Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008099.1 Hibiscus syriacus cultivar Beakdansim tig00110627_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: 767286
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 2 of 5
Found at i:201133 original size:180 final size:183
Alignment explanation
Indices: 200631--201483 Score: 1091
Period size: 180 Copynumber: 4.7 Consensus size: 183
200621 CACTTTTTAG
* *
200631 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * * *
200696 TTTACTGGTTTTGTCAATTTTGGGACTTGTTTTATCATATTTTTACCTGTTATATTATTGTGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * * * *
200761 CGATATATTTT-TTAAAGTGTCAACACTTTTTAGGCGCTATAACTTCATCTCT
131 CGATACATTTTCATAAAGTGTCGACACTTTATAAGCGCTATAACTTCTTCTCT
* * *
200813 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAGCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
*
200878 TTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * *
200943 CGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCT
131 CGATACATTTTCATAAAGTGTCGACACTTTATAAGCGCTATAACTTCTTCTCT
* * *
200996 TTTAAATTCAGAAAGTGTCGATAATTATATTAAA-T-TCGACACTTTTAACATATCCGATAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * * *
201058 TTTTCCGGTTTTGTCATTTTTGAGATATGTTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
*
201123 CGATACATTTTCATAAAGTGTCGACACTTTATAGGCGCTATAACTTCTTCTCT
131 CGATACATTTTCATAAAGTGTCGACACTTTATAAGCGCTATAACTTCTTCTCT
* * * *
201176 TTTAAATTCAAAAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * *
201240 TTTTCCAGTTTTGTCATTTTTGAGACCA-GTTTTATCAT-TTTTTACCTGTTATATTGTTGTGGA
66 TTTACCGGTTTTGTCAATTTTGAGA-CATGTTTTATCATATTTTTACCTGTTATATTGTTATGGA
* ** * ** *
201303 TCGATA-TTTTTTTTAAAGTATCGACACTTTAT-AGTTACTATAACTTATTCTCT
130 TCGATACATTTTCATAAAGTGTCGACACTTTATAAG-CGCTATAACTTCTTCTCT
* * *
201356 TTTAAATTCAGAAAGTTTTGATACTTATATTAAATTATCGACAC--TCGACACATATCCGGTAGC
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* * ** * * * *
201419 GTTTTACCAGTTTTGTC-ATTTTGGGACCGGTTTTGTCATATTTGTACCTGTAATATTGCTATGG
64 GTTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGG
201483 A
129 A
201484 GCAATCTATT
Statistics
Matches: 595, Mismatches: 66, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
178 2 0.00
179 3 0.01
180 244 0.41
181 87 0.15
182 191 0.32
183 68 0.11
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (183 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
CGATACATTTTCATAAAGTGTCGACACTTTATAAGCGCTATAACTTCTTCTCT
Found at i:201499 original size:363 final size:365
Alignment explanation
Indices: 200631--201499 Score: 1143
Period size: 362 Copynumber: 2.4 Consensus size: 365
200621 CACTTTTTAG
* *
200631 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACAC-TTCAACATATCCGGTAACGT
* * ** *
200696 TTTACTGGTTTTGTCAATTTTGGGACTTGTTTTATCATATTTTTACCTGTTATATTATTGTGGAT
65 TTTACCGGTTTTGTC-ATTTTGGGACATGTTTTATCATATTTTTACCTGTTATATTGCTATGGAT
* * *
200761 CGATATATTTTT--TAAAGTGTCAACACTTTTTAGGCGCTATAACTTCATCTCTTTTAAATTCAG
129 CGATCTATTTTTCATAAAGTGTCAACACTTTATAGGCGCTATAACTTCATCTCTTTTAAATTCAA
* * **
200824 AAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTACTGGTTT
194 AAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTT
200889 TGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
259 TGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
* * * *
200954 CATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCT
324 CATAAAGTATCGACACTTTATAAGCACAATAACTTATTCTCT
* * *
200996 TTTAAATTCAGAAAGTGTCGATAATTATATTAAA-T-TCGACACTTTTAACATATCCGATAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACAC-TTCAACATATCCGGTAACGT
* * * * *
201058 TTTTCCGGTTTTGTCATTTTTGAGATATGTTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
65 TTTACCGGTTTTGTCA-TTTTGGGACATGTTTTATCATATTTTTACCTGTTATATTGCTATGGAT
* *
201123 CGATAC-A-TTTTCATAAAGTGTCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCA
129 CGAT-CTATTTTTCATAAAGTGTCAACACTTTATAGGCGCTATAACTTCATCTCTTTTAAATTCA
*
201186 AAAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAAC-TTTTTCCAGTT
193 AAAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTT
* * *
201250 TTGTCATTTTTGAGACCA-GTTTTATCAT-TTTTTACCTGTTATATTGTTGTGGATCGATA-TTT
258 TTGTCAATTTTGAGA-CATGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
** * *
201312 TTTTTAAAGTATCGACACTTTAT-AGTTACTATAACTTATTCTCT
322 TTCATAAAGTATCGACACTTTATAAG-CACAATAACTTATTCTCT
* * *
201356 TTTAAATTCAGAAAGTTTTGATACTTATATTAAATTATCGACAC-TCGACACATATCCGGTAGCG
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTC-A-ACATATCCGGTAACG
* ** * * * *
201420 TTTTACCAGTTTTGTCATTTTGGGACCGGTTTTGTCATATTTGTACCTGTAATATTGCTATGGAG
64 TTTTACCGGTTTTGTCATTTTGGGACATGTTTTATCATATTTTTACCTGTTATATTGCTATGGAT
*
201485 CAATCTATTTTTCAT
129 CGATCTATTTTTCAT
201500 TTGTATCGAC
Statistics
Matches: 437, Mismatches: 54, Indels: 28
0.84 0.10 0.05
Matches are distributed among these distances:
359 2 0.00
360 67 0.15
361 38 0.09
362 153 0.35
363 144 0.33
364 1 0.00
365 32 0.07
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (365 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTCAACATATCCGGTAACGTT
TTACCGGTTTTGTCATTTTGGGACATGTTTTATCATATTTTTACCTGTTATATTGCTATGGATCG
ATCTATTTTTCATAAAGTGTCAACACTTTATAGGCGCTATAACTTCATCTCTTTTAAATTCAAAA
AGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTG
TCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCA
TAAAGTATCGACACTTTATAAGCACAATAACTTATTCTCT
Found at i:202915 original size:25 final size:25
Alignment explanation
Indices: 202885--202933 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
202875 AATAATAAAT
202885 AAAACAAG-AAAAAATGAAAAATAAC
1 AAAACAAGTAAAAAAT-AAAAATAAC
* *
202910 AAAACACGTAAAAAATAATAATAA
1 AAAACAAGTAAAAAATAAAAATAA
202934 AAATAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.73, C:0.08, G:0.06, T:0.12
Consensus pattern (25 bp):
AAAACAAGTAAAAAATAAAAATAAC
Found at i:203164 original size:16 final size:15
Alignment explanation
Indices: 203136--203190 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
203126 TATTAAGAAA
203136 AAAATAGAA-AAAAAT
1 AAAATA-AATAAAAAT
203151 AAAATAAAGTAAAAAT
1 AAAATAAA-TAAAAAT
* * *
203167 ATAATATATATAAAT
1 AAAATAAATAAAAAT
203182 AAAA-AAATA
1 AAAATAAATA
203191 TAATATTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 6 0.18
15 15 0.45
16 12 0.36
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:203179 original size:22 final size:21
Alignment explanation
Indices: 203154--203253 Score: 88
Period size: 19 Copynumber: 5.0 Consensus size: 21
203144 AAAAAATAAA
203154 ATAAAGTAAAAATATAATATAT
1 ATAAAGTAAAAATAT-ATATAT
*
203176 ATAAA-TAAAAAAATATA-AT
1 ATAAAGTAAAAATATATATAT
*
203195 ATTAAG-AAAAA-ATATATAT
1 ATAAAGTAAAAATATATATAT
*
203214 AAAAACGTATAAAATATA-ATAT
1 ATAAA-GTA-AAAATATATATAT
*
203236 -T-AAGAAAAAATATATATA
1 ATAAAGTAAAAATATATATA
203254 CATAGCAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
18 13 0.20
19 21 0.32
20 6 0.09
21 9 0.14
22 13 0.20
23 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (21 bp):
ATAAAGTAAAAATATATATAT
Found at i:203182 original size:41 final size:40
Alignment explanation
Indices: 203137--203253 Score: 116
Period size: 39 Copynumber: 2.9 Consensus size: 40
203127 ATTAAGAAAA
*
203137 AAATAGAAAAAA-ATAAAATAAAGTAAAAATATAATATATAT
1 AAATA-AAAAAATATAAAATAAAGAAAAAATAT-ATATATAT
* *
203178 AAATAAAAAAATATAATATTAAGAAAAAATATATATA-A-
1 AAATAAAAAAATATAAAATAAAGAAAAAATATATATATAT
* * *
203216 AAACGT-ATAAAATATAATATTAAGAAAAAATATATATA
1 AAA--TAAAAAAATATAAAATAAAGAAAAAATATATATA
203254 CATAGCAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
38 3 0.04
39 32 0.46
40 12 0.17
41 22 0.32
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (40 bp):
AAATAAAAAAATATAAAATAAAGAAAAAATATATATATAT
Found at i:203191 original size:16 final size:17
Alignment explanation
Indices: 203169--203253 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 17
203159 GTAAAAATAT
*
203169 AATATATATAAATAAAAA
1 AATATATATAAA-GAAAA
*
203187 AATATAATATTAAGAAAA
1 AATAT-ATATAAAGAAAA
*
203205 AATATATATAAAAACGTATAA
1 AATATATAT--AAA-G-AAAA
*
203226 AATATAATATTAAGAAAA
1 AATAT-ATATAAAGAAAA
203244 AATATATATA
1 AATATATATA
203254 CATAGCAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
17 8 0.15
18 22 0.41
19 9 0.17
20 3 0.06
21 8 0.15
22 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (17 bp):
AATATATATAAAGAAAA
Found at i:203309 original size:16 final size:15
Alignment explanation
Indices: 203288--203393 Score: 54
Period size: 14 Copynumber: 7.6 Consensus size: 15
203278 ACATATATAT
*
203288 ATATATATGATATAAG
1 ATATATAT-ATATAAA
203304 ATATATATA-ATAAA
1 ATATATATATATAAA
203318 A-ATA-ATATATATAA
1 ATATATATATATA-AA
*
203332 ATA-A-ATAAATAAA
1 ATATATATATATAAA
* *
203345 AGAGGA-ATATAT-AA
1 ATA-TATATATATAAA
* *
203359 ATAAATAAATA-AAA
1 ATATATATATATAAA
203373 ATATA-AT-TA-AAA
1 ATATATATATATAAA
203385 ATATATATA
1 ATATATATA
203394 GGAGACGAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
12 13 0.18
13 14 0.19
14 29 0.40
15 8 0.11
16 8 0.11
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (15 bp):
ATATATATATATAAA
Found at i:203322 original size:20 final size:19
Alignment explanation
Indices: 203299--203336 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
203289 TATATATGAT
203299 ATAAGATATATATAATAAAA
1 ATAAGATATATA-AATAAAA
*
203319 ATAATATATATAAATAAA
1 ATAAGATATATAAATAAA
203337 TAAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATAAGATATATAAATAAAA
Found at i:203342 original size:27 final size:27
Alignment explanation
Indices: 203292--203375 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
203282 ATATATATAT
*
203292 ATATGATATAAGATATATATAATAAAAATA
1 ATAT-ATATAA-ATAAATA-AATAAAAATA
**
203322 ATATATATAAATAAATAAATAAAAGAGG
1 ATATATATAAATAAATAAATAAAA-ATA
203350 A-ATATATAAATAAATAAATAAAAATA
1 ATATATATAAATAAATAAATAAAAATA
203376 TAATTAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 8 0.17
29 6 0.12
30 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (27 bp):
ATATATATAAATAAATAAATAAAAATA
Found at i:203925 original size:19 final size:20
Alignment explanation
Indices: 203891--203928 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
203881 TACAGCTGCC
203891 CCTCTTTATCCTTTTTCGTT
1 CCTCTTTATCCTTTTTCGTT
*
203911 CCTCTTTGT-CTTTTTCGT
1 CCTCTTTATCCTTTTTCGT
203929 GGAACGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.03, C:0.29, G:0.08, T:0.61
Consensus pattern (20 bp):
CCTCTTTATCCTTTTTCGTT
Found at i:205753 original size:36 final size:36
Alignment explanation
Indices: 205708--206012 Score: 205
Period size: 36 Copynumber: 8.8 Consensus size: 36
205698 GAAGATTTTG
205708 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
*
205744 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TT
* * * * * *
205781 AGTTCCAAAAGAAACAGTCTCAAGGGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
* * *
205817 TGTTTCAA-ATAAAACATAT-TC---A-A-A--TAATT
1 TGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACGAAATT
* * *
205846 TGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
* *
205882 TGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
* * * * *
205918 TATTTCAAGGGAAA-TGTTTTC-----A-ATG--TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACGAAATT
* *
205946 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TT
* * *
205984 TGTTTCAAGGGAAACTATCTCAAGCGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGA
206013 TAAAATCTTC
Statistics
Matches: 211, Mismatches: 34, Indels: 47
0.72 0.12 0.16
Matches are distributed among these distances:
28 4 0.02
29 33 0.16
30 5 0.02
31 2 0.01
32 2 0.01
33 1 0.00
34 2 0.01
35 4 0.02
36 100 0.47
37 56 0.27
38 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
Found at i:205803 original size:37 final size:36
Alignment explanation
Indices: 205717--205809 Score: 123
Period size: 37 Copynumber: 2.6 Consensus size: 36
205707 GTGTTTCAAG
* * * *
205717 AGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAG
1 AGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAA
205753 AGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
1 AGAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAA
* *
205790 AGAAACAGTCTCAAGGGAGA
1 AGAAACTGTCTCAAGAGAGA
205810 TGAAATTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 24 0.48
37 26 0.52
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (36 bp):
AGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAA
Found at i:205940 original size:101 final size:101
Alignment explanation
Indices: 205740--206018 Score: 335
Period size: 101 Copynumber: 2.8 Consensus size: 101
205730 AGAGAGACGA
* * ** *
205740 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
* * *
205805 GGAGATGAAATTTGTTTCAAATAAAACATATTCAAAT
66 AGAGATGAAATTTATTTCAAAGAAAACATATTC-AAT
* *
205842 AATTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
* * ** *
205906 AGAGATGAAATTTATTTCAAGGGAAATGTTTTCAAT
66 AGAGATGAAATTTATTTCAAAGAAAACATATTCAAT
** * * *
205942 GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAA
* *
206007 GCGAGATAAAAT
65 GAGAGATGAAAT
206019 CTTCTTTTTA
Statistics
Matches: 152, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
100 5 0.03
101 77 0.51
102 70 0.46
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (101 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
AGAGATGAAATTTATTTCAAAGAAAACATATTCAAT
Found at i:205998 original size:37 final size:37
Alignment explanation
Indices: 205947--206018 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
205937 TCAATGTTTA
* *
205947 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
* *
205984 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAAT
206019 CTTCTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
Found at i:207659 original size:27 final size:27
Alignment explanation
Indices: 207629--207694 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
207619 CATATGCATA
207629 TTGTCTTATTTTTTCTTCAATTTTC-CT
1 TTGTCTT-TTTTTTCTTCAATTTTCTCT
* **
207656 TTGT-TTTTTTCTCTTTTTATTTTCTCT
1 TTGTCTTTTTTTTC-TTCAATTTTCTCT
207683 TTG-CTTTTTTTT
1 TTGTCTTTTTTTT
207695 TCTCTTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 6 0.19
26 10 0.31
27 16 0.50
ACGTcount: A:0.06, C:0.15, G:0.05, T:0.74
Consensus pattern (27 bp):
TTGTCTTTTTTTTCTTCAATTTTCTCT
Found at i:207703 original size:13 final size:14
Alignment explanation
Indices: 207649--207693 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
207639 TTTTCTTCAA
207649 TTTTC-CTTTGTTT
1 TTTTCTCTTTGTTT
*
207662 TTTTCTCTTT-TTA
1 TTTTCTCTTTGTTT
207675 TTTTCTCTTTGCTTT
1 TTTTCTCTTTG-TTT
207690 TTTT
1 TTTT
207694 TTCTCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 17 0.63
14 4 0.15
15 6 0.22
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (14 bp):
TTTTCTCTTTGTTT
Found at i:207704 original size:19 final size:18
Alignment explanation
Indices: 207668--207701 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
207658 GTTTTTTTCT
207668 CTTTTTATTTTCTCTTTG
1 CTTTTTATTTTCTCTTTG
207686 CTTTTT-TTTTCTCTTT
1 CTTTTTATTTTCTCTTT
207702 TTGTTCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (18 bp):
CTTTTTATTTTCTCTTTG
Found at i:210818 original size:22 final size:23
Alignment explanation
Indices: 210790--210852 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
210780 TGCAAACGTG
210790 AAAATAATAAATAAAACA-AGAA
1 AAAATAATAAATAAAACACAGAA
* *
210812 AAAATAAAAAATAACAAAACACATAA
1 AAAATAATAAAT---AAAACACAGAA
210838 AAAATAAT-AATAAAA
1 AAAATAATAAATAAAA
210853 TAATAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 15 0.44
25 9 0.26
26 10 0.29
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (23 bp):
AAAATAATAAATAAAACACAGAA
Found at i:210852 original size:11 final size:11
Alignment explanation
Indices: 210814--210863 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
210804 AACAAGAAAA
210814 AATAAAA-AAT
1 AATAAAATAAT
* *
210824 AACAAAACACAT
1 AATAAAATA-AT
210836 AA-AAAATAAT
1 AATAAAATAAT
210846 AATAAAATAAT
1 AATAAAATAAT
210857 AATAAAA
1 AATAAAA
210864 ATAAACAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 10 0.29
11 21 0.60
12 4 0.11
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:210863 original size:22 final size:22
Alignment explanation
Indices: 210814--210873 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
210804 AACAAGAAAA
210814 AATAAAAAATAACAAAACACAT
1 AATAAAAAATAACAAAACACAT
* *
210836 AA-AAAATAATAATAAAATA-AT
1 AATAAAA-AATAACAAAACACAT
210857 AAT-AAAAATAAACAAAA
1 AATAAAAAAT-AACAAAA
210874 TGAATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 3 0.09
21 17 0.53
22 12 0.38
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (22 bp):
AATAAAAAATAACAAAACACAT
Found at i:210892 original size:19 final size:17
Alignment explanation
Indices: 210811--210892 Score: 55
Period size: 19 Copynumber: 4.8 Consensus size: 17
210801 TAAAACAAGA
*
210811 AAAAAT-AAAAAATAAC
1 AAAAATAAAAAAATAAT
*
210827 AAAACACATAAAAAATAAT
1 AAAA-ATA-AAAAAATAAT
*
210846 ---AATAAAATAATAAT
1 AAAAATAAAAAAATAAT
210860 AAAAATAAACAAAATGAAT
1 AAAAATAAA-AAAAT-AAT
*
210879 AAAATGTAAAAAAA
1 AAAA-ATAAAAAAA
210893 AAGACACATG
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
14 9 0.18
15 2 0.04
16 5 0.10
17 7 0.14
18 4 0.08
19 20 0.39
20 4 0.08
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAAAATAAT
Found at i:211144 original size:38 final size:40
Alignment explanation
Indices: 211092--211182 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 40
211082 AATATAATAT
* * *
211092 ATATAAATAAATAAAAAC-A-AAGATAGAATATTAAGAAA
1 ATATATATATATAAAAACGATAAAATAGAATATTAAGAAA
* *
211130 ATATATATATATAAAATCGTATAAAATATAATATTAAGAAA
1 ATATATATATATAAAAACG-ATAAAATAGAATATTAAGAAA
*
211171 A-AAATATATATA
1 ATATATATATATA
211183 CATAGCAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
38 15 0.34
40 11 0.25
41 18 0.41
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (40 bp):
ATATATATATATAAAAACGATAAAATAGAATATTAAGAAA
Found at i:211178 original size:36 final size:33
Alignment explanation
Indices: 211054--211176 Score: 90
Period size: 41 Copynumber: 3.5 Consensus size: 33
211044 GATATACATG
*
211054 ATATTAAGAAAAAAATAAAAAAAGTAAAAATATA
1 ATATTAAGAAAAAAAT-AAAAACGTAAAAATATA
* * * *
211088 ATA-TATATAAATAAATAAAAAC--AAAGATAGA
1 ATATTA-AGAAAAAAATAAAAACGTAAAAATATA
211119 ATATTAAGAAAATATATATATATAAAATCGTATAAAATATA
1 ATATTAAG-AAA-A-A-A-ATA-AAAA-CGTA-AAAATATA
211160 ATATTAAGAAAAAAATA
1 ATATTAAGAAAAAAATA
211177 TATATACATA
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
31 11 0.16
32 5 0.07
33 7 0.10
34 12 0.18
35 1 0.01
36 6 0.09
37 5 0.07
38 2 0.03
39 1 0.01
40 4 0.06
41 14 0.21
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (33 bp):
ATATTAAGAAAAAAATAAAAACGTAAAAATATA
Found at i:211257 original size:4 final size:4
Alignment explanation
Indices: 211236--211294 Score: 66
Period size: 4 Copynumber: 14.2 Consensus size: 4
211226 TATATAATAA
* *
211236 AAAT AATAT AATAT AAAT AAAT AAAT AAA- AGAT GAAT ATAAT AAAT AAAT
1 AAAT AA-AT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
211286 AAAT AAAT A
1 AAAT AAAT A
211295 TAATTAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
3 2 0.04
4 33 0.69
5 13 0.27
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:211263 original size:28 final size:26
Alignment explanation
Indices: 211231--211306 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 26
211221 ATATATATAT
211231 AATAAAAATAATATAATATAAATAAATA
1 AATAAAAATAATAT-A-ATAAATAAATA
211259 AATAAAAGATGAATATAATAAATAAATA
1 AATAAAA-AT-AATATAATAAATAAATA
*
211287 AATAAATATAAT-TAA-AAATA
1 AATAAAAATAATATAATAAATA
211307 TATATAGAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
24 5 0.11
25 3 0.07
26 3 0.07
27 2 0.04
28 24 0.53
29 3 0.07
30 5 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (26 bp):
AATAAAAATAATATAATAAATAAATA
Found at i:219157 original size:23 final size:23
Alignment explanation
Indices: 219110--219169 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
219100 CTCGTATAAA
219110 TGCACCGAAGTG-CACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * *
219132 TGCACCGAAGTGCCGCGTAGAGT
1 TGCACCGAAGTGCCACATAGAAT
* *
219155 TGCACTGTAGTGCCA
1 TGCACCGAAGTGCCA
219170 TTTATTAGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:219604 original size:23 final size:23
Alignment explanation
Indices: 219574--219644 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
219564 CTCGTATAAA
219574 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * *
219597 TGCACCGAAGTGCCGCGTAGAGT
1 TGCACCGAAGTGCCACATAGAAT
* * * *
219620 TGCACTGTAGTGCCATATAAAAT
1 TGCACCGAAGTGCCACATAGAAT
219643 TG
1 TG
219645 TCCATAAGGA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:221061 original size:24 final size:24
Alignment explanation
Indices: 221031--221086 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
221021 TAGAAGTTCG
221031 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
221055 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
221079 ATTGAAGC
1 ATTGAAGC
221087 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:223984 original size:18 final size:18
Alignment explanation
Indices: 223957--223991 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
223947 CCAGTAATCC
223957 TATTCACTGGTAATCTTT
1 TATTCACTGGTAATCTTT
*
223975 TATTCCCTGGTAATCTT
1 TATTCACTGGTAATCTT
223992 ACATTCCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (18 bp):
TATTCACTGGTAATCTTT
Found at i:223997 original size:18 final size:18
Alignment explanation
Indices: 223958--223998 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
223948 CAGTAATCCT
* **
223958 ATTCACTGGTAATCTTTT
1 ATTCCCTGGTAATCTTAC
223976 ATTCCCTGGTAATCTTAC
1 ATTCCCTGGTAATCTTAC
223994 ATTCC
1 ATTCC
223999 GTGAACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (18 bp):
ATTCCCTGGTAATCTTAC
Found at i:235560 original size:13 final size:13
Alignment explanation
Indices: 235550--235582 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
235540 AGAAAAAAAT
235550 TAGAGAGAAAAGA
1 TAGAGAGAAAAGA
*
235563 GAGAGAGAAAAGA
1 TAGAGAGAAAAGA
235576 TAGAGAG
1 TAGAGAG
235583 CGCTTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (13 bp):
TAGAGAGAAAAGA
Found at i:247706 original size:23 final size:23
Alignment explanation
Indices: 247671--247738 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
247661 CATTTTATAT
**
247671 GGCACTTTAGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* ** *
247694 GGTACTTCGGTGCAAATCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
247717 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
247739 AGTTGTGGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:253311 original size:26 final size:25
Alignment explanation
Indices: 253251--253311 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
253241 TTCATAAAAG
253251 TAAATATTAAAAATTTAAACTCACAC
1 TAAATA-TAAAAATTTAAACTCACAC
* * *
253277 TAAAAATAAATATTTAATAACTTACA-
1 TAAATATAAAAATTT-A-AACTCACAC
253303 TAAATATAA
1 TAAATATAA
253312 TAAAATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 8 0.28
26 14 0.48
27 7 0.24
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAATATAAAAATTTAAACTCACAC
Found at i:253847 original size:23 final size:23
Alignment explanation
Indices: 253781--253892 Score: 102
Period size: 23 Copynumber: 4.8 Consensus size: 23
253771 CGAAGTGCCG
253781 CGTAGAATATG-CACCGAAGTG-CCA
1 CGTAGAA-ATGTC-CCGAAG-GACCA
253805 CGTAGAAATTGTCCCGAAGGACCA
1 CGTAGAAA-TGTCCCGAAGGACCA
* * *
253829 CATAGAAATGACCCGAAGGACCG
1 CGTAGAAATGTCCCGAAGGACCA
* *
253852 TGTAGAAATGTCCCGAAGGATCA
1 CGTAGAAATGTCCCGAAGGACCA
* * *
253875 GGTAGAATTGTCCTGAAG
1 CGTAGAAATGTCCCGAAG
253893 AACCGCGTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
23 48 0.65
24 25 0.34
25 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGTCCCGAAGGACCA
Found at i:254640 original size:11 final size:11
Alignment explanation
Indices: 254626--254690 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
254616 AAAATTCAAG
254626 AGCTCGATTGA
1 AGCTCGATTGA
*
254637 AGCTCGAGACTCG-
1 AGCTC--GA-TTGA
254650 AGCTCGATTGA
1 AGCTCGATTGA
254661 AGCTCGATTTTG-
1 AGCTCGA--TTGA
*
254673 AGCTCGATTCA
1 AGCTCGATTGA
254684 AGCTCGA
1 AGCTCGA
254691 ACTCGATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 4 0.09
11 21 0.48
12 7 0.16
13 10 0.23
14 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:254654 original size:24 final size:23
Alignment explanation
Indices: 254625--254696 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
254615 AAAAATTCAA
254625 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGA-ACTC
** *
254649 GAGCTCGATTGAAGCTCGATTTT
1 GAGCTCGATTGAAGCTCGAACTC
*
254672 GAGCTCGATTCAAGCTCGAACTC
1 GAGCTCGATTGAAGCTCGAACTC
254695 GA
1 GA
254697 TTAAAGCTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 22 0.54
24 19 0.46
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGAACTC
Found at i:254697 original size:17 final size:17
Alignment explanation
Indices: 254675--254711 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
254665 CGATTTTGAG
* *
254675 CTCGATTCAAGCTCGAA
1 CTCGATTAAAGCTCAAA
254692 CTCGATTAAAGCTCAAA
1 CTCGATTAAAGCTCAAA
254709 CTC
1 CTC
254712 AAACTCGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (17 bp):
CTCGATTAAAGCTCAAA
Found at i:255013 original size:21 final size:20
Alignment explanation
Indices: 254988--255075 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 20
254978 CATGGCATAA
254988 CTTAAACCCTAACACATAAAC
1 CTTAAACCCTAA-ACATAAAC
* *
255009 CTTAAACTCTAAACTTTAAAC
1 CTTAAACCCTAAAC-ATAAAC
* *
255030 CTTAAATCCTATCACATAAA-
1 CTTAAACCCTA-AACATAAAC
* *
255050 CTCTAAATCCTAAACCCTAAAC
1 CT-TAAACCCTAAA-CATAAAC
255072 CTTA
1 CTTA
255076 TCACATAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.09
21 45 0.83
22 4 0.07
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (20 bp):
CTTAAACCCTAAACATAAAC
Found at i:255035 original size:42 final size:42
Alignment explanation
Indices: 254988--255075 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
254978 CATGGCATAA
**
254988 CTTAAACCCTAACACATAAAC-CTTAAA-CTCTAAACTTTAAAC
1 CTTAAACCCTAACACATAAACTC-TAAATC-CTAAACCCTAAAC
* *
255030 CTTAAATCCTATCACATAAACTCTAAATCCTAAACCCTAAAC
1 CTTAAACCCTAACACATAAACTCTAAATCCTAAACCCTAAAC
255072 CTTA
1 CTTA
255076 TCACATAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (42 bp):
CTTAAACCCTAACACATAAACTCTAAATCCTAAACCCTAAAC
Found at i:255050 original size:35 final size:35
Alignment explanation
Indices: 255011--255083 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
255001 ACATAAACCT
* *
255011 TAAACTCTAAA-CTTTAAACCTTAAATCC-TATCACA
1 TAAACTCTAAATC-CTAAACCCTAAA-CCTTATCACA
255046 TAAACTCTAAATCCTAAACCCTAAACCTTATCACA
1 TAAACTCTAAATCCTAAACCCTAAACCTTATCACA
255081 TAA
1 TAA
255084 TTAGTTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 2 0.06
35 31 0.91
36 1 0.03
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (35 bp):
TAAACTCTAAATCCTAAACCCTAAACCTTATCACA
Found at i:255353 original size:14 final size:14
Alignment explanation
Indices: 255336--255376 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
255326 TTTATTCATC
255336 AATAATGTATTTTT
1 AATAATGTATTTTT
255350 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
255361 AATAATGTAATTTT
1 AATAATGTATTTTT
255375 AA
1 AA
255377 AAAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:256551 original size:3 final size:3
Alignment explanation
Indices: 256543--256581 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
256533 ACTCAACATT
256543 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
256582 TAAAAAGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:256654 original size:23 final size:23
Alignment explanation
Indices: 256601--256674 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
256591 TCTGATTTAC
*
256601 TAAAATACT-AATAATTTTAATAATT
1 TAAAATATTCAAT-ATTTT-AT-ATT
**
256626 TAAAATATTTTATATTTTATATT
1 TAAAATATTCAATATTTTATATT
*
256649 TTAAATATTCAATATTTTATTATT
1 TAAAATATTCAATATTTTA-TATT
256673 TA
1 TA
256675 TAATTTTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
23 19 0.46
24 7 0.17
25 13 0.32
26 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAAATATTCAATATTTTATATT
Found at i:264658 original size:5 final size:5
Alignment explanation
Indices: 264644--264692 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
264634 ACCACGATTA
* * *
264644 CGAGC CGAGC TGAGC CGAGC CGAGA CGAGT CGTA-C CGAGC CGAGC CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CG-AGC CGAGC CGAGC CGAG
264693 ACGATACGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
4 1 0.03
5 35 0.95
6 1 0.03
ACGTcount: A:0.22, C:0.33, G:0.39, T:0.06
Consensus pattern (5 bp):
CGAGC
Found at i:268118 original size:18 final size:18
Alignment explanation
Indices: 268095--268148 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
268085 TATATCTTGA
268095 GTAGTAGTGTTTTCCTCT
1 GTAGTAGTGTTTTCCTCT
268113 GTAGTAGTGTTTTCCTCT
1 GTAGTAGTGTTTTCCTCT
*
268131 GTACTAGTGTTTTCCTCT
1 GTAGTAGTGTTTTCCTCT
268149 TTTTTTCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.50
Consensus pattern (18 bp):
GTAGTAGTGTTTTCCTCT
Found at i:269489 original size:45 final size:46
Alignment explanation
Indices: 269401--269489 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
269391 TTGAAAAAGC
* *
269401 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGTA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGTA
*
269447 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGTATAAAATG
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATG
269490 CATTCGATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 19 0.47
46 21 0.52
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGTA
Found at i:272246 original size:20 final size:20
Alignment explanation
Indices: 272221--272272 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
272211 ACCCGACGGA
272221 TGCATCGATGCATGACCATG
1 TGCATCGATGCATGACCATG
*
272241 TGCATCGATGCATGACCCTG
1 TGCATCGATGCATGACCATG
*
272261 TGCATTGATGCA
1 TGCATCGATGCA
272273 CATTCAAGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCATGACCATG
Found at i:278279 original size:45 final size:46
Alignment explanation
Indices: 278191--278281 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
278181 TTGAAAAAGC
* * *
278191 CTGAGTGCATCGATGCATGGTCTTGTGCATTGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
*
278237 CTGAGTGCATCGATGGATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
278282 TTCGATGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:281536 original size:36 final size:36
Alignment explanation
Indices: 281429--281529 Score: 150
Period size: 35 Copynumber: 2.8 Consensus size: 36
281419 AACTTTGTAT
* *
281429 AAATGGTTTTCAAAATTTGATAAATGTTTATTTG-A
1 AAATGGTTTTCAAAGTTTGGTAAATGTTTATTTGAA
281464 AAATGGTTTTCAAAGTTTGGTAAATGTTTATTTGAA
1 AAATGGTTTTCAAAGTTTGGTAAATGTTTATTTGAA
* *
281500 AAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 AAAT-GGTTTTCAAAGTTTGGTAAATGTTT
281530 GTTGAAATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 32 0.53
36 5 0.08
37 23 0.38
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.46
Consensus pattern (36 bp):
AAATGGTTTTCAAAGTTTGGTAAATGTTTATTTGAA
Found at i:284679 original size:30 final size:30
Alignment explanation
Indices: 284623--284679 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
284613 TTTTTTAACC
** *
284623 AATTTAAATAAAAATAAAGTTTAAAATATT
1 AATTTAAATAAAAATAAAAATAAAAATATT
*
284653 AATTTAAATCAAAATAAAAATAAAAAT
1 AATTTAAATAAAAATAAAAATAAAAAT
284680 TAAATCCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (30 bp):
AATTTAAATAAAAATAAAAATAAAAATATT
Found at i:286938 original size:15 final size:14
Alignment explanation
Indices: 286918--286976 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
286908 TGTCTTATTG
286918 ATATTATTATTAAAT
1 ATATTA-TATTAAAT
286933 ATATTATA-TAAA-
1 ATATTATATTAAAT
286945 AT-TGTATGATTAAAT
1 ATAT-TAT-ATTAAAT
*
286960 GTATTATATTTAAAT
1 ATATTATA-TTAAAT
286975 AT
1 AT
286977 TCAATATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
11 1 0.03
12 5 0.14
13 5 0.14
14 7 0.19
15 17 0.47
16 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
ATATTATATTAAAT
Found at i:288912 original size:81 final size:80
Alignment explanation
Indices: 288774--288931 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 80
288764 GCCGCATTCT
* **
288774 AACCCTACAACAAAATTCCCCCCCCCCATCATAGCGTCTAGGATCGTTGCTTCTTATTA-TTTCT
1 AACCCTACAACAAAATT-CCCCCCCCAATCATAGCGTCTAGGATC---GCCACTTATTATTTTCT
288838 CATTTTTGGTTCACATATG
62 CATTTTTGGTTCACATATG
* * *
288857 AACCCTACAACAAAACTT-CCCCCTCAATCCT-GGGTCTAGGATCGCCACTTATTATTTTCTCAT
1 AACCCTACAACAAAA-TTCCCCCCCCAATCATAGCGTCTAGGATCGCCACTTATTATTTTCTCAT
288920 TTTTGGTTCACA
65 TTTTGGTTCACA
288932 CACAATGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
78 9 0.13
79 20 0.30
81 11 0.16
82 10 0.15
83 15 0.22
84 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (80 bp):
AACCCTACAACAAAATTCCCCCCCCAATCATAGCGTCTAGGATCGCCACTTATTATTTTCTCATT
TTTGGTTCACATATG
Found at i:291343 original size:61 final size:61
Alignment explanation
Indices: 291274--291397 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 61
291264 CCGACTGTTG
291274 TCTCCTAAGGACATGCCCAAACCACCGTAGTCTTCCCTCCCTCAA-TTTTCGGATACAGGCA
1 TCTCCTAAGGACATGCCCAAACCACCGTAGTCTTCCCT-CCTCAATTTTTCGGATACAGGCA
291335 TCTCCTAAGGACATGCCCAAACCACCGTAGTCTTCCCTCCTCAATTTTTCGGATACAGGCA
1 TCTCCTAAGGACATGCCCAAACCACCGTAGTCTTCCCTCCTCAATTTTTCGGATACAGGCA
291396 TC
1 TC
291398 ACCCCCAAGG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 6 0.10
61 56 0.90
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (61 bp):
TCTCCTAAGGACATGCCCAAACCACCGTAGTCTTCCCTCCTCAATTTTTCGGATACAGGCA
Found at i:291476 original size:12 final size:12
Alignment explanation
Indices: 291459--291483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
291449 TTACCACATG
291459 TCCATCGAAGCA
1 TCCATCGAAGCA
291471 TCCATCGAAGCA
1 TCCATCGAAGCA
291483 T
1 T
291484 TCTTATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (12 bp):
TCCATCGAAGCA
Found at i:294379 original size:18 final size:20
Alignment explanation
Indices: 294331--294372 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
294321 ACAAAATGTT
294331 AAATT-TTAAAA--ATATAA
1 AAATTATTAAAATTATATAA
*
294348 AAATTATTTAAATTATATAA
1 AAATTATTAAAATTATATAA
294368 AAATT
1 AAATT
294373 TAAAATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
20 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTATTAAAATTATATAA
Found at i:297720 original size:265 final size:265
Alignment explanation
Indices: 297216--298276 Score: 2016
Period size: 265 Copynumber: 4.0 Consensus size: 265
297206 GTACAATATC
* *
297216 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGCTATCTCTTCCATCTTCAACGTCCATGGCA
1 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
297281 GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTAC-TTTTTTACTG
66 GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
297345 TAGTTTGCAACCAGTTAAGCTTTTGGTTTATATGTGCCGATTGCAAGAAAACTTCAATGCAAAAT
131 TAGTTTGCAACCAGTTAAGCTTTTGGTTTATATGTGCCGATTGCAAGAAAACTTCAATGCAAAAT
297410 GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
196 GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
297475 CGCAG
261 CGCAG
297480 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
1 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
297545 GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
66 GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
* *
297610 TAGTTTGCAATCAGTTAAGCTTTTGGTTTATATGTGCCTATTGCAAGAAAACTTCAATGCAAAAT
131 TAGTTTGCAACCAGTTAAGCTTTTGGTTTATATGTGCCGATTGCAAGAAAACTTCAATGCAAAAT
*
297675 GCACTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
196 GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
297740 CGCAG
261 CGCAG
297745 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
1 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
297810 GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
66 GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
297875 TAGTTTGCAACCAGTTAAGCTTTTGGTTTATATGTGCCGATTGCAAGAAAACTTCAATGCAAAAT
131 TAGTTTGCAACCAGTTAAGCTTTTGGTTTATATGTGCCGATTGCAAGAAAACTTCAATGCAAAAT
297940 GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
196 GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
298005 CGCAG
261 CGCAG
298010 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
1 CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
*
298075 GCAACTACTACGGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
66 GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
* * * *
298140 TAGTTTGCAACCAGTTAAGCTTTTAGTTTATATGTTCCGATTTCAAGAAAACTTAAATGCAAAAT
131 TAGTTTGCAACCAGTTAAGCTTTTGGTTTATATGTGCCGATTGCAAGAAAACTTCAATGCAAAAT
298205 GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
196 GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
*
298270 CACAG
261 CGCAG
298275 CA
1 CA
298277 GTAACAACGA
Statistics
Matches: 782, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
264 117 0.15
265 665 0.85
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (265 bp):
CATATTTGCCTCAGCAGTATAGCTCAACTGGTATGTTATCTGTTCCATCTTCAACGTCCATGGCA
GCAACTACTACAGGTGATTGTTTTATACAACTTCTAAATACATTTATAGAGTACTTTTTTTACTG
TAGTTTGCAACCAGTTAAGCTTTTGGTTTATATGTGCCGATTGCAAGAAAACTTCAATGCAAAAT
GCGCTTATAGATGTTTATCATCAAACAATATCTGCAGCAGGTATTGCAGCAACAATTGCAGAAAC
CGCAG
Found at i:308959 original size:26 final size:26
Alignment explanation
Indices: 308923--308973 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
308913 ATCTACGAAT
308923 TTTTTTTTAAATCAAGTCGAATTTAA
1 TTTTTTTTAAATCAAGTCGAATTTAA
*
308949 TTTTTTTTAAATTAAGTCGAATTTA
1 TTTTTTTTAAATCAAGTCGAATTTA
308974 TAAAATTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (26 bp):
TTTTTTTTAAATCAAGTCGAATTTAA
Found at i:310559 original size:126 final size:125
Alignment explanation
Indices: 310446--310669 Score: 337
Period size: 126 Copynumber: 1.8 Consensus size: 125
310436 AAAAATAATC
*
310446 ATATTTT-GATATTTATTTATTTTT-AATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
1 ATATTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
** *
310509 -CATTTTCTGATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAA
66 TC-TTTTCTGATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTA-TAGAAAAAA
* * *
310570 ATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGTACCTAGAAGC
1 ATATTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
*
310635 TCTTTTCTGATATTTTTGAATAAATAAATATCTTA
66 TCTTTTCTGATATTTTTAAATAAATAAATATCTTA
310670 CTATATTAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
124 6 0.07
125 16 0.17
126 69 0.75
127 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (125 bp):
ATATTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGC
TCTTTTCTGATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATAGAAAAAA
Found at i:310699 original size:115 final size:115
Alignment explanation
Indices: 310567--310784 Score: 355
Period size: 115 Copynumber: 1.9 Consensus size: 115
310557 TTATTTTAAG
* * *
310567 AAAATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGTACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGAACCTAGA
* * *
310632 AGCTCTTTTCTGATATTTTTGAATAAATAAATATCTTACTATATTAAAAT
66 AGCCCTTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAAT
* *
310682 AAAATGTTTTTGATATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGAACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGAACCTAGA
*
310747 AGCCCTTTTCTGATATTTCTAAATAAGTAAATATCTTA
66 AGCCCTTTTCTGATATTTCTAAATAAATAAATATCTTA
310785 TTTATGTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 94 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (115 bp):
AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGAACCTAGA
AGCCCTTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAAAAT
Found at i:311347 original size:27 final size:25
Alignment explanation
Indices: 311276--311348 Score: 62
Period size: 27 Copynumber: 2.9 Consensus size: 25
311266 TTATTTATTT
311276 AATTTTTA-ATTCTTTTT-TTTTCAA
1 AATTTTTATATT-TTTTTATTTTCAA
* * *
311300 AATTTTTAT-TACTTATGATTTTCATA
1 AATTTTTATAT-TTTTTTATTTTCA-A
311326 ATATTTTTATATTTTTTTATTTT
1 A-ATTTTTATATTTTTTTATTTT
311349 TACTTTATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
24 12 0.32
25 6 0.16
26 2 0.05
27 16 0.43
28 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.67
Consensus pattern (25 bp):
AATTTTTATATTTTTTTATTTTCAA
Found at i:319644 original size:22 final size:22
Alignment explanation
Indices: 319616--319670 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
319606 ATCTACACTC
319616 TTCAAAGATGATAGATTCTATT
1 TTCAAAGATGATAGATTCTATT
* *
319638 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTATT
319660 TTCAAAGATGA
1 TTCAAAGATGA
319671 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTATT
Found at i:320474 original size:76 final size:76
Alignment explanation
Indices: 320348--320521 Score: 276
Period size: 76 Copynumber: 2.3 Consensus size: 76
320338 CTATTTCCCA
*
320348 CATCTGTAAGTCCTACAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
320413 AGCCTTAGGGT
66 AACCTTAGAGT
* *
320424 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
320489 AACCTTCGAGT
66 AACCTTAGAGT
* *
320500 CAGCTGTAAGCCCTACAGTGCA
1 CATCTGTAAGTCCTACAGTGCA
320522 AAATGTTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 89 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGAGT
Found at i:320740 original size:113 final size:113
Alignment explanation
Indices: 320542--320842 Score: 548
Period size: 113 Copynumber: 2.7 Consensus size: 113
320532 TTATTATTAA
* * *
320542 AACATTTCCAGGTAGAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
320607 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
66 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
320655 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
320720 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
66 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
* * *
320768 AGCATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGTTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
320833 GAGAAGAACT
66 GAGAAGAACT
320843 CATCTGAAGA
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 182 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (113 bp):
AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
Found at i:320838 original size:40 final size:40
Alignment explanation
Indices: 320782--320882 Score: 193
Period size: 40 Copynumber: 2.5 Consensus size: 40
320772 TTACCAGGTC
320782 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
320822 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
320862 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
320883 TGTTCAACTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.47, C:0.10, G:0.25, T:0.19
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
Found at i:320855 original size:153 final size:153
Alignment explanation
Indices: 320669--320995 Score: 627
Period size: 153 Copynumber: 2.1 Consensus size: 153
320659 TTACCAGGTC
320669 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
320734 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAG
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAG
320799 AACTCATCTGAAGAAGGAAGAAG
131 AACTCATCTGAAGAAGGAAGAAG
320822 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
320887 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAG
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAG
*
320952 AACTCATCTGAAGAAGGAATAAG
131 AACTCATCTGAAGAAGGAAGAAG
*
320975 AAGTTCATAATGAGAAGAACT
1 GAGTTCATAATGAGAAGAACT
320996 TGTTCAACTT
Statistics
Matches: 171, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 171 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (153 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAGAAG
Found at i:320940 original size:113 final size:113
Alignment explanation
Indices: 320822--321108 Score: 556
Period size: 113 Copynumber: 2.5 Consensus size: 113
320812 AAGGAAGAAG
320822 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
320887 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTC
*
320935 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
321000 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTC
*
321048 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGTTCATAATGAGAAGAACT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
321109 CATCTGAAGA
Statistics
Matches: 171, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 171 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTC
Found at i:321030 original size:266 final size:266
Alignment explanation
Indices: 320556--321374 Score: 1473
Period size: 266 Copynumber: 3.1 Consensus size: 266
320546 TTTCCAGGTA
*
320556 GAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
320621 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAG
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAG
320686 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
131 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
320751 TCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
196 TCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
320816 AAGAAG
261 AAGAAG
320822 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
320887 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAG
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAG
*
320952 AACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
131 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
*
321017 TCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
196 TCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
321082 AAGAAG
261 AAGAAG
321088 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* **
321153 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACGAAGGTAAAGTTCATAATGAGAA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC-CAGGTCGAGTTCATAATGAGAA
*
321218 GAACTCATCTGAAGAA-GAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGA
130 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGA
* *
321281 ATTCATCATTCGATGGATCAACATTGCCAGGT-AGAGTTCATAATGAGAAGAACTCATCTGAAGA
194 ATTCATCATTCGATGGATCAGCATTACCAGGTCA-AGTTCATAATGAGAAGAACTCATCTGAAGA
*
321345 AAGAAGAAG
258 AGGAAGAAG
* *
321354 AAGTTCATAATAAGAAGAACT
1 GAGTTCATAATGAGAAGAACT
321375 TGTTAAACCT
Statistics
Matches: 535, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
266 495 0.93
267 40 0.07
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (266 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
TCATCATTCGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
AAGAAG
Found at i:321092 original size:153 final size:153
Alignment explanation
Indices: 320935--321261 Score: 584
Period size: 153 Copynumber: 2.1 Consensus size: 153
320925 TTACCAGGTC
*
320935 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* **
321000 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC-CAGGTCGAGTTCATAATGAGAA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACGAAGGTAAAGTTCATAATGAGAA
*
321064 GAACTCATCTGAAGAAGGAAGAAG
131 GAACTCATCTGAAGAA-GAAGAAA
321088 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
321153 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACGAAGGTAAAGTTCATAATGAGAA
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACGAAGGTAAAGTTCATAATGAGAA
321218 GAACTCATCTGAAGAAGAAGAAA
131 GAACTCATCTGAAGAAGAAGAAA
*
321241 AAGTTCATAATGAGAAGAACT
1 GAGTTCATAATGAGAAGAACT
321262 TGTTCAACCT
Statistics
Matches: 167, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
153 132 0.79
154 35 0.21
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (153 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACGAAGGTAAAGTTCATAATGAGAA
GAACTCATCTGAAGAAGAAGAAA
Found at i:321103 original size:40 final size:40
Alignment explanation
Indices: 321048--321148 Score: 193
Period size: 40 Copynumber: 2.5 Consensus size: 40
321038 TTACCAGGTC
321048 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
321088 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
321128 AAGTTCATAATGAGAAGAACT
1 GAGTTCATAATGAGAAGAACT
321149 TGTTCAACTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.46, C:0.10, G:0.26, T:0.19
Consensus pattern (40 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
Found at i:321604 original size:119 final size:118
Alignment explanation
Indices: 321089--321713 Score: 707
Period size: 113 Copynumber: 5.3 Consensus size: 118
321079 AGGAAGAAGG
321089 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
** * *
321154 AA-CTTTTCGCTTGAAT-TCAT-CATTCGATGGATCAGCAT-TACGA-----AG-GTAA
65 AACCTTTT-GCTTGAATCT-ATCCA-AAGATAGATCAGCATCAAC-ATTTCCAGAG-AA
*
321203 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * *
321268 ACCTTTTGCTTGAAT-TCAT-C--A-TTCGAT--GGATCAACATTGCCAG-GTAG
66 ACCTTTTGCTTGAATCT-ATCCAAAGATAGATCAGCATCAACATTTCCAGAG-AA
* *
321315 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
321380 AACCTTTTGCTCGACTCTATCCAGAAGGAGATAGATCAGCATCAACATTT-TAGAGAA
65 AACCTTTTGCTTGAATCTATCC--AA--AGATAGATCAGCATCAACATTTCCAGAGAA
* *
321437 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * *
321502 ACCTTTTGCTCGACTCTATCGCAAAGATAGATCAACATCAACATTTCCAGAGAC
66 ACCTTTTGCTTGAATCTATC-CAAAGATAGATCAGCATCAACATTTCCAGAGAA
* *
321556 AGCTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * *
321621 ACCTTTTGCTTGATTCTATCACATAAGGTAGATCAACATCAAC-TTTGCCAGA-AGA
66 ACCTTTTGCTTGAATCTATC-CA-AAGATAGATCAGCATCAACATTT-CCAGAGA-A
321676 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG
321714 TTCGTAATTT
Statistics
Matches: 452, Mismatches: 34, Indels: 44
0.85 0.06 0.08
Matches are distributed among these distances:
107 4 0.01
108 2 0.00
109 4 0.01
112 34 0.08
113 95 0.21
114 38 0.08
118 21 0.05
119 92 0.20
120 62 0.14
121 56 0.12
122 33 0.07
123 11 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (118 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTTGAATCTATCCAAAGATAGATCAGCATCAACATTTCCAGAGAA
Found at i:323358 original size:124 final size:117
Alignment explanation
Indices: 323242--323597 Score: 329
Period size: 114 Copynumber: 3.0 Consensus size: 117
323232 TTTTCCTATT
323242 TATAAATTTAATTTTATAAATTACT-TTTAAGAAAAATAATCATATTTGATATTTATTTA-TTTT
1 TATAAATTTAA--TTATAAATTACTATTTAAGAAAAATAAT--T-TTTGATATTTATTTATTTTT
* * *
323305 AATATCGAAGAAAAGAGTTGTCTTAAGGCACCTAGAAGCCATTTTCTGATATTTTTAAA
61 AATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCTTTTTCTGATATTTTT--A
* ** * * *
323364 TAAATAAATATCTTATTAAAATAAATTTTTATTTAAG-AAAAT-GTTTTGGTTATTTATTTATTT
1 T--ATAAAT-T-TAATT---ATAAATTACTATTTAAGAAAAATAATTTTTGATATTTATTTATTT
* *
323427 TTCAATATCAAAGAAAACAGCTGTCTTAAGGTACCTAGAAG-CTTTTTCTGATATTTTTGA
59 TT-AATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCTTTTTCTGATATTTTT-A
* * *
323487 -ATAAA--TAA--ATAACTTACTATATTAAAATAAAAT-GTTTTTGATATTTATTTATTTTTTAA
1 TATAAATTTAATTATAAATTACTAT-TTAAGA-AAAATAATTTTTGATATTTATTTA-TTTTTAA
*
323546 TATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCTTTTTCTGATATTT
63 TATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCTTTTTCTGATATTT
323598 CTAAATAAGT
Statistics
Matches: 197, Mismatches: 22, Indels: 37
0.77 0.09 0.14
Matches are distributed among these distances:
111 9 0.05
112 4 0.02
114 56 0.28
115 20 0.10
116 2 0.01
120 5 0.03
122 1 0.01
123 14 0.07
124 29 0.15
125 35 0.18
126 3 0.02
127 13 0.07
128 6 0.03
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (117 bp):
TATAAATTTAATTATAAATTACTATTTAAGAAAAATAATTTTTGATATTTATTTATTTTTAATAT
CAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCTTTTTCTGATATTTTTA
Found at i:323532 original size:114 final size:115
Alignment explanation
Indices: 323401--323612 Score: 336
Period size: 114 Copynumber: 1.9 Consensus size: 115
323391 TTTATTTAAG
* * *
323401 AAAATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAACAGCTGTCTTAAGGTACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAACAGCTGTCTTAAAGCACCTAGA
* *
323466 AG-CTTTTTCTGATATTTTTGAATAAATAAATAACTTACTATATTAAAAT
66 AGCCTTTTTCTGATATTTCTAAATAAATAAATAACTTACTATATTAAAAT
* * *
323515 AAAATGTTTTTGATATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAACAGCTGTCTTAAAGCACCTAGA
*
323580 AGCCTTTTTCTGATATTTCTAAATAAGTAAATA
66 AGCCTTTTTCTGATATTTCTAAATAAATAAATA
323613 TTATTTTATG
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 61 0.69
115 27 0.31
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.42
Consensus pattern (115 bp):
AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAACAGCTGTCTTAAAGCACCTAGA
AGCCTTTTTCTGATATTTCTAAATAAATAAATAACTTACTATATTAAAAT
Found at i:328690 original size:23 final size:23
Alignment explanation
Indices: 328664--328709 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
328654 TATAAAGTAC
*
328664 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
328687 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
328710 TGACCTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:329196 original size:20 final size:21
Alignment explanation
Indices: 329173--329211 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
329163 CAATATAAGC
329173 ACTACCTATTAC-TTATATAA
1 ACTACCTATTACATTATATAA
329193 ACTACCTATTACATTATAT
1 ACTACCTATTACATTATAT
329212 TAACGCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (21 bp):
ACTACCTATTACATTATATAA
Found at i:329958 original size:463 final size:472
Alignment explanation
Indices: 328780--330500 Score: 2747
Period size: 463 Copynumber: 3.7 Consensus size: 472
328770 ATTATATATG
*
328780 TTGAAAGTGTCTATACTTTTTTATAAAAAAGATCG-TAC-TTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
*
328843 TTCAA--TTTTTAATAGTGTTTC-TGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
328905 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA-ATTTAGAATTTAAATTTAACAATATT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATT
*
328969 AACCAAAGATAATAAT--ATATAATATATATGTTT-TTGTTTTTAATTT-ATAATAATATATATC
195 AACCAAAGATAATAATAAATATAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATACC
329030 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA-TCAA
258 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
* * *
329094 A-ATAACCTTAAATTAATATTTTCCACGGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAAA
323 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
*
329158 CTTTACAATATAAGCACTACCTATTACTTATATAAACTACCTATTACATTATATTAA-CGCTACT
388 CTTTACAATAT-A--ACTACCTATTA-TTATAT-AACTACCTATTACATTATA-TAAGCGCTACC
329222 TATT--ATCAT-TTTTACCTATTATA
447 TATTACATCATATTTTACCTATTATA
329245 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
329310 TCAATTTTTTTAATAGTGTTTCATGTTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTAATAGTGTTTCATG-TTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
329375 CAAAAAATTATTTGATTGTTTTGATATTTTTTAAAAATAATATTTAGAATTTAAATTTAACAATA
130 CAAAAAATTATTTGATTGTTTTGATATTTTAT-AAAAT-ATATTTAGAATTTAAATTTAACAATA
*
329440 TTAA-CAAAGATAATAATAAATATAATATATATGTTTATTGTTTTTAATTTAATAATAATATATC
193 TTAACCAAAGATAATAATAAATATAATATATATGTTTATTGTTTTTAATTTAATAATAATATACC
329504 GTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAA-TAATATCTTAAAACTCACTCAA
258 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
*
329567 AGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAGGATAGA
323 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
329631 -TTTACAATAT-ACTA-CTATTA-TAT-T-ACTACCTATTACATTATATAAGCGCTACCTATTAC
388 CTTTACAATATAACTACCTATTATTATATAACTACCTATTACATTATATAAGCGCTACCTATTAC
329690 ATCATATTTTACCTATTATA
453 ATCATATTTTACCTATTATA
329710 TTGAAAGTGT-TATAC-TTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
329773 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
329838 AAAAAATTA-TT-ATTATTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATTA
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATTA
329901 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTG-TTTTAATTTAATAATAATATACCG
196 ACCAAAGATAATAATAAATA--TAATATATATGTTTATTGTTTTTAATTTAATAATAATATACCG
329965 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
259 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC-AA
330030 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
323 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG-
*
330095 TACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACA-T-TATAAGCAC
387 -ACTTTACAATAT-A--ACTACCTATT--ATTATAT-AA--CTACCTATTACATTATATAAGCGC
330158 TACCTATTACATCATATTTTACCTATTATA
443 TACCTATTACATCATATTTTACCTATTATA
*
330188 TTGAAAGTGTCTATACTTTTTAT--AAA--ATCGATACTTTTTTTTAAAGTTATGTAA-TTATAT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
*
330248 TTCAATTTTTTTTATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
330312 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAG-ATTTAAATTTAACAATATT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATT
* * *
330376 AACCAAAGATAATAA-ATATGT-A-ATATATGTTTATTGTTTTTAGTTTAATAATAATATACCGT
195 AACCAAAGATAATAATAAATATAATATATATGTTTATTGTTTTTAATTTAATAATAATATACCGT
330438 AACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
260 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
330501 AGAGTACATA
Statistics
Matches: 1189, Mismatches: 19, Indels: 91
0.92 0.01 0.07
Matches are distributed among these distances:
458 30 0.03
459 23 0.02
460 45 0.04
461 57 0.05
462 97 0.08
463 127 0.11
464 38 0.03
465 46 0.04
466 31 0.03
467 16 0.01
468 20 0.02
469 2 0.00
470 72 0.06
471 78 0.07
472 76 0.06
473 78 0.07
474 80 0.07
475 68 0.06
476 80 0.07
477 49 0.04
478 52 0.04
479 6 0.01
480 18 0.02
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (472 bp):
TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATTA
ACCAAAGATAATAATAAATATAATATATATGTTTATTGTTTTTAATTTAATAATAATATACCGTA
ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAGA
TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACTT
TACAATATAACTACCTATTATTATATAACTACCTATTACATTATATAAGCGCTACCTATTACATC
ATATTTTACCTATTATA
Found at i:330129 original size:21 final size:21
Alignment explanation
Indices: 330099--330169 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
330089 GATAGATACT
*
330099 TTACAATATAAGCACTACCTA
1 TTACATTATAAGCACTACCTA
* *
330120 TTACATTATATAAACGCTACCTA
1 TTACA-T-TATAAGCACTACCTA
330143 TTACATTATAAGCACTACCTA
1 TTACATTATAAGCACTACCTA
330164 TTACAT
1 TTACAT
330170 CATATTTTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
21 24 0.56
22 1 0.02
23 18 0.42
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACATTATAAGCACTACCTA
Found at i:330139 original size:23 final size:23
Alignment explanation
Indices: 330104--330174 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
330094 ATACTTTACA
330104 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
330127 ATATAAACGCTACCTATTACA-T
1 ATATAAGCACTACCTATTACATT
*
330149 -TATAAGCACTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
330171 ATAT
1 ATAT
330175 TTTACCTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 18 0.44
22 1 0.02
23 22 0.54
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:330290 original size:937 final size:921
Alignment explanation
Indices: 328780--330500 Score: 2885
Period size: 937 Copynumber: 1.8 Consensus size: 921
328770 ATTATATATG
328780 TTGAAAGTGTCTATACTTTTTTATAAAAAAGATCGTACTTTTTTAAAGTTATGTAATTTATGTTT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAAAGATCGTACTTTTTTAAAGTTATGTAATTTATGTTT
*
328845 CAATTTTTAATAGTGTTTCTGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCACAAAA
65 CAATTTTTAATAGTGTTTCTGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAA
*
328910 AATTATTTGATTGTTTTGATATTTTATAAAATAATTTAGAATTTAAATTTAACAATATTAACCAA
130 AATTATTTGATTATTTTGATATTTTATAAAATAATTTAGAATTTAAATTTAACAATATTAACCAA
*
328975 AGATAATAATATATAATATATATGTTTTTGTTTTTAATTTATAATAATATATATCGTAACGTAAA
195 AGATAATAATATATAATATATATGTTTTTGTTTTTAATTTATAATAATATATACCGTAACGTAAA
329040 AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCATCAAAATAACCTTAA
260 AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCATCAAAATAACCTTAA
*
329105 ATTAATATTTTCCACGGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAAACTTTACAATATA
325 ATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAAACTTTACAATATA
* *
329170 AGCACTACCTATTACTTATATAAACTACCTATTACATTATATTAACGCTACTTATTATCATTTTT
390 AGCACTACCTATTACTTATATAAACTACCTATTACATTATA-TAACACTACCTATTATCATTTTT
329235 ACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGT
454 ACCTATTATATTGAAAGTGTCTATACTTTTTAT-AAAA-GATCGATACTTTTTTTAAAGTTATGT
*
329300 AATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTTCCACCTACAATATTAATTTAATAAT
517 AATTTATATTTCAATTTTTTTAATAGTGTTTCATG-TTTTCCACCTACAATATTAATTTAATAAT
*
329365 TTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTTTAAAAATAATATTTAGAATTTAAA
581 TTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT-AAAAT-ATATTTAG-ATTTAAA
329430 TTTAACAATATTAA-CAAAGATAATAATAAATATAATATATATGTTTATTGTTTTTAATTTAATA
643 TTTAACAATATTAACCAAAGATAATAA-AAATAT-A-ATATATGTTTATTGTTTTTAATTTAATA
*
329494 ATAATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAA-TAATATCTTAAAA
705 ATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
329558 CTCACTCAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
770 CTCACTCAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
329623 AGGATAGATTTACAATATACTACTATTATATTACTACCTATTACATTATATAAGCGCTACCTATT
835 AGGATAGATTTACAATATACTACTATTATATTACTACCTATTACATTATATAAGCGCTACCTATT
329688 ACATCATATTTTACCTATTATA
900 ACATCATATTTTACCTATTATA
*
329710 TTGAAAGTGT-TATAC-TTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAAGATCG-TAC-TTTTTTAAAGTTATGTAATTTATGTT
329773 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
64 TCAA--TTTTTAATAGTGTTTC-TGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
329838 AAAAAATTA-TT-ATTATTTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATTA
126 AAAAAATTATTTGATTATTTTGATATTTTATAAAATA-ATTTAGAATTTAAATTTAACAATATTA
329901 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTG-TTTTAA-TT-TAATAATAATATAC
190 ACCAAAGATAATAAT--ATA--TAATATATATGTTT-TTGTTTTTAATTTATAATAAT-ATATAC
329963 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
249 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA-TC-
*
330028 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
312 AAA-ATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
*
330093 GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATA-AGCA
376 -A-ACTTTACAATATAAGCACTACCTATTAC-TTATATAAA--CTACCTATTACATTATATAACA
330157 CTACCTATTACATCATATTTTACCTATTATATTGAAAGTGTCTATACTTTTTAT-AAA-ATCGAT
436 CTACCTATT--ATCAT-TTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAGATCGAT
*
330220 ACTTTTTTTTAAAGTTATGTAA-TTATATTTCAATTTTTTTTATAGTGTTTCATG-TTTCCACCT
498 AC-TTTTTTTAAAGTTATGTAATTTATATTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCT
330283 ACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA
562 ACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA
* *
330348 TATATTTAGATTTAAATTTAACAATATTAACCAAAGATAATAAATATGTAATATATGTTTATTGT
627 TATATTTAGATTTAAATTTAACAATATTAACCAAAGATAATAAAAATATAATATATGTTTATTGT
*
330413 TTTTAGTTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAAT
692 TTTTAATTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAAT
330478 TAATATCTTAAAACTCACTCAAA
757 TAATATCTTAAAACTCACTCAAA
330501 AGAGTACATA
Statistics
Matches: 749, Mismatches: 16, Indels: 49
0.92 0.02 0.06
Matches are distributed among these distances:
927 16 0.02
928 3 0.00
929 35 0.05
930 33 0.04
931 60 0.08
932 127 0.17
933 34 0.05
934 93 0.12
935 42 0.06
936 11 0.01
937 128 0.17
938 1 0.00
939 66 0.09
940 38 0.05
941 3 0.00
942 22 0.03
943 37 0.05
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (921 bp):
TTGAAAGTGTCTATACTTTTTATAAAAAAGATCGTACTTTTTTAAAGTTATGTAATTTATGTTTC
AATTTTTAATAGTGTTTCTGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAA
ATTATTTGATTATTTTGATATTTTATAAAATAATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATATATAATATATATGTTTTTGTTTTTAATTTATAATAATATATACCGTAACGTAAAA
AATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCATCAAAATAACCTTAAA
TTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAAACTTTACAATATAA
GCACTACCTATTACTTATATAAACTACCTATTACATTATATAACACTACCTATTATCATTTTTAC
CTATTATATTGAAAGTGTCTATACTTTTTATAAAAGATCGATACTTTTTTTAAAGTTATGTAATT
TATATTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
TTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGATTTAAATTTAACAA
TATTAACCAAAGATAATAAAAATATAATATATGTTTATTGTTTTTAATTTAATAATAATATACCG
TAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAG
ATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAGGATAGATTT
ACAATATACTACTATTATATTACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
TACCTATTATA
Found at i:332636 original size:57 final size:58
Alignment explanation
Indices: 332548--332663 Score: 225
Period size: 57 Copynumber: 2.0 Consensus size: 58
332538 ACCGCAAGAG
332548 ATGAGATGAAAAAACTAATAGAGAATTAGAAAACTCGTTTGG-TTGAATAATTCAGCC
1 ATGAGATGAAAAAACTAATAGAGAATTAGAAAACTCGTTTGGTTTGAATAATTCAGCC
332605 ATGAGATGAAAAAACTAATAGAGAATTAGAAAACTCGTTTGGTTTGAATAATTCAGCC
1 ATGAGATGAAAAAACTAATAGAGAATTAGAAAACTCGTTTGGTTTGAATAATTCAGCC
332663 A
1 A
332664 ACCAGAGCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 42 0.72
58 16 0.28
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (58 bp):
ATGAGATGAAAAAACTAATAGAGAATTAGAAAACTCGTTTGGTTTGAATAATTCAGCC
Found at i:333317 original size:100 final size:98
Alignment explanation
Indices: 333139--333337 Score: 321
Period size: 100 Copynumber: 2.0 Consensus size: 98
333129 CATTTTTCTT
* *
333139 CCAATCTGGACATAAGTTCCGACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTC
1 CCAAACTGGACATAAGTTCCGACAATATTAAAAAGTGTCGATATAGG-TGTAGACCTATTCGCTC
333204 ATAAAACGGTATATTTATACCGGTTATATTACAAA
65 ATAAAACGGTATATTTATACC-GTTATATTACAAA
333239 CCAAACTGGACATAAAGTTCCGACACAATATTAAAAAGTGTC-ATATAGG-GTAGACCTATTCGC
1 CCAAACTGGACAT-AAGTTCCG--ACAATATTAAAAAGTGTCGATATAGGTGTAGACCTATTCGC
333302 TCATAAAACGGTATATTTATACCGTTATATTACAAA
63 TCATAAAACGGTATATTTATACCGTTATATTACAAA
333338 TTATCTATTA
Statistics
Matches: 94, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
99 13 0.14
100 49 0.52
101 8 0.09
102 7 0.07
103 17 0.18
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (98 bp):
CCAAACTGGACATAAGTTCCGACAATATTAAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCA
TAAAACGGTATATTTATACCGTTATATTACAAA
Found at i:334646 original size:3 final size:3
Alignment explanation
Indices: 334638--334712 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
334628 ACTTGTTTGG
* * * * *
334638 ATC ATC ATC ATC ATC ATC ATC ATC GTC GTC GTC GTC ATC GTC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
334686 ATC GTC ATC TTC ATC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
334713 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:334721 original size:12 final size:12
Alignment explanation
Indices: 334642--334729 Score: 86
Period size: 12 Copynumber: 7.3 Consensus size: 12
334632 GTTTGGATCA
* *
334642 TCATCATCATCA
1 TCATCTTCATCG
* *
334654 TCATCATCGTCG
1 TCATCTTCATCG
* *
334666 TCGTCGTCATCG
1 TCATCTTCATCG
*
334678 TCATCATCATCG
1 TCATCTTCATCG
*
334690 TCATCTTCATCA
1 TCATCTTCATCG
334702 TCATCTTCATCG
1 TCATCTTCATCG
* *
334714 TCAGCTTCATCT
1 TCATCTTCATCG
334726 TCAT
1 TCAT
334730 TGACCGCTTG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:334723 original size:18 final size:18
Alignment explanation
Indices: 334642--334729 Score: 86
Period size: 18 Copynumber: 4.9 Consensus size: 18
334632 GTTTGGATCA
* *
334642 TCATCATCATCATCATCA
1 TCATCATCATCTTCATCG
* * * *
334660 TCGTCGTCGTCGTCATCG
1 TCATCATCATCTTCATCG
* *
334678 TCATCATCATCGTCATCT
1 TCATCATCATCTTCATCG
334696 TCATCATCATCTTCATCG
1 TCATCATCATCTTCATCG
* *
334714 TCAGCTTCATCTTCAT
1 TCATCATCATCTTCAT
334730 TGACCGCTTG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.38
Consensus pattern (18 bp):
TCATCATCATCTTCATCG
Found at i:334727 original size:6 final size:6
Alignment explanation
Indices: 334672--334729 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
334662 GTCGTCGTCG
* * * * * *
334672 TCATCG TCATCA TCATCG TCATCT TCATCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
334720 TCATCT TCAT
1 TCATCT TCAT
334730 TGACCGCTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:336927 original size:393 final size:396
Alignment explanation
Indices: 336196--337161 Score: 1678
Period size: 393 Copynumber: 2.4 Consensus size: 396
336186 TTTAAATTAG
* * * *
336196 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAACCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAA-CGGT
* *
336258 ATACTTGTACCGATTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTATG
62 ATACTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTT-TG
*
336323 GGATCGACACTTTTTATATGGATCGACACTTTATGGTTGCAGCCTGTTTTGCCATTCATTCTGGA
125 GGATCGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTGGA
*
336388 CCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTATCTCATAAAAC
190 CCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAAC
336453 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
255 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
336518 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
320 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
336583 CTGGACCAAAAA
385 CTGGACCAAAAA
336595 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC-GGTATA
336660 CTTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTGGGATC
65 CTTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTGGGATC
336725 GACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTT-CCATTCATTCTGGACC-AA
130 GACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTGGACCAAA
*
336788 AATATCGACACAAACT-AAAAA-TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
195 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTA
*
336851 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
260 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
336916 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
336981 CCAAAAA
390 CCAAAAA
*
336988 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGTATAC
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACGGTATAC
337052 TTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGATC
*
337117 GACACTTTTTAGATATGGTTCGACACTTTATGGTTGCACCCTGTT
130 GACACTTTTT--ATATGGATCGACACTTTATGGTTGCACCCTGTT
337162 GGCCATATTG
Statistics
Matches: 548, Mismatches: 12, Indels: 19
0.95 0.02 0.03
Matches are distributed among these distances:
391 60 0.11
392 24 0.04
393 229 0.42
394 37 0.07
395 18 0.03
396 16 0.03
397 51 0.09
398 42 0.08
399 63 0.11
400 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (396 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACGGTATAC
TTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTGGGATCG
ACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTGGACCAAAA
ATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
CAAAAA
Found at i:337075 original size:197 final size:200
Alignment explanation
Indices: 336196--337161 Score: 1665
Period size: 199 Copynumber: 4.9 Consensus size: 200
336186 TTTAAATTAG
* * * *
336196 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAACCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
* * *
336258 ATACTTGTACCGATTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTATG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
*
336323 GGATCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCAGCCTGTTTTGCCATTCATTCTG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTT-CCATTCATTCTG
336386 GACCAAAAA
192 GACCAAAAA
* *
336395 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
336460 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
336525 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
336590 AAAAA
196 AAAAA
*
336595 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
336660 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
336723 TCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
336786 -AAAA
196 AAAAA
336790 TATCGACACAAACT-AAAAA-TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
336853 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
336918 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
336983 AAAAA
196 AAAAA
336988 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACC-GTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
337051 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
337115 TCGACACTTTTTAGATATGGTTCGACACTTTATGGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
337162 GGCCATATTG
Statistics
Matches: 737, Mismatches: 18, Indels: 26
0.94 0.02 0.03
Matches are distributed among these distances:
193 61 0.08
194 42 0.06
195 33 0.04
196 56 0.08
197 147 0.20
198 57 0.08
199 162 0.22
200 144 0.20
201 35 0.05
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:337300 original size:19 final size:19
Alignment explanation
Indices: 337276--337324 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
337266 ATATATTCAC
337276 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
337295 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
337314 ATACAAAATTA
1 ATACAAAATTA
337325 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:339235 original size:21 final size:21
Alignment explanation
Indices: 339210--339274 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
339200 CCCCTTATGC
* *
339210 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
339231 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
339252 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
339273 CT
1 CT
339275 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:341307 original size:24 final size:24
Alignment explanation
Indices: 341270--341322 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
341260 CCGTTCTATC
341270 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
341294 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
341318 TATTT
1 TATTT
341323 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:341469 original size:17 final size:18
Alignment explanation
Indices: 341447--341489 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
341437 ATATATTCGG
341447 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
341464 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
341484 TATCAT
1 TATCAT
341490 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:341498 original size:20 final size:19
Alignment explanation
Indices: 341452--341510 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
341442 TTCGGTATCA
341452 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
341471 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
* *
341492 TTTTACCTGTTATATCATT
1 TTTTACCGGTTTTATCATT
341511 GTGGATCGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:341660 original size:20 final size:20
Alignment explanation
Indices: 341633--341679 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
341623 TCCGGTAACG
341633 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
341652 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
341673 TTTTACC
1 TTTTACC
341680 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:341732 original size:181 final size:182
Alignment explanation
Indices: 341419--341891 Score: 691
Period size: 181 Copynumber: 2.6 Consensus size: 182
341409 CGATAATTTG
* *
341419 AAAGTATCGACACTTTCAATATATTCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATTCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
341484 TATCATATTTTTACCTGTTATATCATTGTGGATCGATATATTTTTTTAAAGTATCGACATATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACATATTAT
341549 AGGCA-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGG-ATCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
341600 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATTCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
341665 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGATACT-TTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACA-TATTA
* *
341729 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 TAGGATCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * ** *
341782 AAAGTACCGACATTTTAAATGTATTCGGTAGCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTCAATATATTCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
341847 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACATATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTT
341892 AATTTGGATC
Statistics
Matches: 261, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
180 1 0.00
181 164 0.63
182 96 0.37
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATTCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACATATTAT
AGGATCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:343585 original size:20 final size:20
Alignment explanation
Indices: 343557--343598 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
343547 TTTCATCACA
*
343557 TCAAATTCTCTCAAATTTTC
1 TCAAATTCTCTCAAATATTC
*
343577 TCAATTTCTCTCAAATATTC
1 TCAAATTCTCTCAAATATTC
343597 TC
1 TC
343599 TCTGTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (20 bp):
TCAAATTCTCTCAAATATTC
Found at i:343597 original size:12 final size:11
Alignment explanation
Indices: 343557--343600 Score: 58
Period size: 10 Copynumber: 4.2 Consensus size: 11
343547 TTTCATCACA
343557 TCAAA-TTCTC
1 TCAAATTTCTC
343567 TCAAATTT-TC
1 TCAAATTTCTC
343577 TC-AATTTCTC
1 TCAAATTTCTC
343587 TCAAATATTCTC
1 TCAAAT-TTCTC
343599 TC
1 TC
343601 TGTTTAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.17
10 13 0.43
11 5 0.17
12 7 0.23
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (11 bp):
TCAAATTTCTC
Found at i:343677 original size:17 final size:18
Alignment explanation
Indices: 343640--343680 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
343630 ATATTATGTA
*
343640 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
343658 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
343675 TTTACT
1 TTTACT
343681 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:345945 original size:26 final size:24
Alignment explanation
Indices: 345874--345945 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
345864 TTATATTTGT
345874 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
345899 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
345921 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
345946 GTTAGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:352721 original size:85 final size:87
Alignment explanation
Indices: 352622--352784 Score: 303
Period size: 86 Copynumber: 1.9 Consensus size: 87
352612 TAAGGAAGCT
352622 GCTGCAGCAGCACACATCCCCATGTG-AAAAAGAATCGAAAGAAGAAGATGGAGCGAGGCAGAGA
1 GCTGCAGCAGCACACATCCCCATGTGAAAAAAGAATCGAAAGAAGAAGATGGAGCGAGGCAGAGA
352686 C-AAATCACCCTCTCATTGTAA
66 CAAAATCACCCTCTCATTGTAA
*
352707 GCTGCTGCAGCACACATCCCCATGTGAAAAAAGAATCGAAAGAAGAAGATGGAGCGAGGCAGAGA
1 GCTGCAGCAGCACACATCCCCATGTGAAAAAAGAATCGAAAGAAGAAGATGGAGCGAGGCAGAGA
352772 CAAAATCACCCTC
66 CAAAATCACCCTC
352785 ATTGTAGCCA
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
85 25 0.33
86 39 0.52
87 11 0.15
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (87 bp):
GCTGCAGCAGCACACATCCCCATGTGAAAAAAGAATCGAAAGAAGAAGATGGAGCGAGGCAGAGA
CAAAATCACCCTCTCATTGTAA
Found at i:354222 original size:20 final size:20
Alignment explanation
Indices: 354186--354223 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
354176 ATCCTATTCC
**
354186 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
354206 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
354224 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:360563 original size:24 final size:24
Alignment explanation
Indices: 360536--360581 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
360526 GGATACAAGG
360536 TCGGTTAATAGTGGCTTCATTGCT
1 TCGGTTAATAGTGGCTTCATTGCT
*
360560 TCGGTTAATAGTGGTTTCATTG
1 TCGGTTAATAGTGGCTTCATTG
360582 TTGATGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (24 bp):
TCGGTTAATAGTGGCTTCATTGCT
Found at i:360863 original size:19 final size:18
Alignment explanation
Indices: 360839--360877 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
360829 TTCTACCTTA
*
360839 AATATCGTCATTTTTATAT
1 AATATCGTAATTTTT-TAT
*
360858 AATATCTTAATTTTTTAT
1 AATATCGTAATTTTTTAT
360876 AA
1 AA
360878 CTTTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (18 bp):
AATATCGTAATTTTTTAT
Found at i:365154 original size:215 final size:216
Alignment explanation
Indices: 364289--365203 Score: 1454
Period size: 215 Copynumber: 4.3 Consensus size: 216
364279 ATTTAAGAAT
364289 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
364354 GGATCAAATCGAAA-AATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAATACTAAATTATA
66 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATAC-AAAAAAGTACTAAATTATA
* * *
364418 CCCATTTAAAAAGTTATGGGTCAA-TTAAAAATATAATTAAGTAATAAGTATGGATCAATTTCAG
130 CCCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
*
364482 ATGCAAATAAAATTTGGAGTAC
195 ATGCAAATAAAATTTGGAGGAC
*
364504 TAAATTGAACAAATATGAAATTACAAATATAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
364569 GGATCAAATCAAAATAATTTTAAATTGTGATCTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
364634 CCTTTTTAAAAGTTATGGGCCAATTT----A-A-AAAT-AGAAATAAGTATGGGTCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
364692 TGCAAATAAAATTTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
* * *
364713 AAAATTGAACAAATATGAAATTACAAACAAAAATTTAAATAAATCAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * *
364778 GGATTAAATCGAAATAAGTAATTTTAAATTGTGATGTTGAAATTAATATAAAAAAATTACTAAAT
66 GGATCAAATCG--A-AA-TAATTTTAAATTGTGATGTTGAAATTAATA-CAAAAAAGTACTAAAT
* * *
364843 TATACCCATTTAAAAAGTTAAGGGCCAATTTAAAAATATAAATAATTAATAAGTAAGGGTCAATT
126 TATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATT
364908 TCAGATGCAAATAAAATTTGGAGGAC
191 TCAGATGCAAATAAAATTTGGAGGAC
* *
364934 TAAATTGAAAAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGACGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
364999 GGATCAAATTGAAATAATTTTAAATTATGATGTTGAAATTAATACAAAAAA-TACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
365063 CCATTTAAAAAGTTATGAGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
*
365128 TGCAAATAAAATGTGGAGGAC
196 TGCAAATAAAATTTGGAGGAC
*
365149 TAAATTGAACAAATATGAAATTACAAATAAAATTTTAAATAAATTAAACAACACA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA
365204 AAAGGATCAA
Statistics
Matches: 643, Mismatches: 43, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
209 114 0.18
210 3 0.00
211 2 0.00
212 3 0.00
213 29 0.05
214 42 0.07
215 263 0.41
216 36 0.06
217 29 0.05
218 3 0.00
219 2 0.00
220 4 0.01
221 113 0.18
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (216 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
TGCAAATAAAATTTGGAGGAC
Found at i:365289 original size:2 final size:2
Alignment explanation
Indices: 365284--365391 Score: 60
Period size: 2 Copynumber: 52.5 Consensus size: 2
365274 AAAACAACTA
* * * *
365284 AT AT AT AT AT AT AT AT A- AT AT AA ACT AT AT AGT TT AT AT GT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* * *
365327 AGT AT AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* *
365369 AT AT -T AT GT AT AA ACT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT A
365392 CCATGTATAA
Statistics
Matches: 79, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
1 3 0.04
2 70 0.89
3 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:365349 original size:22 final size:22
Alignment explanation
Indices: 365285--365369 Score: 79
Period size: 22 Copynumber: 3.9 Consensus size: 22
365275 AAACAACTAA
*
365285 TATATATATATATATAATATAAAC
1 TATATGTAT-TATAT-ATATAAAC
* *
365309 TATA--TAGTT-TATATGTAAAG
1 TATATGTA-TTATATATATAAAC
365329 TATATGTATTATATATATAAAC
1 TATATGTATTATATATATAAAC
365351 TATATAGT-TTATATATATA
1 TATAT-GTATTATATATATA
365370 TATTATGTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 10 0.19
21 5 0.10
22 30 0.58
23 3 0.06
24 4 0.08
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (22 bp):
TATATGTATTATATATATAAAC
Found at i:365377 original size:42 final size:40
Alignment explanation
Indices: 365284--365379 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 40
365274 AAAACAACTA
*
365284 ATATATATATATA-TATAATATAAACTATATAGTTTATAT
1 ATATATATATGTATTATAATATAAACTATATAGTTTATAT
* *
365323 GTAAAGTATATGTATTATATATATAAACTATATAGTTTATAT
1 ATATA-TATATGTATTATA-ATATAAACTATATAGTTTATAT
365365 ATATATATTATGTAT
1 ATATATA-TATGTAT
365380 AAACTATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
39 3 0.06
40 7 0.15
41 6 0.12
42 32 0.67
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (40 bp):
ATATATATATGTATTATAATATAAACTATATAGTTTATAT
Found at i:365388 original size:42 final size:42
Alignment explanation
Indices: 365301--365389 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
365291 TATATATATA
* *
365301 ATATAAACTATATAGTTTATATGTAAAGTATATGTATTATAT
1 ATATAAACTATATAGTTTATATATAAAGTATATGTATTAAAT
*
365343 ATATAAACTATATAGTTTATATATATA-TATTATGTA-TAAACT
1 ATATAAACTATATAGTTTATATATAAAGTA-TATGTATTAAA-T
365385 ATATA
1 ATATA
365390 TACCATGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
41 5 0.12
42 37 0.88
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (42 bp):
ATATAAACTATATAGTTTATATATAAAGTATATGTATTAAAT
Found at i:365473 original size:11 final size:11
Alignment explanation
Indices: 365459--365496 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
365449 ACTACATAGT
365459 TTATATATAAA
1 TTATATATAAA
*
365470 TTATATATGAA
1 TTATATATAAA
365481 TTATATATAAA
1 TTATATATAAA
*
365492 CTATA
1 TTATA
365497 CAATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:365504 original size:42 final size:43
Alignment explanation
Indices: 365435--365533 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
365425 TATGAACTAT
* * * *
365435 TGAACTATATAGAAACTACATAGTTTATA-TATAAATTATATA
1 TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
* * *
365477 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTACACAATTTATA-TTATAAATTATATA
*
365521 T-AATTATAAATAA
1 TGAATTATATATAA
365534 TATATATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.51
43 11 0.23
44 12 0.26
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (43 bp):
TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
Found at i:365522 original size:17 final size:17
Alignment explanation
Indices: 365502--365551 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
365492 CTATACAATT
* *
365502 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
365519 TATAATTATAAATAATA
1 TATATTTATAAATTATA
365536 TATATTGTATAAATTA
1 TATATT-TATAAATTA
365552 CATAGTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:365568 original size:142 final size:141
Alignment explanation
Indices: 365305--365561 Score: 333
Period size: 142 Copynumber: 1.8 Consensus size: 141
365295 TATATAATAT
* * * * * *
365305 AAACTATATAGTTTATATGTAAAGTATATGTATTATATATATAAACTATATAGTTTATATATATA
1 AAACTACATAGTTTATATATAAAGTATATATAATATATATATAAACTATACAATTTATATATATA
* * *
365370 TATTATGTATAAACTATATATACCATGTATAAACTATAATATTATATAGTTTATATATGAACTAT
66 TATTATGTATAAACTATAAATA-CATATATAAACTATAATATTACATAGTTTATATATGAACTAT
365435 TGAACTATATAG
130 TGAACTATATAG
* *
365447 AAACTACATAGTTTATATATAAATTATATATGAAT-TATATATAAACTATACAATTTATATTTAT
1 AAACTACATAGTTTATATATAAAGTATATAT-AATATATATATAAACTATACAATTTATATATAT
* ***
365511 ATATTATGTAT-AATTATAAATA-ATATATATTGTATAA-ATTACATAGTTTAT
65 ATATTATGTATAAACTATAAATACATATATAAACTATAATATTACATAGTTTAT
365562 TAATATAAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
138 13 0.13
139 11 0.11
141 9 0.09
142 64 0.65
143 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (141 bp):
AAACTACATAGTTTATATATAAAGTATATATAATATATATATAAACTATACAATTTATATATATA
TATTATGTATAAACTATAAATACATATATAAACTATAATATTACATAGTTTATATATGAACTATT
GAACTATATAG
Found at i:365599 original size:24 final size:24
Alignment explanation
Indices: 365502--365606 Score: 74
Period size: 24 Copynumber: 4.4 Consensus size: 24
365492 CTATACAATT
*
365502 TATA-TTTATATATTATGTATAAT-
1 TATAGTTTATATA-TATGTAAAATA
** *
365525 TATAAATAATATATATTGTATAAATTA
1 TATAGTTTATATATA-TGTA-AAA-TA
* * *
365552 CATAGTTTAT-TA-ATATAAATTA
1 TATAGTTTATATATATGTAAAATA
365574 TATAGTTTATATATATGTAAAATA
1 TATAGTTTATATATATGTAAAATA
*
365598 TATGGTTTA
1 TATAGTTTA
365607 GGGTTTAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
22 11 0.18
23 10 0.16
24 29 0.47
25 3 0.05
26 3 0.05
27 6 0.10
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.49
Consensus pattern (24 bp):
TATAGTTTATATATATGTAAAATA
Found at i:365613 original size:7 final size:7
Alignment explanation
Indices: 365601--365640 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
365591 TAAAATATAT
365601 GGTTTAG
1 GGTTTAG
365608 GGTTTAG
1 GGTTTAG
365615 GGTTTA-
1 GGTTTAG
*
365621 GATTTAG
1 GGTTTAG
*
365628 GGTTTAA
1 GGTTTAG
365635 GGTTTA
1 GGTTTA
365641 TAGTTTATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:365628 original size:20 final size:20
Alignment explanation
Indices: 365603--365640 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
365593 AAATATATGG
*
365603 TTTAGGGTTTAGGGTTTAGA
1 TTTAGGGTTTAAGGTTTAGA
365623 TTTAGGGTTTAAGGTTTA
1 TTTAGGGTTTAAGGTTTA
365641 TAGTTTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTAAGGTTTAGA
Found at i:365660 original size:14 final size:14
Alignment explanation
Indices: 365610--365667 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
365600 TGGTTTAGGG
365610 TTTAGGGTTTA-GA
1 TTTAGGGTTTATGA
* *
365623 TTTAGGGTTTAAGG
1 TTTAGGGTTTATGA
**
365637 TTTATAGTTTATGA
1 TTTAGGGTTTATGA
*
365651 CTTAGGGTTTAT-A
1 TTTAGGGTTTATGA
365664 TTTA
1 TTTA
365668 TATTTATATA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 15 0.43
14 20 0.57
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:365709 original size:20 final size:20
Alignment explanation
Indices: 365684--365756 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
365674 TATAAACTAC
365684 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
365704 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
* * *
365727 AGAAACTATAGTTTTTATTTAT
1 --ATACTATAATTTATATTTAT
365749 ATACTATA
1 ATACTATA
365757 TATATGAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
20 15 0.35
21 2 0.05
22 9 0.21
23 8 0.19
24 2 0.05
25 7 0.16
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:365767 original size:13 final size:13
Alignment explanation
Indices: 365746--365784 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
365736 AGTTTTTATT
*
365746 TATATACTATATA
1 TATAAACTATATA
*
365759 TATGAACTATATA
1 TATAAACTATATA
365772 TATAAACTATATA
1 TATAAACTATATA
365785 GTTTACACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:365783 original size:33 final size:33
Alignment explanation
Indices: 365746--365808 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
365736 AGTTTTTATT
* *
365746 TATATACTATATATATGAACTATATATATAAAC
1 TATATACTATACACATGAACTATATATATAAAC
* *
365779 TATATAGTTTACACATGAACTATATATATA
1 TATATACTATACACATGAACTATATATATA
365809 CTAAAGTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.40
Consensus pattern (33 bp):
TATATACTATACACATGAACTATATATATAAAC
Found at i:365832 original size:35 final size:35
Alignment explanation
Indices: 365746--365875 Score: 108
Period size: 35 Copynumber: 3.7 Consensus size: 35
365736 AGTTTTTATT
* *
365746 TATATACTATATATATGAAC--TATATATATAAAC
1 TATATAGTTTATATATGAACTATATATATATAAAC
* * *
365779 TATATAGTTTACACATGAACTATATATATACTAAAG
1 TATATAGTTTATATATGAACTATATATATA-TAAAC
* *
365815 T-TGATA-TTTATATATGAACTATAGTTTACATATAAAT
1 TAT-ATAGTTTATATATGAACTATA---TATATATAAAC
365852 TATATAGTTTATATACT-AACTATA
1 TATATAGTTTATATA-TGAACTATA
365876 GTTTACATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
33 16 0.21
35 24 0.31
36 8 0.10
37 8 0.10
38 21 0.27
39 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (35 bp):
TATATAGTTTATATATGAACTATATATATATAAAC
Found at i:365842 original size:18 final size:18
Alignment explanation
Indices: 365821--365935 Score: 79
Period size: 18 Copynumber: 5.9 Consensus size: 18
365811 AAAGTTGATA
*
365821 TTTATATATGAACTATAG
1 TTTACATATGAACTATAG
* *
365839 TTTACATATAAATTATATAG
1 TTTACATATGAA--CTATAG
*
365859 TTTATATACT-AACTATAG
1 TTTACATA-TGAACTATAG
* *
365877 TTTACATATAAAATATAGTTG
1 TTTACATATGAACTATA---G
*
365898 ATATTTACATACGAACTATAG
1 ---TTTACATATGAACTATAG
365919 TTTACATATGAACTATA
1 TTTACATATGAACTATA
365936 TATATGAACT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
17 1 0.01
18 44 0.58
20 14 0.18
21 3 0.04
24 14 0.18
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Done.