 AAGGGGAATCGGTTCCCTCAT
1 GGGGGGAATCGATTCCCTCAT
196269 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
196287 TGCACCAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.02
20 28 0.57
21 19 0.39
22 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTCAT
Found at i:196278 original size:20 final size:20
Alignment explanation
Indices: 196227--196286 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
196217 GATTCCCCTG
196227 TGGGGGAATCGGTTCCCTTCA
1 TGGGGGAATCGGTTCCC-TCA
**
196248 AAGGGGAATCGGTTCCCTCA
1 TGGGGGAATCGGTTCCCTCA
* *
196268 TGGGGGGATCGATTCCCTC
1 TGGGGGAATCGGTTCCCTC
196287 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (20 bp):
TGGGGGAATCGGTTCCCTCA
Found at i:199570 original size:9 final size:9
Alignment explanation
Indices: 199556--199658 Score: 53
Period size: 9 Copynumber: 10.8 Consensus size: 9
199546 GGCTGCTGGA
199556 AACCGGTTT
1 AACCGGTTT
199565 AACCGGTTTT
1 AACCGG-TTT
*
199575 CAACCTGTTCT
1 -AACCGGTT-T
*
199586 GACCGGTTT
1 AACCGGTTT
* *
199595 GACCGGTCTG
1 AACCGGT-TT
*
199605 AACCAGTTT
1 AACCGGTTT
* *
199614 GACCGGTCTG
1 AACCGGT-TT
*
199624 AATCGGTTT
1 AACCGGTTT
* *
199633 GACCGGTCTG
1 AACCGGT-TT
199643 AACCGGTTT
1 AACCGGTTT
*
199652 GACCGGT
1 AACCGGT
199659 CTGACCCGAA
Statistics
Matches: 69, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
9 33 0.48
10 30 0.43
11 6 0.09
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:199615 original size:19 final size:19
Alignment explanation
Indices: 199583--199662 Score: 135
Period size: 19 Copynumber: 4.3 Consensus size: 19
199573 TTCAACCTGT
199583 TCTG-ACCGGTTTGACCGG
1 TCTGAACCGGTTTGACCGG
*
199601 TCTGAACCAGTTTGACCGG
1 TCTGAACCGGTTTGACCGG
*
199620 TCTGAATCGGTTTGACCGG
1 TCTGAACCGGTTTGACCGG
199639 TCTGAACCGGTTTGACCGG
1 TCTGAACCGGTTTGACCGG
199658 TCTGA
1 TCTGA
199663 CCCGAATGAC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
18 4 0.07
19 53 0.93
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (19 bp):
TCTGAACCGGTTTGACCGG
Found at i:199663 original size:9 final size:9
Alignment explanation
Indices: 199583--199664 Score: 83
Period size: 9 Copynumber: 8.8 Consensus size: 9
199573 TTCAACCTGT
199583 TCTGACCGG
1 TCTGACCGG
*
199592 TTTGACCGG
1 TCTGACCGG
*
199601 TCTGAACCAG
1 TCTG-ACCGG
*
199611 TTTGACCGG
1 TCTGACCGG
*
199620 TCTGAATCGG
1 TCTG-ACCGG
*
199630 TTTGACCGG
1 TCTGACCGG
199639 TCTGAACCGG
1 TCTG-ACCGG
*
199649 TTTGACCGG
1 TCTGACCGG
199658 TCTGACC
1 TCTGACC
199665 CGAATGACCC
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
9 36 0.62
10 22 0.38
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.28
Consensus pattern (9 bp):
TCTGACCGG
Found at i:199697 original size:22 final size:22
Alignment explanation
Indices: 199669--199717 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
199659 CTGACCCGAA
*
199669 TGACCCGACCCGACCCGACCTT
1 TGACCCGACCCGACCCGACCGT
*
199691 TGACCCGACCCGACCGGACCGT
1 TGACCCGACCCGACCCGACCGT
199713 TGACC
1 TGACC
199718 GTTGACCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.12
Consensus pattern (22 bp):
TGACCCGACCCGACCCGACCGT
Found at i:208770 original size:22 final size:21
Alignment explanation
Indices: 208728--208767 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
208718 GAGTTTGTTT
*
208728 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
208749 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
208768 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:211872 original size:22 final size:22
Alignment explanation
Indices: 211847--211908 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
211837 CAGTGCTAAG
* *
211847 GCACTTCTGTATTAGTGCGATC
1 GCACTTCTATATCAGTGCGATC
*
211869 GCACTTCTATATCAGTGCGAAC
1 GCACTTCTATATCAGTGCGATC
** *
211891 ATAATTCTATATCAGTGC
1 GCACTTCTATATCAGTGC
211909 TGAGGCATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (22 bp):
GCACTTCTATATCAGTGCGATC
Found at i:215268 original size:15 final size:15
Alignment explanation
Indices: 215248--215282 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
215238 AAAAAAAAAC
215248 TAATACTTATTTTAT
1 TAATACTTATTTTAT
215263 TAATACTTATTTTAT
1 TAATACTTATTTTAT
215278 TAATA
1 TAATA
215283 TGCAGGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATACTTATTTTAT
Found at i:216985 original size:4 final size:4
Alignment explanation
Indices: 216976--217002 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
216966 ATATATTTAT
216976 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
217003 GTGCTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:219362 original size:17 final size:17
Alignment explanation
Indices: 219340--219374 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
219330 TTAAATTATG
*
219340 TAATGTTTTTTAAATGT
1 TAATGTTTGTTAAATGT
219357 TAATGTTTGTTAAATGT
1 TAATGTTTGTTAAATGT
219374 T
1 T
219375 TTTAAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (17 bp):
TAATGTTTGTTAAATGT
Found at i:220227 original size:137 final size:137
Alignment explanation
Indices: 219730--220261 Score: 639
Period size: 137 Copynumber: 3.9 Consensus size: 137
219720 ACAGCTTCTA
* * * * * *
219730 ATCCCATAAAAAATAATAGTTGTTTACATGAATAGTTCCCCGCCGGGGGACATCACACATAATAG
1 ATCCCATCAAACATAATAGGTGTTGACATGAATAGTACCCCGTCGGGGGACATCACACATAATAG
* * * * * * *
219795 GGAAATTAGAACCTGTTCTCTGACAAAAATGAAAGGCACGTCTCACAAGAGGCGCTTCCACCACA
66 GGCAATTATAACCTATTCTCTGACAAAAAGGAAAGGCACGTCCCACAAGAAGCGCTTTCACCACA
*
219860 TTGTTAC
131 TTGTTGC
* * * * *
219867 GTCCCATCAAACATAATAGGTGTTGACGTGAATAGTATCCC-T-AGGGGACATCACACATAGTAG
1 ATCCCATCAAACATAATAGGTGTTGACATGAATAGTACCCCGTCGGGGGACATCACACATAATAG
* * * *
219930 GGCAATTATAACCTATTCTCTGACAAAAAGAAAAGACGCATCCCACAAGAAGCGCTTTCACCACA
66 GGCAATTATAACCTATTCTCTGACAAAAAGGAAAGGCACGTCCCACAAGAAGCGCTTTCACCACA
*
219995 TTGTTGT
131 TTGTTGC
* * *
220002 GT-CCATC-AA-ATAATAGGTGTTGA-AGTGAATAGTTCCCCGTCGGGGGACATCATACATAATA
1 ATCCCATCAAACATAATAGGTGTTGACA-TGAATAGTACCCCGTCGGGGGACATCACACATAATA
* * * * *
220063 GGACAATTATAACTTATTTTCTGACAAAAAGGAAAGGCATGTCCCATAAGAAGCGCTTTCACCAC
65 GGGCAATTATAACCTATTCTCTGACAAAAAGGAAAGGCACGTCCCACAAGAAGCGCTTTCACCAC
*
220128 ATTTTTGC
130 ATTGTTGC
* *
220136 ATCCCATCAAACATAATAGGTGTTGACATGAATAGTACCCCAGTCGGGGGGCATCACACATAGTA
1 ATCCCATCAAACATAATAGGTGTTGACATGAATAGTACCCC-GTCGGGGGACATCACACATAATA
* * *
220201 -GGCAATTATAACCTATAT-TCTAACAAAAAGGAAAGGCGCATCCCACAAGAAGCGCTTTCAC
65 GGGCAATTATAACCTAT-TCTCTGACAAAAAGGAAAGGCACGTCCCACAAGAAGCGCTTTCAC
220262 GTTATTAAAT
Statistics
Matches: 333, Mismatches: 53, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
132 25 0.08
133 3 0.01
134 85 0.26
135 85 0.26
136 2 0.01
137 111 0.33
138 22 0.07
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (137 bp):
ATCCCATCAAACATAATAGGTGTTGACATGAATAGTACCCCGTCGGGGGACATCACACATAATAG
GGCAATTATAACCTATTCTCTGACAAAAAGGAAAGGCACGTCCCACAAGAAGCGCTTTCACCACA
TTGTTGC
Done.