Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000542.1 Hibiscus syriacus cultivar Beakdansim tig00001052_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: 715625
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 3
Found at i:557 original size:18 final size:19
Alignment explanation
Indices: 519--557 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
509 AAAGGAAAAG
*
519 AAGCACTCAAAAAGATTGA
1 AAGCACTCAAAAAGATAGA
538 AAGCACTCAAAAAGA-AGA
1 AAGCACTCAAAAAGATAGA
556 AA
1 AA
558 AAGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (19 bp):
AAGCACTCAAAAAGATAGA
Found at i:3295 original size:11 final size:13
Alignment explanation
Indices: 3263--3292 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3253 TGGCCAAAGA
3263 TGAAAAGGTATGT
1 TGAAAAGGTATGT
3276 TGAAAAGGTATG-
1 TGAAAAGGTATGT
3288 TGAAA
1 TGAAA
3293 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:6032 original size:18 final size:19
Alignment explanation
Indices: 5994--6032 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5984 AAGGAAAAAG
*
5994 AAGCACTCAAAAAGATTGA
1 AAGCACTCAAAAAGATAGA
6013 AAGCACTCAAAAAGA-AGA
1 AAGCACTCAAAAAGATAGA
6031 AA
1 AA
6033 AAGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (19 bp):
AAGCACTCAAAAAGATAGA
Found at i:8799 original size:11 final size:13
Alignment explanation
Indices: 8767--8796 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8757 TGGCCAAAGA
8767 TGAAAAGGTATGT
1 TGAAAAGGTATGT
8780 TGAAAAGGTATG-
1 TGAAAAGGTATGT
8792 TGAAA
1 TGAAA
8797 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:19204 original size:14 final size:14
Alignment explanation
Indices: 19185--19212 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19175 GTTAAAACTG
19185 CTTTTTTGCATGGT
1 CTTTTTTGCATGGT
19199 CTTTTTTGCATGGT
1 CTTTTTTGCATGGT
19213 GATTTAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.21, T:0.57
Consensus pattern (14 bp):
CTTTTTTGCATGGT
Found at i:25976 original size:27 final size:26
Alignment explanation
Indices: 25916--25979 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
25906 TAAAAGAGAG
*
25916 AGAGAAAATGATAGTTATTCGAAAAA
1 AGAGAAAAAGATAGTTATTCGAAAAA
*
25942 AGAAAGAAAGAAGAT-GTTGTTCGAAAAA
1 AG--AGAAA-AAGATAGTTATTCGAAAAA
25970 TAGAGAAAAA
1 -AGAGAAAAA
25980 AAAGACATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
26 4 0.12
27 5 0.16
28 17 0.53
29 6 0.19
ACGTcount: A:0.56, C:0.03, G:0.22, T:0.19
Consensus pattern (26 bp):
AGAGAAAAAGATAGTTATTCGAAAAA
Found at i:26264 original size:26 final size:25
Alignment explanation
Indices: 26227--26276 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
26217 AGCTTTCTCT
26227 TTTTACTTTTCAAGTTCTTCATTTTTC
1 TTTTACTTTTCAAGTT-TT-ATTTTTC
26254 TTTTA-TTTTCAAGTTTTATTTTT
1 TTTTACTTTTCAAGTTTTATTTTT
26277 AATATGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 2 0.09
26 10 0.43
27 5 0.22
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTTACTTTTCAAGTTTTATTTTTC
Found at i:29156 original size:18 final size:19
Alignment explanation
Indices: 29125--29162 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
29115 TATTGATGAT
*
29125 CTAGTACTGGGTATCGATA
1 CTAGTACTGAGTATCGATA
29144 CTAG-ACTGAGTATCGATA
1 CTAGTACTGAGTATCGATA
29162 C
1 C
29163 CAACTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (19 bp):
CTAGTACTGAGTATCGATA
Found at i:32578 original size:200 final size:198
Alignment explanation
Indices: 32235--32814 Score: 842
Period size: 200 Copynumber: 2.9 Consensus size: 198
32225 TACCAGAATC
*
32235 TGGGCATTCATTCTGGACAAAAAGTATCGACACCAATTTCAAACGTGTCGATACATTATGTAGAC
1 TGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTCAAA-GTGTCGATACATTATGTAGAC
*
32300 CTATTCTCACATAAAATCGGTATATGTATACCGGTTACATTATAAAATTACCTATTACATTATAA
65 CTATTCTCACATAAAATCGGTATAT-TATACCGGTTACATTACAAAATTACCTATTACATTATAA
* * * * * **
32365 TTATGAGTTTCGATGTCTCTGGGATCGACACTTTTAAAAAATGTATCGACACTTTATTTGTGCAC
129 TTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCAC
*
32430 CCTTT
194 CATTT
* * *
32435 TGGGCATTCCTTCTGGACAAACAGTATCGACACAAATTCCATAAGTGTCGATACATTATGTAGAC
1 TGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTCA-AAGTGTCGATACATTATGTAGAC
* *
32500 CTATTCTCTCATAAAACCGGTATAGTTATACCGGTTACATTGA-AAAATTACCTATTACATTATA
65 CTATTCTCACATAAAATCGGTATA-TTATACCGGTTACATT-ACAAAATTACCTATTACATTATA
* * **
32564 ATTATGGGTTTCGATGTTTCTGGAATCGATACTTTTTATAAACGTATCGACACTTTATGCGTTTA
128 ATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCA
32629 CCATTT
193 CCATTT
* *
32635 TGGG-ATTCATTCTGGACAAAAAGTATCGAAACTAATTTCAAAAGTGTCGATACATTATGTAGAC
1 TGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTC-AAAGTGTCGATACATTATGTAGAC
* *
32699 CTATTCTCACATAAAATCGGTATTTTTATGCCGGTTA-ATTACAAAATTACCTATTACATTATAA
65 CTATTCTCACATAAAATCGGTA-TATTATACCGGTTACATTACAAAATTACCTATTACATTATAA
** *
32763 TTATGGGTTTTAATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC
129 TTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGTATCGACAC
32815 ATCTGCTTAC
Statistics
Matches: 342, Mismatches: 32, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
197 1 0.00
198 72 0.21
199 84 0.25
200 181 0.53
201 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (198 bp):
TGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTCAAAGTGTCGATACATTATGTAGACC
TATTCTCACATAAAATCGGTATATTATACCGGTTACATTACAAAATTACCTATTACATTATAATT
ATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCA
TTT
Found at i:32857 original size:15 final size:15
Alignment explanation
Indices: 32837--32869 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32827 ATTTTATGGA
*
32837 AACTTTACGTTTGGG
1 AACTTTACGTTTGAG
32852 AACTTTACGTTTGAG
1 AACTTTACGTTTGAG
32867 AAC
1 AAC
32870 CATACTGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (15 bp):
AACTTTACGTTTGAG
Found at i:33204 original size:19 final size:19
Alignment explanation
Indices: 33180--33228 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
33170 TTACATTCAC
33180 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
33199 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
33218 ATACAAAATTA
1 ATACAAAATTA
33229 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:34808 original size:18 final size:18
Alignment explanation
Indices: 34785--34823 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34775 TCCTCCTCAT
* * *
34785 TTCCTCTATCTTTTCTTC
1 TTCCTCCATATTTTATTC
34803 TTCCTCCATATTTTATTC
1 TTCCTCCATATTTTATTC
34821 TTC
1 TTC
34824 ATATTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCCTCCATATTTTATTC
Found at i:34995 original size:33 final size:33
Alignment explanation
Indices: 34958--35053 Score: 165
Period size: 33 Copynumber: 2.9 Consensus size: 33
34948 CCATCTTAAG
*
34958 TTCACCCCTCAACACCTCAACTTCTTTCACTAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACTAA
34991 TTCACCCCTCAACACCTCAACTTCTTTCACTAA
1 TTCACCCCTCAACACCTCAACTTCTTTCACTAA
* *
35024 TTCATCCCTCAACACCTTAACTTCTTTCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCAC
35054 CACTCCATCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.25, C:0.43, G:0.00, T:0.32
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACTAA
Found at i:35116 original size:21 final size:21
Alignment explanation
Indices: 35091--35134 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
35081 CCCCTTATGC
35091 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
35112 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
35133 CT
1 CT
35135 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:35539 original size:22 final size:24
Alignment explanation
Indices: 35511--35561 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35501 AACCTGCATT
*
35511 TATAATAAA-AT-TTATAATTTTA
1 TATAATAAATATACTATAATTTTA
*
35533 TATAATAAATATACTATCATTTTA
1 TATAATAAATATACTATAATTTTA
35557 TATAA
1 TATAA
35562 AAAGAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 14 0.56
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATAAATATACTATAATTTTA
Found at i:37833 original size:182 final size:182
Alignment explanation
Indices: 37519--37937 Score: 640
Period size: 182 Copynumber: 2.3 Consensus size: 182
37509 TACGCGTACT
* * * * *
37519 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTATCATTTAGAGACCG
* *
37584 GTTTTGTCATATTTTTACCTGTTATATTGTTGTGGACCGATACATTGTTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTGTTATATCGTTGTGGACCGATACATTGTTATAAAGTATCGACACT
*
37649 TTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTCTCAATACTTA
131 TTATAGGAGCTAAAACTACTTCTCTTTTAAATTCACAAAGTCTCAATACTTA
* * * * *
37701 TATTAATGTATCGACACTTTAAATATATTCAGTCGCTCTATACCGGTTTTATCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTATCATTTAGAGACCG
* * *
37766 ATTTTGTCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGTCACT
66 ATTTTGTCATATTTTTACCTGTTATATCGTTGTGGACCGATACATTGTTATAAAGTATCGACACT
* * * * *
37831 TTATGGGCGCTAAAACTATTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGAGCTAAAACTACTTCTCTTTTAAATTCACAAAGTCTCAATACTTA
*
37883 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTGTCAT
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTATCAT
37938 ATTTTTAACT
Statistics
Matches: 210, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
182 210 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTATCATTTAGAGACCG
ATTTTGTCATATTTTTACCTGTTATATCGTTGTGGACCGATACATTGTTATAAAGTATCGACACT
TTATAGGAGCTAAAACTACTTCTCTTTTAAATTCACAAAGTCTCAATACTTA
Found at i:38039 original size:162 final size:162
Alignment explanation
Indices: 37762--38097 Score: 564
Period size: 162 Copynumber: 2.1 Consensus size: 162
37752 TCCTTTAGAG
* * * * *
37762 ACCGATTTTGTCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGT
1 ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCGA
* * *
37827 CACTTTATGGGCGCTAAAACTATTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
66 CACTTTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAATGTCGATACTTATATTAAAGT
*
37892 ATCGACACTTTCAATATATCCGGTCGCTCTAT
131 ATCGACACTTTCAATATATCCGATCGCTCTAT
37924 ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCGA
* *
37989 CACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATACTTGTATTAAAGT
66 CACTTTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAATGTCGATACTTATATTAAAGT
*
38054 ATCGACACTTTCAATATATCCGATCGGTCTAT
131 ATCGACACTTTCAATATATCCGATCGCTCTAT
38086 ACCGGTTTTGTC
1 ACCGGTTTTGTC
38098 CTTTAGAGAC
Statistics
Matches: 162, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 162 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (162 bp):
ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCGA
CACTTTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAATGTCGATACTTATATTAAAGT
ATCGACACTTTCAATATATCCGATCGCTCTAT
Found at i:38212 original size:344 final size:344
Alignment explanation
Indices: 37580--38259 Score: 1112
Period size: 344 Copynumber: 2.0 Consensus size: 344
37570 TCATTTTGAG
* * *
37580 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTGTGGACCGATACATTGTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGACCGATAAATTGTTATAAAGTATCGA
* *
37645 CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTCTCAATACTTATATTAATGT
66 CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAATCTCAATACTTATATTAAAGT
* *
37710 ATCGACACTTTAAATATATTCAGTCGCTCTATACCGGTTTTATCCTTTAGAGACCGATTTTGTCA
131 ATCGACACTTTAAATATATCCAGTCGCTCTATACCGGTTTTATCCTTTAGAGACCGATTTAGTCA
* * * * *
37775 TATTTTTACCTGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGTCACTTTATGGGCG
196 TATTTGTACATGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGACACTTTATAGACG
37840 CTAAAACTATTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCA
261 CTAAAACTATTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCA
37905 ATATATCCGGTCGCTCTAT
326 ATATATCCGGTCGCTCTAT
*
37924 ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGACCGATAAATTGTTATAAAGTATCGA
* * * *
37989 CACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATACTTGTATTAAAGT
66 CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAATCTCAATACTTATATTAAAGT
* * * *
38054 ATCGACACTTTCAATATATCC-GATCGGTCTATACCGGTTTTGTCCTTTAGAGACCGGTTTAGTC
131 ATCGACACTTTAAATATATCCAG-TCGCTCTATACCGGTTTTATCCTTTAGAGACCGATTTAGTC
38118 ATATTTGTACATGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGACACTTTATAGAC
195 ATATTTGTACATGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGACACTTTATAGAC
* *
38183 TCTAAAACTGA-TTCTCTTTTAATTTCACAAAGTGTCGATACTTATATTAAAGTATCGACACTTT
260 GCTAAAACT-ATTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCGACACTTT
*
38247 CAATATATTCGGT
324 CAATATATCCGGT
38260 ACCGCTTTAT
Statistics
Matches: 310, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
343 1 0.00
344 308 0.99
345 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (344 bp):
ACCGGTTTTGTCATATTTTTAACTGTTATATCGTTGTGGACCGATAAATTGTTATAAAGTATCGA
CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAATCTCAATACTTATATTAAAGT
ATCGACACTTTAAATATATCCAGTCGCTCTATACCGGTTTTATCCTTTAGAGACCGATTTAGTCA
TATTTGTACATGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGACACTTTATAGACG
CTAAAACTATTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCA
ATATATCCGGTCGCTCTAT
Found at i:38233 original size:182 final size:182
Alignment explanation
Indices: 37924--38354 Score: 598
Period size: 182 Copynumber: 2.4 Consensus size: 182
37914 GTCGCTCTAT
*
37924 ACCGGTTTTGTCATATTTTTA-ACTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCG
1 ACCGGTTTTGTCATATTTTTACA-TGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCG
* * *
37988 ACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATACTTGTATTAAAG
65 ACACTTTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAATGTCGATACTTATATTAAAG
* *
38053 TATCGACACTTTCAATATATCCGAT-CGGTCTATACCGGTTTTGTCCTTTAGAG
130 TATCGACACTTTCAATATATCCGATACCG-CTATACCGGTTTTATCCTTTAGAG
* * *
38106 ACCGGTTTAGTCATATTTGTACATGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGA
* * *
38171 CACTTTATAGACTCTAAAACTGATTCTCTTTTAATTTCACAAAGTGTCGATACTTATATTAAAGT
66 CACTTTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAATGTCGATACTTATATTAAAGT
* * * ** * *
38236 ATCGACACTTTCAATATATTCGGTACCGCTTTATTGGTTTTATCTTTTCGAG
131 ATCGACACTTTCAATATATCCGATACCGCTATACCGGTTTTATCCTTTAGAG
* * * * *
38288 ACTGATTTTGTCATATTTTTACCTGTTATATTGATGTGGATCGATACAGTT-TTATAAAGTATCG
1 ACCGGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACA-TTGTTATAAAGTATCG
38352 ACA
65 ACA
38355 TAAACCGACA
Statistics
Matches: 219, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
182 214 0.98
183 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (182 bp):
ACCGGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGA
CACTTTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAATGTCGATACTTATATTAAAGT
ATCGACACTTTCAATATATCCGATACCGCTATACCGGTTTTATCCTTTAGAG
Found at i:39301 original size:2 final size:2
Alignment explanation
Indices: 39296--39325 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39286 TCTCTCTGTC
39296 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39326 AAGCCGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47258 original size:20 final size:20
Alignment explanation
Indices: 47233--47302 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
47223 GGTAAGTAGC
47233 ATCGATATTGTTCTAATAGT
1 ATCGATATTGTTCTAATAGT
* ** *
47253 ATCGATACTG--CATGAGCAAT
1 ATCGATATTGTTC-T-AATAGT
*
47273 AACGATATTGTTCTAATAGT
1 ATCGATATTGTTCTAATAGT
47293 ATCGATATTG
1 ATCGATATTG
47303 CATGAACAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 32 0.89
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
ATCGATATTGTTCTAATAGT
Found at i:47290 original size:40 final size:39
Alignment explanation
Indices: 47235--47325 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 39
47225 TAAGTAGCAT
*
47235 CGATATTGTTCTAATAGTATCGATACTGCATGAGCAATAA
1 CGATATTGTTCTAATAGTATCGATACTGCATGAACAAT-A
*
47275 CGATATTGTTCTAATAGTATCGATATTGCATGAACAATA
1 CGATATTGTTCTAATAGTATCGATACTGCATGAACAATA
*
47314 TGATATTGTTCT
1 CGATATTGTTCT
47326 TGCAGTACCG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.25
40 36 0.75
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (39 bp):
CGATATTGTTCTAATAGTATCGATACTGCATGAACAATA
Found at i:48163 original size:26 final size:24
Alignment explanation
Indices: 48133--48180 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
48123 TAAAACGTAT
*
48133 TAGTATATAAAATAATTCATATAACA
1 TAGTACATAAAAT-A-TCATATAACA
48159 TAGTACATAAAATATCATATAA
1 TAGTACATAAAATATCATATAA
48181 TAACATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 1 0.05
26 12 0.57
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
TAGTACATAAAATATCATATAACA
Found at i:53749 original size:46 final size:48
Alignment explanation
Indices: 53626--53755 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 48
53616 ATATAAATTT
* *
53626 CTTACC-TTTTATCCCATAAGCTCATAAGCTTA-TTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
* ** *
53672 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCAATATA
1 CTTACCATTT--AATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
* *
53722 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
53756 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
46 29 0.41
47 3 0.04
49 22 0.31
50 17 0.24
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.42
Consensus pattern (48 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
Found at i:60763 original size:45 final size:47
Alignment explanation
Indices: 60640--60768 Score: 147
Period size: 49 Copynumber: 2.8 Consensus size: 47
60630 ATATAAATTT
* *
60640 CTTA-CATTTTATCCCATAAGCTCATAAGCTTATTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* ** *
60686 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTATTTTTTTCAATATA
1 CTTACCATTT--AATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* *
60735 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
60769 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 23 0.32
46 4 0.06
47 5 0.07
48 2 0.03
49 37 0.52
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (47 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
Found at i:66135 original size:45 final size:45
Alignment explanation
Indices: 66085--66218 Score: 200
Period size: 45 Copynumber: 3.0 Consensus size: 45
66075 CACCCATATG
* *
66085 CATTTCATTGATGGCATTCTTTCATGCCTTTTATGCACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATA
* * *
66130 TATTTCATTTATGGCACCCTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATA
*
66175 CATTTCATTTATGGCATCCTTTTATGCCTTTTATGCA-T-TTATA
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATA
66218 C
1 C
66219 GTTTTGCTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 6 0.08
44 1 0.01
45 73 0.91
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (45 bp):
CATTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATA
Found at i:66231 original size:45 final size:45
Alignment explanation
Indices: 66087--66244 Score: 187
Period size: 45 Copynumber: 3.5 Consensus size: 45
66077 CCCATATGCA
* *
66087 TTTCATTGATGGCATTCTTTCATGCCTTTTATGCACTATTATA-T
1 TTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATACT
* * *
66131 ATTTCATTTATGGCACCCTTTCATGCCTTTTATACACTATTATACA
1 -TTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATACT
*
66177 TTTCATTTATGGCATCCTTTTATGCCTTTTATGCA-T-TTATACGT
1 TTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATAC-T
* * *
66221 TTTGCTTTTATGACATCCATTCAT
1 TTT-CATTTATGGCATCCTTTCAT
66245 ACCAATTATG
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 6 0.06
44 4 0.04
45 87 0.90
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.49
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTTATGCACTATTATACT
Found at i:66442 original size:81 final size:81
Alignment explanation
Indices: 66343--66665 Score: 350
Period size: 81 Copynumber: 4.0 Consensus size: 81
66333 CCTTTATTCG
* * * * *
66343 TTTACCCAA-AGTCATTTAACCTTTCATCTAACTTG-CATGATTGACACTTTTCTACCAAATGCA
1 TTTACTCAACAGTC-TTTAACCGTTCATCTAAC-TGCCATAATTGACACCTTTCTACCAATTGCA
** * *
66406 CAATTAGACCCTTTATCT
64 CAGCTAGGCCATTTATCT
* ** * **
66424 TTTACTCAACAGTCTTTAACCATTCATCTAACTAACATAATTGACACATTTCCGCCAATTGCACA
1 TTTACTCAACAGTCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTCTACCAATTGCACA
*
66489 GCTAGGCCATTTAT-A
66 GCTAGGCCATTTATCT
*
66504 TTTACTCAAC-GATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTT-TGCCTAATTGCA
1 TTTACTCAACAG-TCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTCTACC-AATTGCA
66567 CAGCTAGGCCATTTATCT
64 CAGCTAGGCCATTTATCT
** * * *
66585 TTTACTCAATGGTCTTTAGCCGTTCATCTAACTGCCATAATTAACACCTTTCTACCAATTGTACA
1 TTTACTCAACAGTCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTCTACCAATTGCACA
* * *
66650 ACTATGCCATTCATCT
66 GCTAGGCCATTTATCT
66666 AACTGGCATA
Statistics
Matches: 208, Mismatches: 27, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
79 4 0.02
80 69 0.33
81 127 0.61
82 8 0.04
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (81 bp):
TTTACTCAACAGTCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTCTACCAATTGCACA
GCTAGGCCATTTATCT
Found at i:66626 original size:161 final size:161
Alignment explanation
Indices: 66357--66660 Score: 378
Period size: 161 Copynumber: 1.9 Consensus size: 161
66347 CCCAAAGTCA
* * * * *
66357 TTTAACCTTTCATCTAACTTGCATGATTGACACTTTTCTACCAAATGCACAATTAGACCCTTTAT
1 TTTAACCGTTCATCTAACTTGCATAATTGACACCTTTCTACCAAATGCACAACTAGACCATTTAT
* *
66422 CTTTTACTCAACAGTCTTTAACCATTCATCTAACTAACATAATTGACACATTTCCGCCAATTGCA
66 CTTTTACTCAACAGTCTTTAACCATTCATCTAACTAACATAATTAACACATTTCCACCAATTGCA
*
66487 CAGCTAGGCCATTTATATTTACTCAACGATC
131 CAACTAGGCCATTTATATTTACTCAACGATC
* * * *
66518 TTTAACCGTTCATCTAAC-TGCCATAATTGACACCTTT-TGCCTAATTGCACAGCTAGGCCATTT
1 TTTAACCGTTCATCTAACTTG-CATAATTGACACCTTTCTACC-AAATGCACAACTAGACCATTT
** * * ** * *
66581 ATCTTTTACTCAATGGTCTTTAGCCGTTCATCTAACTGCCATAATTAACACCTTTCTACCAATTG
64 ATCTTTTACTCAACAGTCTTTAACCATTCATCTAACTAACATAATTAACACATTTCCACCAATTG
* *
66646 TACAACTATGCCATT
129 CACAACTAGGCCATT
66661 CATCTAACTG
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
160 5 0.04
161 114 0.96
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (161 bp):
TTTAACCGTTCATCTAACTTGCATAATTGACACCTTTCTACCAAATGCACAACTAGACCATTTAT
CTTTTACTCAACAGTCTTTAACCATTCATCTAACTAACATAATTAACACATTTCCACCAATTGCA
CAACTAGGCCATTTATATTTACTCAACGATC
Found at i:66685 original size:52 final size:52
Alignment explanation
Indices: 66607--66712 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
66597 TCTTTAGCCG
* * * *
66607 TTCATCTAACTGCCATAATTAACACCTTTCTACCAATTGTACAACTATGCCA
1 TTCATCTAACTGCCATAATTAACACCTTTATACCAAATGCACAACTAGGCCA
* * *
66659 TTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCA
1 TTCATCTAACTGCCATAATTAACACCTTTATACCAAATGCACAACTAGGCCA
66711 TT
1 TT
66713 TATATTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.31
Consensus pattern (52 bp):
TTCATCTAACTGCCATAATTAACACCTTTATACCAAATGCACAACTAGGCCA
Found at i:66770 original size:133 final size:133
Alignment explanation
Indices: 66526--66798 Score: 404
Period size: 133 Copynumber: 2.1 Consensus size: 133
66516 TCTTTAACCG
* * *
66526 TTCATCTAACTGCCATAATTGACACCTTTTGCCTAATTGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGCCATAATTGACACCTTTTGCCTAAATGCACAACTAGGCCATTTATATTTTACT
* * * *
66591 CAATGGTCTTTAGCCGTTCATCTAACTGCCATAATTAACACCTTTCTACCAATTGTACAACTATG
66 CAACGGTCTTTAACCGTTCATCTAACTGCCATAATTAACACCTTTCTACCAATTGCACAACTAGG
66656 CCA
131 CCA
* *
66659 TTCATCTAACTGGCATAATTGACACCTTTATGCC-AAATGCACAACTAGGCCATTTATATTTTAT
1 TTCATCTAACTGCCATAATTGACACCTTT-TGCCTAAATGCACAACTAGGCCATTTATATTTTAC
* ** *
66723 TCAACGGTCTTTAACCGTTCATCTAACTGCCATAATTGACATTTTTCTGCCAATTGCACAACTAG
65 TCAACGGTCTTTAACCGTTCATCTAACTGCCATAATTAACACCTTTCTACCAATTGCACAACTAG
66788 GCCA
130 GCCA
*
66792 TTTATCT
1 TTCATCT
66799 TTTACTCAAC
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
133 121 0.97
134 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.36
Consensus pattern (133 bp):
TTCATCTAACTGCCATAATTGACACCTTTTGCCTAAATGCACAACTAGGCCATTTATATTTTACT
CAACGGTCTTTAACCGTTCATCTAACTGCCATAATTAACACCTTTCTACCAATTGCACAACTAGG
CCA
Found at i:66794 original size:81 final size:81
Alignment explanation
Indices: 66659--67024 Score: 554
Period size: 81 Copynumber: 4.5 Consensus size: 81
66649 AACTATGCCA
* * *
66659 TTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATATTTTATT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
66724 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* ** *
66740 TTCATCTAACTGCCATAATTGACATTTTTCTGCCAATTGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
66805 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * *
66821 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAGAGCTAGGTCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
*
66886 CAACAGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * * *
66902 TTCATCTAACTGTCATAATTGACACATTT-TTCCAATTGTATAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
66966 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
**
66982 TTCATCTAACTGGCATAATTGACACCTTTCTGTAAAATGCACA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACA
67025 GTTAGGCTTA
Statistics
Matches: 252, Mismatches: 32, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 71 0.28
81 181 0.72
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACCG
Found at i:66815 original size:214 final size:213
Alignment explanation
Indices: 66443--66856 Score: 650
Period size: 214 Copynumber: 1.9 Consensus size: 213
66433 CAGTCTTTAA
* * *
66443 CCATTCATCTAACTAACATAATTGACACATTTCCGCCAATTGCACAGCTAGGCCATTTATATTTA
1 CCATTCATCTAACTAACATAATTGACACATTTACGCCAAATGCACAACTAGGCCATTTATATTTA
*
66508 CTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTTGCCTAATTGCACAGCTA
66 CTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTTGCCTAATTGCACAACTA
* *
66573 GGCCATTTATCTTTTACTCAATGGTCTTTAGCCGTTCATCTAACTGCCATAATTAACACCTTTCT
131 GGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGCCATAATTAACACCTTTCT
66638 ACCAATTGTACAACTATG
196 ACCAATTGTACAACTATG
** * *
66656 CCATTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATATTTT
1 CCATTCATCTAACTAACATAATTGACACATTTACGCCAAATGCACAACTAGGCCATTTATA-TTT
* * **
66721 ATTCAACGGTCTTTAACCGTTCATCTAACTGCCATAATTGACATTTTTCTGCC-AATTGCACAAC
65 ACTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTT-TGCCTAATTGCACAAC
* *
66785 TAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
129 TAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGCCATAATTAACACCTTT
*
66850 CTGCCAA
194 CTACCAA
66857 ATGCAGAGCT
Statistics
Matches: 182, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
213 54 0.30
214 124 0.68
215 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (213 bp):
CCATTCATCTAACTAACATAATTGACACATTTACGCCAAATGCACAACTAGGCCATTTATATTTA
CTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTTGCCTAATTGCACAACTA
GGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGCCATAATTAACACCTTTCT
ACCAATTGTACAACTATG
Found at i:66939 original size:294 final size:294
Alignment explanation
Indices: 66365--66959 Score: 852
Period size: 294 Copynumber: 2.0 Consensus size: 294
66355 CATTTAACCT
* * * * * * *
66365 TTCATCTAACTTGCATGATTGACACTTTTCTACCAAATGCACAATTAGACCCTTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTATACCAAATGCACAACTAGACCATTTATATTTTACT
*
66430 CAACAGTCTTTAACCATTCATCTAACTAACATAATTGACACATTTCCGCCAATTGCACAGCTAGG
66 CAACAGTCTTTAACCATTCATCTAACTAACATAATTGACACATTTCCGCCAATTGCACAACTAGG
66495 CCATTTATATTTACTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTTGCCT
131 CCATTTATATTTACTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTTGCCT
* ** *
66560 AATTGCACAGCTAGGCCATTTATCTTTTACTCAATGGTCTTTAGCCGTTCATCTAACTGCCATAA
196 AAATGCACAGCTAGGCCATTTATCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGCCATAA
* *
66625 TTAACACCTTTCTACCAATTGTACAACTATGCCA
261 TTAACACATTTCTACCAATTGTACAACTAGGCCA
* * *
66659 TTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATATTTTATT
1 TTCATCTAACTGGCATAATTGACACCTTTATACCAAATGCACAACTAGACCATTTATATTTTACT
* * ** ** *
66724 CAACGGTCTTTAACCGTTCATCTAACTGCCATAATTGACATTTTTCTGCCAATTGCACAACTAGG
66 CAACAGTCTTTAACCATTCATCTAACTAACATAATTGACACATTTCCGCCAATTGCACAACTAGG
* * *
66789 CCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
131 CCATTTAT-ATTTACTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTT-TGC
* * *
66854 C-AAATGCAGAGCTAGGTCATTTATCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGTCAT
194 CTAAATGCACAGCTAGGCCATTTATCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGCCAT
* * *
66918 AATTGACACATTT-TTCCAATTGTATAACTAGGCCA
259 AATTAACACATTTCTACCAATTGTACAACTAGGCCA
*
66953 TTTATCT
1 TTCATCT
66960 TTTACTCAAC
Statistics
Matches: 265, Mismatches: 34, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
294 145 0.55
295 116 0.44
296 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (294 bp):
TTCATCTAACTGGCATAATTGACACCTTTATACCAAATGCACAACTAGACCATTTATATTTTACT
CAACAGTCTTTAACCATTCATCTAACTAACATAATTGACACATTTCCGCCAATTGCACAACTAGG
CCATTTATATTTACTCAACGATCTTTAACCGTTCATCTAACTGCCATAATTGACACCTTTTGCCT
AAATGCACAGCTAGGCCATTTATCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGCCATAA
TTAACACATTTCTACCAATTGTACAACTAGGCCA
Found at i:67397 original size:56 final size:55
Alignment explanation
Indices: 67245--67413 Score: 216
Period size: 55 Copynumber: 3.0 Consensus size: 55
67235 ACATATATTT
*
67245 CCCATACATAAATTCATACACTTAGTATGGATTTCTTAG-TTTGCACACATAGTG
1 CCCATACAAAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACACATAGTG
* *
67299 CCCATACGAAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACCA-GGTG
1 CCCATAC-AAAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACA-CATAGTG
* * * * *
67355 CCCATACAGAAATTCATACGCCTAGTATGGATTTCTTAAGTTTTTTCACACTTAGTG
1 CCCATACAAAAATTCATACACTTAGTATGGATTTCTT-AG-TTTTGCACACATAGTG
67412 CC
1 CC
67414 ATTTGGTAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
54 7 0.07
55 56 0.57
56 21 0.21
57 15 0.15
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (55 bp):
CCCATACAAAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACACATAGTG
Found at i:67767 original size:20 final size:20
Alignment explanation
Indices: 67738--67829 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
67728 TGGTTCCTCA
*
67738 GTATCGATACCCTTACCATG
1 GTATCAATACCCTTACCATG
67758 GTATCAATACCCTTACCATG
1 GTATCAATACCCTTACCATG
* *
67778 GTATCAATACTACCATACTATG
1 GTATCAATAC--CCTTACCATG
* **
67800 GTATCGATACCC-TATTATG
1 GTATCAATACCCTTACCATG
67819 GTATCAATACC
1 GTATCAATACC
67830 ATTTTTTCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
19 16 0.25
20 31 0.48
22 17 0.27
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (20 bp):
GTATCAATACCCTTACCATG
Found at i:67877 original size:20 final size:21
Alignment explanation
Indices: 67852--67902 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
67842 TGTTTTGAAT
*
67852 GGTATCGATACCTTCCC-TTC
1 GGTATCGATACCTCCCCTTTC
67872 GGTATCGATA-CTCCCCTTTC
1 GGTATCGATACCTCCCCTTTC
67892 GGTATCGATAC
1 GGTATCGATAC
67903 TGATTCAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (21 bp):
GGTATCGATACCTCCCCTTTC
Found at i:71875 original size:6 final size:6
Alignment explanation
Indices: 71847--71881 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
71837 GTGCTGCAAT
*
71847 AAAAAG AAAGAAG AAAAAC AAAAAG AAAAAG AAAA
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAA
71882 GACTCCTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:76560 original size:104 final size:104
Alignment explanation
Indices: 76356--76559 Score: 387
Period size: 104 Copynumber: 2.0 Consensus size: 104
76346 ATACTTTATT
76356 GACATCAAAGAAGTCAAAAGTGATGTCATTTAAACCTTACTATTTTTAGGAAAATATTTCTCAAT
1 GACATCAAAGAAGTCAAAAGTGATGTCATTTAAACCTTACTATTTTTAGGAAAATATTTCTCAAT
76421 TTCGTCAAGGAAACTATTGGCCTAGGTAATCTTTTTTTA
66 TTCGTCAAGGAAACTATTGGCCTAGGTAATCTTTTTTTA
76460 GACATCAAAGAAGTCAAAAGTGATGTCATTTAAACCTTACTA-TTTTAGGAAAATATTTCTC-AT
1 GACATCAAAGAAGTCAAAAGTGATGTCATTTAAACCTTACTATTTTTAGGAAAATATTTCTCAAT
76523 TTCGTCAAGG-AACTATTGGCCTAGGTAATCTTTTTTT
66 TTCGTCAAGGAAACTATTGGCCTAGGTAATCTTTTTTT
76560 TAGATTATGT
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
101 27 0.27
102 12 0.12
103 19 0.19
104 42 0.42
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (104 bp):
GACATCAAAGAAGTCAAAAGTGATGTCATTTAAACCTTACTATTTTTAGGAAAATATTTCTCAAT
TTCGTCAAGGAAACTATTGGCCTAGGTAATCTTTTTTTA
Found at i:77277 original size:2 final size:2
Alignment explanation
Indices: 77270--77296 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
77260 TTAATTTATT
77270 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
77297 TCTATTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78793 original size:25 final size:25
Alignment explanation
Indices: 78752--78805 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
78742 TTCATATTAT
*
78752 TATTTTTAAAATATATTAA-AATAA
1 TATTTTTAAAATATATTAATAAAAA
* *
78776 TATTTTTATAATTTTATTAATAAAAA
1 TATTTTTA-AAATATATTAATAAAAA
78802 TATT
1 TATT
78806 AATATTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.32
25 9 0.36
26 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTTTAAAATATATTAATAAAAA
Found at i:78929 original size:22 final size:22
Alignment explanation
Indices: 78882--78947 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
78872 TAGTGTTTAT
*
78882 ATATTTTAAATTATTAATTACT
1 ATATTTTAAATTATTAATTACA
* *
78904 ATATTTTAAATATCTTTATTA-A
1 ATATTTTAAAT-TATTAATTACA
*
78926 ATATTATTAGATTATTATATTA
1 ATATT-TTAAATTATTA-ATTA
78948 ATATTCAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTTTAAATTATTAATTACA
Found at i:79037 original size:22 final size:23
Alignment explanation
Indices: 79009--79069 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
78999 TTTCTATGAA
79009 ATTAATAAATAATATAAATT-TT
1 ATTAATAAATAATATAAATTATT
* *
79031 ATTAATAATTAATTATATATTATT
1 ATTAATAAATAA-TATAAATTATT
*
79055 A-AAATAAA-AATATAA
1 ATTAATAAATAATATAA
79070 TATCTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.12
22 13 0.41
23 12 0.38
24 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAATAAATAATATAAATTATT
Found at i:79134 original size:21 final size:23
Alignment explanation
Indices: 79108--79153 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
79098 TTGATTATTT
79108 TATTATAATATT-GAAATA-TAA
1 TATTATAATATTAGAAATATTAA
*
79129 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAGAAATATTAA
79152 TA
1 TA
79154 AATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TATTATAATATTAGAAATATTAA
Found at i:79158 original size:22 final size:21
Alignment explanation
Indices: 79116--79167 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
79106 TTTATTATAA
*
79116 TATTGAAATATAATATTATAT
1 TATTGAAATATAATATAATAT
79137 TATTAGAAATATTAATA-AATAT
1 TATT-GAAATA-TAATATAATAT
79159 T-TT-AAATAT
1 TATTGAAATAT
79168 TTTACTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 5 0.18
21 6 0.21
22 11 0.39
23 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TATTGAAATATAATATAATAT
Found at i:83217 original size:20 final size:20
Alignment explanation
Indices: 83192--83229 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83182 ATTTTTACTA
*
83192 TTTTAAATTATTTAAATTAT
1 TTTTAAATTATCTAAATTAT
*
83212 TTTTAATTTATCTAAATT
1 TTTTAAATTATCTAAATT
83230 TTCTATATTT
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:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAATTATCTAAATTAT
Found at i:83793 original size:53 final size:53
Alignment explanation
Indices: 83709--83813 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
83699 TTTTTTCTAA
*
83709 ACGCTGCTGCTTTTTACAAAATAATTGTTAGTTTTTCTTTTAAAATTTGCTAT
1 ACGCTGCTGCTTTTTACAAAATAATTATTAGTTTTTCTTTTAAAATTTGCTAT
* *
83762 ACGCTGCTGTTTTTTACAAAATAATTATTAGTTTTTCTTTTAAATTTTGCTA
1 ACGCTGCTGCTTTTTACAAAATAATTATTAGTTTTTCTTTTAAAATTTGCTA
83814 AATGATGTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (53 bp):
ACGCTGCTGCTTTTTACAAAATAATTATTAGTTTTTCTTTTAAAATTTGCTAT
Found at i:86110 original size:142 final size:140
Alignment explanation
Indices: 85801--86099 Score: 354
Period size: 141 Copynumber: 2.1 Consensus size: 140
85791 AAGACTCGTA
** * * **
85801 CTTTAGTGGCA-TTTTTAATCAAGTGTCGCAATAGATATCATATATATTTATTTTTTATTAAACG
1 CTTTAGTGGCATTTTTTAATCAAACGCCACAATAGATATCATATATATGGATTTTTTATTAAACG
* * * * *
85865 CCACAATTTGTTAGTACTTTAATGGCATTTTAATTATAAACACCGCAATTTCTGAGTCTTTTATC
66 CCACAATTTGTCAATACCTTAATGGCATTTTAATTACAAACACCGCAATTTCTGAGTATTTTATC
85930 ATCCCATGAC
131 ATCCCATGAC
* * *
85940 CTTTAGTGGCATTTTTTAGTCAAACGCCACAATAGATATCATATATAGTGGCTTTTTTATTAAAT
1 CTTTAGTGGCATTTTTTAATCAAACGCCACAATAGATATCATATATA-TGGATTTTTTATTAAAC
* * *** *
86005 GCCACAAGTTT-TCAATACCTTAGTGGCGTTATTAATTACAAATGTCGCAATTTTTGAGTATTTT
65 GCCACAA-TTTGTCAATACCTTAATGGCATT-TTAATTACAAACACCGCAATTTCTGAGTATTTT
86069 ATCAT-CCA-GAAC
128 ATCATCCCATG-AC
86081 CTTTAGTGGCATTTTTTAA
1 CTTTAGTGGCATTTTTTAA
86100 AATAAACGCC
Statistics
Matches: 134, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
139 11 0.08
140 31 0.23
141 57 0.43
142 35 0.26
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (140 bp):
CTTTAGTGGCATTTTTTAATCAAACGCCACAATAGATATCATATATATGGATTTTTTATTAAACG
CCACAATTTGTCAATACCTTAATGGCATTTTAATTACAAACACCGCAATTTCTGAGTATTTTATC
ATCCCATGAC
Found at i:89192 original size:43 final size:43
Alignment explanation
Indices: 89117--89198 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
89107 CTTTGGTTGT
*
89117 GTTTTGTGATGGAAACGACACTAATGCTATAAAGATTTGCGGC
1 GTTTTGTGATGGAAACGACACCAATGCTATAAAGATTTGCGGC
* * *
89160 GTTTTGTGATGGAAATGCCACCATTGGC-ATAAAGATTTG
1 GTTTTGTGATGGAAACGACACCAAT-GCTATAAAGATTTG
89199 TGGCATTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (43 bp):
GTTTTGTGATGGAAACGACACCAATGCTATAAAGATTTGCGGC
Found at i:93610 original size:19 final size:20
Alignment explanation
Indices: 93586--93631 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
93576 CAAAATAGAC
93586 CAATTTC-ACA-TTCTAACAT
1 CAATTTCAACACTT-TAACAT
93605 CAATTTCAACACTTTAACAT
1 CAATTTCAACACTTTAACAT
*
93625 TAATTTC
1 CAATTTC
93632 CAGCATAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 15 0.62
21 2 0.08
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (20 bp):
CAATTTCAACACTTTAACAT
Found at i:113314 original size:29 final size:27
Alignment explanation
Indices: 113269--113325 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 27
113259 TAAATCTGTT
113269 GAATGCTCCAATAACTTGTGAAACATG
1 GAATGCTCCAATAACTTGTGAAACATG
113296 GAATGCTCCTCAATAACTTGTGAAACATG
1 GAATGCT-C-CAATAACTTGTGAAACATG
113325 G
1 G
113326 TCAACTTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 7 0.25
28 1 0.04
29 20 0.71
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
GAATGCTCCAATAACTTGTGAAACATG
Found at i:138951 original size:14 final size:15
Alignment explanation
Indices: 138934--138962 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
138924 TTGCTTTTGA
138934 TTTTC-TTCTTTTTC
1 TTTTCTTTCTTTTTC
138948 TTTTCTTTCTTTTTC
1 TTTTCTTTCTTTTTC
138963 ACTCCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTCTTTTTC
Found at i:144408 original size:13 final size:12
Alignment explanation
Indices: 144389--144474 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
144379 ATATAGGCGT
144389 GATATGGTGATG
1 GATATGGTGATG
144401 GAATATGGTGAT-
1 G-ATATGGTGATG
*
144413 GATATAGG-CAT-
1 GATAT-GGTGATG
144424 GATAATGGTGATG
1 GAT-ATGGTGATG
144437 GACTATGGTGAT-
1 GA-TATGGTGATG
*
144449 GATATAGGCG-T-
1 GATAT-GGTGATG
144460 GATAATGGTGATG
1 GAT-ATGGTGATG
144473 GA
1 GA
144475 CATACTCTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.36, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:144444 original size:36 final size:36
Alignment explanation
Indices: 144371--144475 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
144361 ATTTATAAGT
* *
144371 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
144406 TGGTGATGATATAGGCATGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
144442 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
144476 ATACTCTATC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 19 0.29
36 46 0.71
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:148892 original size:13 final size:12
Alignment explanation
Indices: 148873--148958 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
148863 ATATAGGCGT
148873 GATATGGTGATG
1 GATATGGTGATG
148885 GAATATGGTGAT-
1 G-ATATGGTGATG
*
148897 GATATAGGCG-T-
1 GATAT-GGTGATG
148908 GATAATGGTGATG
1 GAT-ATGGTGATG
148921 GACTATGGTGAT-
1 GA-TATGGTGATG
*
148933 GATATAGGCG-T-
1 GATAT-GGTGATG
148944 GATAATGGTGATG
1 GAT-ATGGTGATG
148957 GA
1 GA
148959 CAGACTCTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:148928 original size:36 final size:36
Alignment explanation
Indices: 148855--148959 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
148845 ATTTATAAGT
* *
148855 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
148890 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
148926 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
148960 AGACTCTATC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 20 0.30
36 47 0.70
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:166133 original size:22 final size:22
Alignment explanation
Indices: 166108--166165 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
166098 ACAAAGGTAA
*
166108 ATAAAAGAAAGAAGAAAGGATT
1 ATAAAAGAAAGAAAAAAGGATT
* *
166130 AT-AAATAAAGAAAAAAGGTTT
1 ATAAAAGAAAGAAAAAAGGATT
166151 A-AATAAGAAAGAAAA
1 ATAA-AAGAAAGAAAA
166166 GAAAAGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.16
Consensus pattern (22 bp):
ATAAAAGAAAGAAAAAAGGATT
Found at i:169527 original size:36 final size:36
Alignment explanation
Indices: 169480--169548 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
169470 ACAATCCGTT
*
169480 CATCACCATTATCATGCCTATATCATCACCATAGTC
1 CATCACCATTATCACGCCTATATCATCACCATAGTC
169516 CATCACCATTATCACGCCTATATCATCACCATA
1 CATCACCATTATCACGCCTATATCATCACCATA
169549 TCACGCCTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.35, G:0.04, T:0.29
Consensus pattern (36 bp):
CATCACCATTATCACGCCTATATCATCACCATAGTC
Found at i:169549 original size:11 final size:11
Alignment explanation
Indices: 169479--169551 Score: 60
Period size: 11 Copynumber: 6.3 Consensus size: 11
169469 TACAATCCGT
169479 TCATCACCATTA
1 TCATCACCA-TA
*
169491 TCATGC-CTATA
1 TCAT-CACCATA
169502 TCATCACCATA
1 TCATCACCATA
169513 GTCCATCACCATTA
1 -T-CATCACCA-TA
*
169527 TCA-CGCCTATA
1 TCATCACC-ATA
169538 TCATCACCATA
1 TCATCACCATA
169549 TCA
1 TCA
169552 CGCCTATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
10 1 0.02
11 24 0.48
12 13 0.26
13 10 0.20
14 2 0.04
ACGTcount: A:0.32, C:0.34, G:0.04, T:0.30
Consensus pattern (11 bp):
TCATCACCATA
Found at i:169568 original size:22 final size:23
Alignment explanation
Indices: 169516--169560 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
169506 CACCATAGTC
169516 CATCACCATTATCACGCCTATAT
1 CATCACCATTATCACGCCTATAT
169539 CATCACCA-TATCACGCCTATAT
1 CATCACCATTATCACGCCTATAT
169561 TTTCACCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (23 bp):
CATCACCATTATCACGCCTATAT
Found at i:174022 original size:36 final size:35
Alignment explanation
Indices: 173981--174083 Score: 136
Period size: 36 Copynumber: 2.9 Consensus size: 35
173971 GATACAATTT
173981 GTCCATCACCATTATCACGCCTATATCATCACAATA
1 GTCCATCACCATTATCACGCCTATAT-ATCACAATA
* * *
174017 GTCCATCACCATTATCATGCCTTTAATATCACCATA
1 GTCCATCACCATTATCACGCCTAT-ATATCACAATA
*
174053 TTCCATCACCA-TATCACGCCTATATTATCAC
1 GTCCATCACCATTATCACGCCTATA-TATCAC
174084 CAACTTATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.02
35 16 0.27
36 40 0.68
37 2 0.03
ACGTcount: A:0.31, C:0.33, G:0.05, T:0.31
Consensus pattern (35 bp):
GTCCATCACCATTATCACGCCTATATATCACAATA
Found at i:174483 original size:36 final size:36
Alignment explanation
Indices: 174432--174560 Score: 217
Period size: 36 Copynumber: 3.6 Consensus size: 36
174422 CCATCTTCCG
*
174432 TTATCACGCCT-TATCATCACCATAGCCCATCACCA
1 TTATCACGCCTATATCATCACCATAGTCCATCACCA
174467 TTATCACGCCTATATCATCACCATAGTCCATCACCA
1 TTATCACGCCTATATCATCACCATAGTCCATCACCA
*
174503 TTATCACGCCTATATCATCACCATATTCCATCACCA
1 TTATCACGCCTATATCATCACCATAGTCCATCACCA
*
174539 -TATCACGCCTATATTATCACCA
1 TTATCACGCCTATATCATCACCA
174561 ACTTCTAAAT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
35 32 0.36
36 58 0.64
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
TTATCACGCCTATATCATCACCATAGTCCATCACCA
Found at i:174500 original size:13 final size:11
Alignment explanation
Indices: 174443--174543 Score: 71
Period size: 13 Copynumber: 8.5 Consensus size: 11
174433 TATCACGCCT
174443 TATCATCACCA
1 TATCATCACCA
*
174454 TAGCCCATCACCA
1 TA--TCATCACCA
*
174467 TTATCA-CGCCTA
1 -TATCATCACC-A
174479 TATCATCACCA
1 TATCATCACCA
174490 TAGTCCATCACCA
1 TA-T-CATCACCA
*
174503 TTATCA-CGCCTA
1 -TATCATCACC-A
174515 TATCATCACCA
1 TATCATCACCA
174526 TATTCCATCACCA
1 TA-T-CATCACCA
174539 TATCA
1 TATCA
174544 CGCCTATATT
Statistics
Matches: 72, Mismatches: 6, Indels: 24
0.71 0.06 0.24
Matches are distributed among these distances:
11 26 0.36
12 15 0.21
13 27 0.38
14 4 0.06
ACGTcount: A:0.32, C:0.37, G:0.04, T:0.28
Consensus pattern (11 bp):
TATCATCACCA
Found at i:174695 original size:474 final size:463
Alignment explanation
Indices: 173983--174882 Score: 1495
Period size: 474 Copynumber: 1.9 Consensus size: 463
173973 TACAATTTGT
* *
173983 CCATCACCATTATCACGCCTATATCATCACAATAGTCCATCACCATTATCATGCCTTTAATATCA
1 CCATCACCATTATCACGCCTATATCATCACAATAGTCCATCACCATTATCACGCCTATAATATCA
174048 CCATATTCCATCACCATATCACGCCTATATTATCACCAACTTATAAATTTCCATTTCTTCATCTT
66 CCATATTCCATCACCATATCACGCCTATATTATCACCAACTTATAAATTTCCATTTCTTCATCTT
* *
174113 TGAATTATCCTTCATCCTCAACAAGGCATTCGTCCATCACCACCATTGGAGGTCGAATCCATCAT
131 TGAATTATCCTTCATCCTCAACAAGGCATTCGTCCATCACCACCATTGCAGGCCGAATCCATCAT
*
174178 CACTTGAAGGATCATTCTACAACACTTTCGCAACCCTTCTTTGATAACCATTCTATCCATTTTCA
196 CACTTGAAGGATCATTCTACAACACTTCCGCAACCCTTCTTTGATAACCATTCTATCCA-TTTCA
* *
174243 ATCCTTTCCATTTCCATTTACTTTTCATTTCTTAATTA-TCATATTACTTAATCAATTCTTCTTC
260 A----TT-C-TTTCCATTT-C----C-TTTCTTAATTATTCAT-TTACTTAACCAATTATTCTTC
*
174307 TTTTGTGCAGATTAC-TTTCAATCCAAGGTGTAGCATTTGGTGTCTCT-CTAGATCGGGAAACAA
312 TTTTGTGCAGATTACTTTTCAATCCAAGGCGTAGCATTTGGTGTCTCTCCTAGATC-GGAAACAA
174370 CAAGGTTGCCAACTTCTCCATTATTGAAGAAGCCTGGTTAGCCTTACATCATCCATCTTCCGTTA
376 CAAGGTTGCCAACTTCTCCATTATTGAAGAAGCCTGGTTAGCCTTACATCATCCATCTTCCGTTA
174435 TCACGCCTTATCATCACCATAGC
441 TCACGCCTTATCATCACCATAGC
*
174458 CCATCACCATTATCACGCCTATATCATCACCATAGTCCATCACCATTATCACGCCTAT-ATCATC
1 CCATCACCATTATCACGCCTATATCATCACAATAGTCCATCACCATTATCACGCCTATAAT-ATC
*
174522 ACCATATTCCATCACCATATCACGCCTATATTATCACCAACTTCTAAATTT-CATTTCTTCATCT
65 ACCATATTCCATCACCATATCACGCCTATATTATCACCAACTTATAAATTTCCATTTCTTCATCT
174586 TTGAATTATCCTTCATCCTCAACAAGGCATTCGTCCATCACCACCATTGCAGGCCGAATCCATCA
130 TTGAATTATCCTTCATCCTCAACAAGGCATTCGTCCATCACCACCATTGCAGGCCGAATCCATCA
* *
174651 TCACTTGAAGGATCATTCTACAACACTTCCGCAGCCCTTCTTTGATAACTATTCTATCCATTTCA
195 TCACTTGAAGGATCATTCTACAACACTTCCGCAACCCTTCTTTGATAACCATTCTATCCATTTCA
*
174716 ATTCTTTCCATTTCCTTTCTTAATTATTCATTTACTTAACCAATTATTCTTCTTTTGTGTAGATT
260 ATTCTTTCCATTTCCTTTCTTAATTATTCATTTACTTAACCAATTATTCTTCTTTTGTGCAGATT
*
174781 ACTTTTCAATTCAAGGCGTAGCATTTGGTGTCTCTCCTAGATCGGAAACAACAAGGTTGCCAACT
325 ACTTTTCAATCCAAGGCGTAGCATTTGGTGTCTCTCCTAGATCGGAAACAACAAGGTTGCCAACT
174846 TCTCCATTATTGAAGAAGCCTGGTTAGCCTTACATCA
390 TCTCCATTATTGAAGAAGCCTGGTTAGCCTTACATCA
174883 AGCGGTAATC
Statistics
Matches: 407, Mismatches: 14, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
461 44 0.11
462 94 0.23
463 7 0.02
466 1 0.00
467 9 0.02
468 1 0.00
469 2 0.00
473 6 0.01
474 135 0.33
475 108 0.27
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.35
Consensus pattern (463 bp):
CCATCACCATTATCACGCCTATATCATCACAATAGTCCATCACCATTATCACGCCTATAATATCA
CCATATTCCATCACCATATCACGCCTATATTATCACCAACTTATAAATTTCCATTTCTTCATCTT
TGAATTATCCTTCATCCTCAACAAGGCATTCGTCCATCACCACCATTGCAGGCCGAATCCATCAT
CACTTGAAGGATCATTCTACAACACTTCCGCAACCCTTCTTTGATAACCATTCTATCCATTTCAA
TTCTTTCCATTTCCTTTCTTAATTATTCATTTACTTAACCAATTATTCTTCTTTTGTGCAGATTA
CTTTTCAATCCAAGGCGTAGCATTTGGTGTCTCTCCTAGATCGGAAACAACAAGGTTGCCAACTT
CTCCATTATTGAAGAAGCCTGGTTAGCCTTACATCATCCATCTTCCGTTATCACGCCTTATCATC
ACCATAGC
Found at i:178999 original size:13 final size:11
Alignment explanation
Indices: 178981--179078 Score: 74
Period size: 13 Copynumber: 8.2 Consensus size: 11
178971 ACGCCTATAG
178981 CATCACCATAGT
1 CATCACCATA-T
178993 CCATCACCATTAT
1 -CATCACCA-TAT
*
179006 CATGC-CTATAT
1 CAT-CACCATAT
179017 CATCACCATAGT
1 CATCACCATA-T
179029 CCATCACCATTAT
1 -CATCACCA-TAT
*
179042 CA-CGCCTATAT
1 CATCACC-ATAT
179053 CATCACCATATT
1 CATCACCATA-T
179065 CCATCACCATAT
1 -CATCACCATAT
179077 CA
1 CA
179079 CGCCTATATT
Statistics
Matches: 71, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
10 1 0.01
11 23 0.32
12 14 0.20
13 29 0.41
14 4 0.06
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:179013 original size:36 final size:36
Alignment explanation
Indices: 178944--179095 Score: 234
Period size: 36 Copynumber: 4.2 Consensus size: 36
178934 ATACTATTTC
* * *
178944 CATCACCATAATCCATCTTCCATTATCACGCCTATAG
1 CATCACCATAGTCCATC-ACCATTATCACGCCTATAT
*
178981 CATCACCATAGTCCATCACCATTATCATGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
179017 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
179053 CATCACCATATTCCATCACCA-TATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
179088 TATCACCA
1 CATCACCA
179096 ACTTCTAAAT
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 21 0.19
36 71 0.66
37 16 0.15
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
CATCACCATAGTCCATCACCATTATCACGCCTATAT
Found at i:181038 original size:12 final size:12
Alignment explanation
Indices: 181021--181053 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
181011 TCTTTACTTA
181021 GTTTTATATTAT
1 GTTTTATATTAT
*
181033 GTTTTACA-TAT
1 GTTTTATATTAT
181044 GTTTTATATT
1 GTTTTATATT
181054 CCTTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.64
Consensus pattern (12 bp):
GTTTTATATTAT
Found at i:181947 original size:18 final size:20
Alignment explanation
Indices: 181924--181973 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
181914 CGGCCATGAG
*
181924 CATGTATCTTCA-T-AAAAT
1 CATGTATTTTCATTAAAAAT
181942 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
181962 CATGTATTTTCA
1 CATGTATTTTCA
181974 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 11 0.38
19 1 0.03
20 17 0.59
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:189014 original size:20 final size:20
Alignment explanation
Indices: 188990--189028 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
188980 TTTTCTTTGC
*
188990 TTTTTTTTTGTTATTGTTGGA
1 TTTTTCTTT-TTATTGTTGGA
*
189011 TTTTTCTTTTTGTTGTTG
1 TTTTTCTTTTTATTGTTG
189029 TTGCACGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.05, C:0.03, G:0.18, T:0.74
Consensus pattern (20 bp):
TTTTTCTTTTTATTGTTGGA
Found at i:192869 original size:19 final size:20
Alignment explanation
Indices: 192831--192873 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
192821 GAAACCCCTT
*
192831 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
192851 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
192870 TGAA
1 TGAA
192874 GACAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:198745 original size:15 final size:15
Alignment explanation
Indices: 198710--198738 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
198700 GTGCTTCAAC
198710 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
198724 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
198739 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:198782 original size:24 final size:23
Alignment explanation
Indices: 198731--198788 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
198721 CTTTTCTTTG
*
198731 CTTTTC-TTCTTTTTGAGTGCTGA
1 CTTTTCTTTC-TTTTGAGTGCTCA
*
198754 TTTTTCTTTCTTTTGAGTGCTTCA
1 CTTTTCTTTCTTTTGAGTGC-TCA
*
198778 CTTTTTTTTCT
1 CTTTTCTTTCT
198789 GATTTTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.07, C:0.17, G:0.12, T:0.64
Consensus pattern (23 bp):
CTTTTCTTTCTTTTGAGTGCTCA
Found at i:200739 original size:19 final size:20
Alignment explanation
Indices: 200715--200765 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
200705 CGGCCAAGAG
* *
200715 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
200734 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
200754 CATGTATTTTCA
1 CATGTATTTTCA
200766 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:202697 original size:22 final size:20
Alignment explanation
Indices: 202672--202711 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
202662 ATGTTTGTTT
202672 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
202694 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
202712 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:203718 original size:13 final size:13
Alignment explanation
Indices: 203696--203725 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
203686 ACTAAACACC
203696 TTTC-ACATACCT
1 TTTCAACATACCT
203708 TTTCAACATACCT
1 TTTCAACATACCT
203721 TTTCA
1 TTTCA
203726 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:207883 original size:22 final size:20
Alignment explanation
Indices: 207858--207897 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
207848 ATGTTTGTTT
207858 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
207880 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
207898 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:208325 original size:15 final size:14
Alignment explanation
Indices: 208305--208378 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 14
208295 CTTTGATAAA
*
208305 ATTTCTATCCCTTTC
1 ATTTCTAT-CATTTC
208320 ATTTCTTATCATTTC
1 ATTTC-TATCATTTC
*
208335 ATTTCTTTC-TTTC
1 ATTTCTATCATTTC
*
208348 GTTTCT-T-ATTTCC
1 ATTTCTATCATTT-C
*
208361 ATTT-AATCATTTC
1 ATTTCTATCATTTC
208374 -TTTCT
1 ATTTCT
208379 TTATATTGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
12 7 0.15
13 15 0.32
14 7 0.15
15 15 0.32
16 3 0.06
ACGTcount: A:0.15, C:0.23, G:0.01, T:0.61
Consensus pattern (14 bp):
ATTTCTATCATTTC
Found at i:223388 original size:8 final size:8
Alignment explanation
Indices: 223377--223421 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
223367 TTCTTGTTTT
223377 TTTTCTTC
1 TTTTCTTC
223385 TTTTCTTC
1 TTTTCTTC
223393 TTTTCTTC
1 TTTTCTTC
223401 TTTT-TGTC
1 TTTTCT-TC
223409 TTTTCTTTC
1 TTTTC-TTC
223418 TTTT
1 TTTT
223422 TGCACTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.03
8 26 0.76
9 6 0.18
10 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTTCTTC
Found at i:227405 original size:19 final size:19
Alignment explanation
Indices: 227363--227402 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
227353 TATCCTTTCT
*
227363 TTATTTCATTTCATTCTTA
1 TTATTTCATTTCATTCATA
*
227382 TTATTTCCTTTCATTACATA
1 TTATTTCATTTCATT-CATA
227402 T
1 T
227403 ATTATTATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTTCATTTCATTCATA
Found at i:227416 original size:25 final size:24
Alignment explanation
Indices: 227366--227431 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
227356 CCTTTCTTTA
* * **
227366 TTTCATTTCATTCTTATTATTTCC
1 TTTCATTACATTATTATTATCCCC
227390 TTTCATTACATATATTATTATCCCC
1 TTTCATTACAT-TATTATTATCCCC
* *
227415 TTTTAATTCCATTATTA
1 -TTTCATTACATTATTA
227432 ATCATTCCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 10 0.29
25 15 0.44
26 9 0.26
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTCATTACATTATTATTATCCCC
Found at i:228518 original size:220 final size:212
Alignment explanation
Indices: 228102--228535 Score: 780
Period size: 220 Copynumber: 2.0 Consensus size: 212
228092 AAAGGAAATG
228102 CAGGTTAACTAATTTGCAAATGCAAGCACTGATTGGAGAAATGATGAGAATGTTCAAACATAATT
1 CAGGTTAACTAATTTGCAAATGCAAGCACTGATTGGAGAAATGATGAGAATGTTCAAACATAATT
228167 TGATGCTCCATGAAAAGCTAGATCAAAGACAAGATCAAACACAAACTCGGTATAATGATCCCTCG
66 TGATGCTCCATGAAAAGCTAGATCAAAGACAAGATCAAACACAAACTCGGTATAATGATCCCTCG
228232 GAGGCAACAACCTCTTTAAGAATGATGTCCCAAATCCTTATGATGAAGAAGAACCAGCAATGATA
131 GAGGCAACAACCTCTTTAAGAATGATGTCCCAAATCCTTATGATGAAGAAGAACCAGCAATGATA
228297 CAAGGACCTAGGC-TGC
196 CAAGGACCTAGGCGTGC
228313 CAGGTTAACCTAATTTGCAAATGCAAGCACTGATTGGAGAAATGATGAGAATGTTTCAAACATAA
1 CAGGTTAA-CTAATTTGCAAATGCAAGCACTGATTGGAGAAATGATGAGAATG-TTCAAACATAA
228378 TTTGATGCTCTCCATGAAAAGCTAGATCAAAGACAAGATCAAAACACAAACTCGGTATAATGATA
64 TTTGATG--CTCCATGAAAAGCTAGATCAAAGACAAGATC-AAACACAAACTCGGTATAATGAT-
228443 CTCCTCGGAGGCAACAACCTCTTTAAGAAGATGATGTCCCAAATCCTTATGATGAAGAAGAACCA
125 C-CCTCGGAGGCAACAACCTCTTTAAG-A-ATGATGTCCCAAATCCTTATGATGAAGAAGAACCA
228508 GCAATGATACAAGGACCTAGGCGTGC
187 GCAATGATACAAGGACCTAGGCGTGC
228534 CA
1 CA
228536 ATGTTGATGA
Statistics
Matches: 213, Mismatches: 0, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
211 8 0.04
212 44 0.21
213 18 0.08
215 31 0.15
216 23 0.11
217 1 0.00
218 25 0.12
219 1 0.00
220 57 0.27
221 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (212 bp):
CAGGTTAACTAATTTGCAAATGCAAGCACTGATTGGAGAAATGATGAGAATGTTCAAACATAATT
TGATGCTCCATGAAAAGCTAGATCAAAGACAAGATCAAACACAAACTCGGTATAATGATCCCTCG
GAGGCAACAACCTCTTTAAGAATGATGTCCCAAATCCTTATGATGAAGAAGAACCAGCAATGATA
CAAGGACCTAGGCGTGC
Found at i:229705 original size:34 final size:36
Alignment explanation
Indices: 229623--229717 Score: 151
Period size: 34 Copynumber: 2.7 Consensus size: 36
229613 TGTTGGTGTA
*
229623 ATATAGGCGTGAT-ATGGTGATGGAATATGGTGATG
1 ATATAGGCGTGATAATGGTGATGGACTATGGTGATG
*
229658 ATATAGGCATGATAATGGTGATGGACTAT-GTGAT-
1 ATATAGGCGTGATAATGGTGATGGACTATGGTGATG
229692 ATATAGGCGTGATAATGGTGATGGAC
1 ATATAGGCGTGATAATGGTGATGGAC
229718 AGATTGTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
34 25 0.45
35 17 0.30
36 14 0.25
ACGTcount: A:0.31, C:0.05, G:0.34, T:0.31
Consensus pattern (36 bp):
ATATAGGCGTGATAATGGTGATGGACTATGGTGATG
Found at i:230958 original size:13 final size:13
Alignment explanation
Indices: 230940--230967 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
230930 CATGAATATC
230940 AATCAATGATGCA
1 AATCAATGATGCA
230953 AATCAATGATGCA
1 AATCAATGATGCA
230966 AA
1 AA
230968 CCATAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (13 bp):
AATCAATGATGCA
Found at i:239062 original size:19 final size:20
Alignment explanation
Indices: 239038--239077 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
239028 TATCCTTTCT
239038 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
239057 TTATTTCCTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
239077 T
1 T
239078 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:239713 original size:19 final size:21
Alignment explanation
Indices: 239689--239740 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
239679 CGGCCAAGAG
239689 CATGTATCTTCATT-AAAA-T
1 CATGTATCTTCATTAAAAATT
*
239708 CATGTATTTTCATTAAAAATT
1 CATGTATCTTCATTAAAAATT
*
239729 CATGTATGTTCA
1 CATGTATCTTCA
239741 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (21 bp):
CATGTATCTTCATTAAAAATT
Found at i:241360 original size:19 final size:21
Alignment explanation
Indices: 241336--241376 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
241326 AGAATATATC
241336 TTCATT-A-AAATCAAGTATT
1 TTCATTAATAAATCAAGTATT
*
241355 TTCATTAATAAATCATGTATT
1 TTCATTAATAAATCAAGTATT
241376 T
1 T
241377 CAGAGGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (21 bp):
TTCATTAATAAATCAAGTATT
Found at i:242985 original size:19 final size:19
Alignment explanation
Indices: 242961--243012 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
242951 TGGCCAAGAG
242961 CATGTATCTTT-ATTAAAAT
1 CATGTAT-TTTCATTAAAAT
242980 CATGTATTTTCATTAAAAAAT
1 CATGTATTTTCATT--AAAAT
*
243001 CATCTATTTTCA
1 CATGTATTTTCA
243013 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.10
19 10 0.34
21 16 0.55
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:244635 original size:19 final size:19
Alignment explanation
Indices: 244602--244650 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
244592 CGGCCAAGAG
244602 CATGTATCTTTATT-AAAAT
1 CATGTAT-TTTATTAAAAAT
*
244621 CTTGTATTTTCATTAAAAAT
1 CATGTATTTT-ATTAAAAAT
244641 CATGTATTTT
1 CATGTATTTT
244651 TAAAGGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 9 0.35
20 14 0.54
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (19 bp):
CATGTATTTTATTAAAAAT
Found at i:252947 original size:15 final size:15
Alignment explanation
Indices: 252938--252977 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
252928 TTTCTATCCC
252938 TTTCATTTCTTATCA
1 TTTCATTTCTTATCA
*
252953 TTTCATTTATT-TC-
1 TTTCATTTCTTATCA
252966 TTT-ATTTCTTAT
1 TTTCATTTCTTAT
252978 TTCCATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 2 0.09
15 10 0.45
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTCATTTCTTATCA
Found at i:252998 original size:25 final size:24
Alignment explanation
Indices: 252952--253000 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
252942 ATTTCTTATC
* *
252952 ATTTCATTTATTTCTTTATTTCTT
1 ATTTCATTTAATTATTTATTTCTT
*
252976 ATTTCCATTTAATTATTTCTTTCTT
1 ATTT-CATTTAATTATTTATTTCTT
253001 TATATTGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTCATTTAATTATTTATTTCTT
Found at i:254001 original size:19 final size:20
Alignment explanation
Indices: 253977--254027 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
253967 CGGCCAAGAG
*
253977 CATGTATCTTCATT-AAAAT
1 CATGTATTTTCATTAAAAAT
253996 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
254016 CATGTATTTTCA
1 CATGTATTTTCA
254028 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:265602 original size:10 final size:10
Alignment explanation
Indices: 265589--265633 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
265579 TTTTTGGCTC
265589 TTTTTTTGTT
1 TTTTTTTGTT
**
265599 TTTTTTTGCC
1 TTTTTTTGTT
*
265609 GTTTTTTGTT
1 TTTTTTTGTT
*
265619 ATTTTTTGTT
1 TTTTTTTGTT
265629 TTTTT
1 TTTTT
265634 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.02, C:0.04, G:0.11, T:0.82
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:268611 original size:19 final size:20
Alignment explanation
Indices: 268579--268629 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
268569 CGGCCAATAG
*
268579 CATGTATCTTCATT-AAAAT
1 CATGTATTTTCATTAAAAAT
*
268598 CATTTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
268618 CATGTATTTTCA
1 CATGTATTTTCA
268630 AAGGGGTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:269373 original size:24 final size:24
Alignment explanation
Indices: 269341--269393 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
269331 ACAATTCATG
269341 GAAGTGCTCTTAACTAAGTGTCTT
1 GAAGTGCTCTTAACTAAGTGTCTT
269365 GAAGTGCTCTTAACTAAGTGTCTT
1 GAAGTGCTCTTAACTAAGTGTCTT
269389 GAAGT
1 GAAGT
269394 TTTTGATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (24 bp):
GAAGTGCTCTTAACTAAGTGTCTT
Found at i:274379 original size:11 final size:13
Alignment explanation
Indices: 274347--274376 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
274337 TGGCCAAAGA
274347 TGAAAAGGTATGT
1 TGAAAAGGTATGT
274360 TGAAAAGGTATG-
1 TGAAAAGGTATGT
274372 TGAAA
1 TGAAA
274377 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:296660 original size:22 final size:20
Alignment explanation
Indices: 296635--296674 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
296625 ATGTTTGTTT
296635 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
296657 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
296675 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:298031 original size:13 final size:13
Alignment explanation
Indices: 298009--298038 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
297999 ACTAAACACC
298009 TTTC-ACATACCT
1 TTTCAACATACCT
298021 TTTCAACATACCT
1 TTTCAACATACCT
298034 TTTCA
1 TTTCA
298039 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:302207 original size:22 final size:20
Alignment explanation
Indices: 302182--302221 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
302172 ATGTTTGTTT
302182 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
302204 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
302222 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:309315 original size:2 final size:2
Alignment explanation
Indices: 309308--309354 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
309298 AGTTATTTTC
309308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
309350 AT AT A
1 AT AT A
309355 CCTATAGTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:309316 original size:23 final size:23
Alignment explanation
Indices: 309271--309316 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
309261 TTATACCTAT
*
309271 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
309294 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
309317 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:310677 original size:19 final size:20
Alignment explanation
Indices: 310653--310692 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
310643 TATCTTTTAT
310653 TTATTTCATTTT-ATT-CTTA
1 TTATTT-ATTTTCATTACTTA
310672 TTATTTATTTTCATTACTTA
1 TTATTTATTTTCATTACTTA
310692 T
1 T
310693 ATTATTACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTATTTTCATTACTTA
Found at i:310988 original size:8 final size:8
Alignment explanation
Indices: 310960--311004 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
310950 TTGGAGTGCA
310960 AAAAGAAAG
1 AAAAG-AAG
310969 AAAAGACA-
1 AAAAGA-AG
310977 AAAAGAAG
1 AAAAGAAG
310985 AAAAGAAG
1 AAAAGAAG
310993 AAAAGAAG
1 AAAAGAAG
311001 AAAA
1 AAAA
311005 AAAAAGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.03
8 27 0.79
9 6 0.18
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:311015 original size:8 final size:8
Alignment explanation
Indices: 310959--311009 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
310949 ATTGGAGTGC
310959 AAAAAGAA
1 AAAAAGAA
*
310967 AGAAAAGAC
1 A-AAAAGAA
310976 AAAAAGAA
1 AAAAAGAA
*
310984 GAAAAGAA
1 AAAAAGAA
*
310992 GAAAAGAA
1 AAAAAGAA
311000 GAAAAA-AA
1 -AAAAAGAA
311008 AA
1 AA
311010 GAAAAAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 2 0.05
8 24 0.65
9 11 0.30
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:311015 original size:19 final size:20
Alignment explanation
Indices: 310962--311017 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
310952 GGAGTGCAAA
*
310962 AAGAAAGAAAAGACAAA-AAG
1 AAGAAA-AAAAGAAAAAGAAG
*
310982 AAGAAAAGAAG-AAAAGAAG
1 AAGAAAAAAAGAAAAAGAAG
311001 AA-AAAAAAAGAAAAAGA
1 AAGAAAAAAAGAAAAAGA
311018 TTTCAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.32
19 15 0.48
20 6 0.19
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAGAAAAAGAAG
Found at i:311017 original size:16 final size:16
Alignment explanation
Indices: 310959--311017 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
310949 ATTGGAGTGC
* *
310959 AAAAAGAAAGAAAAGAC
1 AAAAAGAAA-AAAAAAG
*
310976 AAAAAGAAGAAAAGAAG
1 AAAAAGAA-AAAAAAAG
310993 AAAAGAAGAAAAAAAAAG
1 -AAA-AAGAAAAAAAAAG
311011 AAAAAGA
1 AAAAAGA
311018 TTTCAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.11
17 15 0.43
18 11 0.31
19 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:311017 original size:24 final size:27
Alignment explanation
Indices: 310959--311015 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
310949 ATTGGAGTGC
*
310959 AAAAAGAAAGAAAAGACAAAAAGAAGA
1 AAAAAGAAAGAAAAGACAAAAAAAAGA
*
310986 AAAGAAGAAA-AGAAGA-AAAAAAAAGA
1 AAA-AAGAAAGAAAAGACAAAAAAAAGA
311012 AAAA
1 AAAA
311016 GATTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 12 0.44
27 8 0.30
28 6 0.22
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAGAAAAGACAAAAAAAAGA
Found at i:313926 original size:2 final size:2
Alignment explanation
Indices: 313919--313958 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
313909 AGTTATTTTC
*
313919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
313959 GTTATTATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:313927 original size:23 final size:23
Alignment explanation
Indices: 313882--313927 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
313872 TTATACCTAT
*
313882 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
313905 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
313928 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:315584 original size:8 final size:8
Alignment explanation
Indices: 315556--315600 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
315546 TTGGAGTGCA
315556 AAAAGAAAG
1 AAAAG-AAG
315565 AAAAGACA-
1 AAAAGA-AG
315573 AAAAGAAG
1 AAAAGAAG
315581 AAAAGAAG
1 AAAAGAAG
315589 AAAAGAAG
1 AAAAGAAG
315597 AAAA
1 AAAA
315601 AAAAAGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.03
8 27 0.79
9 6 0.18
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:315611 original size:19 final size:20
Alignment explanation
Indices: 315558--315613 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
315548 GGAGTGCAAA
*
315558 AAGAAAGAAAAGACAAA-AAG
1 AAGAAA-AAAAGAAAAAGAAG
*
315578 AAGAAAAGAAG-AAAAGAAG
1 AAGAAAAAAAGAAAAAGAAG
315597 AA-AAAAAAAGAAAAAGA
1 AAGAAAAAAAGAAAAAGA
315614 TTTCAAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.32
19 15 0.48
20 6 0.19
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAGAAAAAGAAG
Found at i:315613 original size:16 final size:16
Alignment explanation
Indices: 315555--315613 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
315545 ATTGGAGTGC
* *
315555 AAAAAGAAAGAAAAGAC
1 AAAAAGAAA-AAAAAAG
*
315572 AAAAAGAAGAAAAGAAG
1 AAAAAGAA-AAAAAAAG
315589 AAAAGAAGAAAAAAAAAG
1 -AAA-AAGAAAAAAAAAG
315607 AAAAAGA
1 AAAAAGA
315614 TTTCAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.11
17 15 0.43
18 11 0.31
19 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:315613 original size:24 final size:27
Alignment explanation
Indices: 315555--315611 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
315545 ATTGGAGTGC
*
315555 AAAAAGAAAGAAAAGACAAAAAGAAGA
1 AAAAAGAAAGAAAAGACAAAAAAAAGA
*
315582 AAAGAAGAAA-AGAAGA-AAAAAAAAGA
1 AAA-AAGAAAGAAAAGACAAAAAAAAGA
315608 AAAA
1 AAAA
315612 GATTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 12 0.44
27 8 0.30
28 6 0.22
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAGAAAAGACAAAAAAAAGA
Found at i:315629 original size:8 final size:8
Alignment explanation
Indices: 315555--315605 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
315545 ATTGGAGTGC
315555 AAAAAGAA
1 AAAAAGAA
*
315563 AGAAAAGAC
1 A-AAAAGAA
315572 AAAAAGAA
1 AAAAAGAA
*
315580 GAAAAGAA
1 AAAAAGAA
*
315588 GAAAAGAA
1 AAAAAGAA
315596 GAAAAA-AA
1 -AAAAAGAA
315604 AA
1 AA
315606 GAAAAAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 2 0.05
8 24 0.65
9 11 0.30
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:318513 original size:23 final size:23
Alignment explanation
Indices: 318477--318520 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
318467 TCTTTATACC
318477 TATAAATACTTA-TTTCATATGT
1 TATAAATACTTATTTTCATATGT
*
318499 TATAAGATAGTTATTTTCATAT
1 TATAA-ATACTTATTTTCATAT
318521 ATATATATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (23 bp):
TATAAATACTTATTTTCATATGT
Found at i:318525 original size:23 final size:22
Alignment explanation
Indices: 318477--318533 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
318467 TCTTTATACC
*
318477 TATAAATACTTATTTCATATGT
1 TATAAATACTTATTTCATATGA
*
318499 TATAAGATAGTTATTTTCATAT-A
1 TATAA-ATACTTA-TTTCATATGA
*
318522 TATATAT-CTTAT
1 TATAAATACTTAT
318534 ACCTATAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 3 0.10
22 7 0.24
23 10 0.34
24 8 0.28
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATAAATACTTATTTCATATGA
Found at i:327137 original size:19 final size:21
Alignment explanation
Indices: 327113--327164 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
327103 CGGCCAAGAG
*
327113 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
327132 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
327153 CATGTATTTTCA
1 CATGTATTTTCA
327165 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:331240 original size:19 final size:21
Alignment explanation
Indices: 331216--331267 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
331206 CGGCCAAGAG
*
331216 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
331235 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
331256 CATGTATTTTCA
1 CATGTATTTTCA
331268 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:331704 original size:19 final size:20
Alignment explanation
Indices: 331680--331719 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
331670 ATCTTTTTAT
331680 TTATTTAATTTCATT-CTTA
1 TTATTTAATTTCATTACTTA
*
331699 TTATTTATTTTCATTACTTA
1 TTATTTAATTTCATTACTTA
331719 T
1 T
331720 ATTATTACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTAATTTCATTACTTA
Found at i:332876 original size:22 final size:24
Alignment explanation
Indices: 332849--332901 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
332839 AAAATCAGCA
*
332849 AAGAAA-TTGAAGCACTC-AAAAG
1 AAGAAATTTCAAGCACTCAAAAAG
332871 AAGAAAATTTCAAGCACTCAAAAAG
1 AAG-AAATTTCAAGCACTCAAAAAG
332896 AAGAAA
1 AAGAAA
332902 AAGAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 3 0.11
23 3 0.11
24 13 0.48
25 8 0.30
ACGTcount: A:0.58, C:0.13, G:0.15, T:0.13
Consensus pattern (24 bp):
AAGAAATTTCAAGCACTCAAAAAG
Found at i:332910 original size:14 final size:14
Alignment explanation
Indices: 332891--332923 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
332881 CAAGCACTCA
332891 AAAAGAAGAA-AAAG
1 AAAAGAA-AAGAAAG
332905 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
332919 AAAAG
1 AAAAG
332924 TTGAAAGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Done.