Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005578.1 Hibiscus syriacus cultivar Beakdansim tig00012941_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: 164771
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2405 original size:30 final size:30
Alignment explanation
Indices: 2360--2416 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
2350 AAGTGGCTTG
2360 ATTGACAACAATTAAATAGATAGGTGGTCTA
1 ATTGACAACAATTAAA-AGATAGGTGGTCTA
2391 ATTGACAA-AATTAAAAGATAGGTGGT
1 ATTGACAACAATTAAAAGATAGGTGGT
2417 AAAAGCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.42
30 7 0.27
31 8 0.31
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (30 bp):
ATTGACAACAATTAAAAGATAGGTGGTCTA
Found at i:8703 original size:28 final size:26
Alignment explanation
Indices: 8666--8719 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
8656 GAGAAATATT
* *
8666 TTTAAGATAATATACATATATAATTTTA
1 TTTAAAATAATATA-A-ATAAAATTTTA
8694 TTTAAAATAATATAAATAAAATTTTA
1 TTTAAAATAATATAAATAAAATTTTA
8720 GAGTAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 1 0.04
28 13 0.54
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TTTAAAATAATATAAATAAAATTTTA
Found at i:14928 original size:14 final size:14
Alignment explanation
Indices: 14906--14936 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14896 GTGACATAAA
*
14906 ATATGGAACAAGAT
1 ATATAGAACAAGAT
14920 ATATAGAACAAGAT
1 ATATAGAACAAGAT
14934 ATA
1 ATA
14937 AATTACCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.23
Consensus pattern (14 bp):
ATATAGAACAAGAT
Found at i:16031 original size:23 final size:23
Alignment explanation
Indices: 15999--16065 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
15989 TTATTATATG
15999 GCACTACGGTGCAATTCTACGCA
1 GCACTACGGTGCAATTCTACGCA
* * **
16022 GCACTCCGGTACAATTCTACGTG
1 GCACTACGGTGCAATTCTACGCA
* *
16045 GCACTTCGGTGCAATTATACG
1 GCACTACGGTGCAATTCTACG
16066 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (23 bp):
GCACTACGGTGCAATTCTACGCA
Found at i:18094 original size:31 final size:31
Alignment explanation
Indices: 18011--18113 Score: 109
Period size: 31 Copynumber: 3.3 Consensus size: 31
18001 GAGTGTTTAT
* *
18011 CTATGTTCTATGGAATATATGGACAGAATTAC
1 CTATGTTCTAAGGAATATATGGACAGTA-TAC
** *
18043 CTATG-TCTTTCGGGATATATGGACAGTATAC
1 CTATGTTC-TAAGGAATATATGGACAGTATAC
* *
18074 CTATGTTCTAAGGAACATATGGACAGTTTAC
1 CTATGTTCTAAGGAATATATGGACAGTATAC
*
18105 CTAGGTTCT
1 CTATGTTCT
18114 TTGGGACCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
31 36 0.61
32 23 0.39
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (31 bp):
CTATGTTCTAAGGAATATATGGACAGTATAC
Found at i:18126 original size:31 final size:31
Alignment explanation
Indices: 18027--18145 Score: 100
Period size: 31 Copynumber: 3.8 Consensus size: 31
18017 TCTATGGAAT
* *
18027 ATATGGACAGAATTACCTATG-TCTTTCGGGAT
1 ATATGGACAG-ATTACCTAGGTTCTTT-GGGAC
* ** *
18059 ATATGGACAG-TATACCTATGTTCTAAGGAAC
1 ATATGGACAGAT-TACCTAGGTTCTTTGGGAC
*
18090 ATATGGACAGTTTACCTAGGTTCTTTGGGAC
1 ATATGGACAGATTACCTAGGTTCTTTGGGAC
* * *
18121 CTATGGATA-ATTACCGAGGTTCTTT
1 ATATGGACAGATTACCTAGGTTCTTT
18146 ATGACCTCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
30 15 0.21
31 43 0.60
32 14 0.19
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (31 bp):
ATATGGACAGATTACCTAGGTTCTTTGGGAC
Found at i:18141 original size:30 final size:30
Alignment explanation
Indices: 18101--18159 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
18091 TATGGACAGT
* *
18101 TTACCTAGGTTCTTTGGGACCTATGGATAA
1 TTACCGAGGTTCTTTAGGACCTATGGATAA
* *
18131 TTACCGAGGTTCTTTATGACCTCTGGATA
1 TTACCGAGGTTCTTTAGGACCTATGGATA
18160 GGTCCTTCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (30 bp):
TTACCGAGGTTCTTTAGGACCTATGGATAA
Found at i:18281 original size:10 final size:10
Alignment explanation
Indices: 18266--18330 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
18256 CTGTTCACGG
18266 TACTGTTCAT
1 TACTGTTCAT
*
18276 TACTGTTAACAA
1 TACTGTT--CAT
*
18288 TATTGTTCAT
1 TACTGTTCAT
* *
18298 TATTGTTAACAG
1 TACTGTT--CAT
18310 TACTGTTCAT
1 TACTGTTCAT
18320 TACTGTTCAT
1 TACTGTTCAT
18330 T
1 T
18331 CATAAAACGT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 29 0.64
12 16 0.36
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (10 bp):
TACTGTTCAT
Found at i:18294 original size:22 final size:22
Alignment explanation
Indices: 18266--18326 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
18256 CTGTTCACGG
18266 TACTGTTCATTACTGTTAACAA
1 TACTGTTCATTACTGTTAACAA
* * *
18288 TATTGTTCATTATTGTTAACAG
1 TACTGTTCATTACTGTTAACAA
18310 TACTGTTCATTACTGTT
1 TACTGTTCATTACTGTT
18327 CATTCATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (22 bp):
TACTGTTCATTACTGTTAACAA
Found at i:18727 original size:32 final size:32
Alignment explanation
Indices: 18665--18749 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 32
18655 CGAAGTGATG
* * *
18665 ACATAACACATATCACATCACTTAATATAATA
1 ACATAATATATATCACATCACTTAAGATAATA
* * *
18697 ATATAATATATATCACATCA-TCTAGGATAATG
1 ACATAATATATATCACATCACT-TAAGATAATA
* *
18729 ACATAATATATGTCATATCAC
1 ACATAATATATATCACATCAC
18750 CTAATGGGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
31 1 0.02
32 41 0.98
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.32
Consensus pattern (32 bp):
ACATAATATATATCACATCACTTAAGATAATA
Found at i:25136 original size:15 final size:15
Alignment explanation
Indices: 25116--25147 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25106 TTAGCTGGGT
*
25116 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
25131 GGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
25146 GG
1 GG
25148 ATAATGTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.16, G:0.69, T:0.09
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:26429 original size:162 final size:163
Alignment explanation
Indices: 26238--26562 Score: 571
Period size: 163 Copynumber: 2.0 Consensus size: 163
26228 GCAATCGTCC
26238 CTATCACGGTTAATCTACATTCACTTGTTGATTCATTTGAGCGGATGACAACATCAGCCTTGGCG
1 CTATCACGGTTAATCTACATTCACTTGTTGATTCATTTGAGCGGATGACAACATCAGCCTTGGCG
* *
26303 GCAC-GGGACTGTCCTGGCTTAGATATCAATCATACTGAATGAAATCAGCCAGTTTGGAAATTAG
66 GCACGGGGACTGTCCTGGCTTAGATATCAATCATACTGAATGAAATCAACCAGGTTGGAAATTAG
26367 TTATGATTCAAAAGAATCAACATCCTGATGCAT
131 TTATGATTCAAAAGAATCAACATCCTGATGCAT
* *
26400 CTATCACGGTTAATCTACATTCGCTTGTTGATTCGTTTGAGCGGATGACAACATCAGCCTTGGCG
1 CTATCACGGTTAATCTACATTCACTTGTTGATTCATTTGAGCGGATGACAACATCAGCCTTGGCG
*
26465 GCACGGGGACTGTTCTGGCTTAGATATCAATCATACTGAATGAAATCAACCAGGTTGGAAATTAG
66 GCACGGGGACTGTCCTGGCTTAGATATCAATCATACTGAATGAAATCAACCAGGTTGGAAATTAG
* * *
26530 TTCTGATTCGAAAGAATCGACATCCTGATGCAT
131 TTATGATTCAAAAGAATCAACATCCTGATGCAT
26563 GTCTCGGTAA
Statistics
Matches: 154, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 67 0.44
163 87 0.56
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (163 bp):
CTATCACGGTTAATCTACATTCACTTGTTGATTCATTTGAGCGGATGACAACATCAGCCTTGGCG
GCACGGGGACTGTCCTGGCTTAGATATCAATCATACTGAATGAAATCAACCAGGTTGGAAATTAG
TTATGATTCAAAAGAATCAACATCCTGATGCAT
Found at i:40276 original size:30 final size:29
Alignment explanation
Indices: 40219--40315 Score: 171
Period size: 30 Copynumber: 3.4 Consensus size: 29
40209 GATCAGATCC
40219 AATTAAGTCCCTAAAGTTCTATTTTTTTT
1 AATTAAGTCCCTAAAGTTCTATTTTTTTT
40248 AATTAAGTCCCTAAAGTTCTATTTTTTTTT
1 AATTAAGTCCCTAAAGTTCTA-TTTTTTTT
40278 AATTAAGTCCCTAAAGTTCTA--TTTTTT
1 AATTAAGTCCCTAAAGTTCTATTTTTTTT
40305 AATTAAGTCCC
1 AATTAAGTCCC
40316 CAAAATTCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
27 17 0.25
29 21 0.31
30 29 0.43
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.48
Consensus pattern (29 bp):
AATTAAGTCCCTAAAGTTCTATTTTTTTT
Found at i:41775 original size:29 final size:29
Alignment explanation
Indices: 41741--41797 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
41731 AACGTATGTC
41741 TTTCGTTCGAGTTT-AGTACCTAACGTTTG
1 TTTCGTTCGAGTTTGA-TACCTAACGTTTG
* *
41770 TTTCGTTCTAGTTTGATGCCTAACGTTT
1 TTTCGTTCGAGTTTGATACCTAACGTTT
41798 CATTTCGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.16, C:0.18, G:0.19, T:0.47
Consensus pattern (29 bp):
TTTCGTTCGAGTTTGATACCTAACGTTTG
Found at i:41907 original size:2 final size:2
Alignment explanation
Indices: 41902--41926 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41892 AATTTAAAAT
41902 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 T
41927 TAAAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42340 original size:2 final size:2
Alignment explanation
Indices: 42333--42361 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42323 GTGTTTTCTT
42333 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42362 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42595 original size:31 final size:31
Alignment explanation
Indices: 42557--42634 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
42547 TATTTAACCC
*
42557 TTAAATAAAAATGAAAATGAACACGTCTTAG
1 TTAAATAAAAATGAAAATGAACACATCTTAG
* **
42588 TTAAATAAAAATGAAAGTGGCCACATCTTAG
1 TTAAATAAAAATGAAAATGAACACATCTTAG
42619 TTAAATAAAAAT-AAAA
1 TTAAATAAAAATGAAAA
42635 GTGACCATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 3 0.07
31 39 0.93
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.26
Consensus pattern (31 bp):
TTAAATAAAAATGAAAATGAACACATCTTAG
Found at i:48272 original size:20 final size:20
Alignment explanation
Indices: 48243--48281 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48233 TAATCTTATT
48243 CACTGATAATCTTACATTCA
1 CACTGATAATCTTACATTCA
*
48263 CACTGGTAATCTTACATTC
1 CACTGATAATCTTACATTC
48282 CGTGAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (20 bp):
CACTGATAATCTTACATTCA
Found at i:52105 original size:20 final size:21
Alignment explanation
Indices: 52035--52106 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
52025 ATACCCTTCT
52035 ATATATTATTTTTTTCAATTAA
1 ATATATTATTTTTTTCAA-TAA
* *
52057 ATAT-TTATTTTTTATTGAAGAA
1 ATATATTA-TTTTT-TTCAATAA
52079 A-A-A-TATTTTTTT-AATAA
1 ATATATTATTTTTTTCAATAA
52096 ATATATTATTT
1 ATATATTATTT
52107 CAGGTCGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
17 5 0.12
18 3 0.07
19 6 0.15
20 7 0.17
21 4 0.10
22 12 0.29
23 4 0.10
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (21 bp):
ATATATTATTTTTTTCAATAA
Found at i:60542 original size:25 final size:27
Alignment explanation
Indices: 60507--60557 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
60497 TTGAAAATCC
*
60507 AGAATCGGAGTA-TAATTTCAAAGTGT
1 AGAATCGGAGTAGTAATTGCAAAGTGT
60533 AGAATC-GAGTAGTAATTGCAAAGTG
1 AGAATCGGAGTAGTAATTGCAAAGTG
60558 ATTGATCTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (27 bp):
AGAATCGGAGTAGTAATTGCAAAGTGT
Found at i:65774 original size:17 final size:18
Alignment explanation
Indices: 65754--65792 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65744 TAAGTTTTAT
*
65754 ATAAAATTT-CAATTCTA
1 ATAAAATTTAAAATTCTA
*
65771 ATAAATTTTAAAATTCTA
1 ATAAAATTTAAAATTCTA
65789 ATAA
1 ATAA
65793 TAAAGTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAATTTAAAATTCTA
Found at i:70950 original size:11 final size:11
Alignment explanation
Indices: 70936--70960 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70926 TGTACGTTTT
70936 TATTTATTTAA
1 TATTTATTTAA
70947 TATTTATTTAA
1 TATTTATTTAA
70958 TAT
1 TAT
70961 ATTTTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:71365 original size:77 final size:77
Alignment explanation
Indices: 71253--71403 Score: 232
Period size: 77 Copynumber: 2.0 Consensus size: 77
71243 CAACCCATCA
* * *
71253 ATTCAAGTTGAAGCCCAATTCCGGGGCCCACCCGAAAGACGGTCGCGACAGCTTGGCGACTCCAC
1 ATTCAAGTCGAAGCCCAATTCCCGGGCCCAACCGAAAGACGGTCGCGACAGCTTGGCGACTCCAC
71318 TGGGAATCATTC
66 TGGGAATCATTC
* *
71330 ATTCAAGTCGAAGCCCACA-TCCCGGGTCCAACCGAAAGATGGTCGCGACAGCTTGGCGACTCCA
1 ATTCAAGTCGAAGCCCA-ATTCCCGGGCCCAACCGAAAGACGGTCGCGACAGCTTGGCGACTCCA
*
71394 CTGGGGATCA
65 CTGGGAATCA
71404 GGTAAGTGAG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 66 0.99
78 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.17
Consensus pattern (77 bp):
ATTCAAGTCGAAGCCCAATTCCCGGGCCCAACCGAAAGACGGTCGCGACAGCTTGGCGACTCCAC
TGGGAATCATTC
Found at i:72235 original size:16 final size:16
Alignment explanation
Indices: 72216--72256 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
72206 CATTAATGGA
*
72216 CAAAGGGATTATAATC
1 CAAAGAGATTATAATC
72232 CAAAGAGATTATAATC
1 CAAAGAGATTATAATC
72248 CAAAGAGAT
1 CAAAGAGAT
72257 AAAAAGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (16 bp):
CAAAGAGATTATAATC
Found at i:74971 original size:106 final size:106
Alignment explanation
Indices: 74786--75538 Score: 1256
Period size: 106 Copynumber: 7.1 Consensus size: 106
74776 ACCATGAGCA
*
74786 CGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
74851 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
66 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
*
74892 CGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
*
74957 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
66 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
*
74998 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
75063 TAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
*
75104 CGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
75169 CAAACAA-TTTTCCAAATTCAGAGCCAATTTCAACTTCACAG
66 CAAACAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACAG
* *
75210 CGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * *
75275 TAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCATAG
66 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
*
75316 AGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * *
75381 CAAATAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAA
66 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
*
75422 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * * * * *
75487 TAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGG
66 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
*
75528 CGGAGGATATT
1 CGAAGGATATT
75539 AGACCTGGAA
Statistics
Matches: 604, Mismatches: 41, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
105 2 0.00
106 600 0.99
107 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
Found at i:75994 original size:15 final size:16
Alignment explanation
Indices: 75974--76006 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
75964 AAGTTTTGTC
*
75974 TCTCTTGAGAC-AGTT
1 TCTCTTGAAACAAGTT
75989 TCTCTTGAAACAAGTT
1 TCTCTTGAAACAAGTT
76005 TC
1 TC
76007 GTCTCTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (16 bp):
TCTCTTGAAACAAGTT
Found at i:76035 original size:36 final size:36
Alignment explanation
Indices: 75914--76037 Score: 194
Period size: 36 Copynumber: 3.4 Consensus size: 36
75904 ATTGAAAACA
* * *
75914 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAGTTTCGTCTCTCTTGAGACAG
*
75950 TTTCCCTTGAAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAGTTTCGTCTCTCTTGAGACAG
*
75987 TTTCTCTTGAAACAAGTTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAGTTTCGTCTCTCTTGAGACAG
76023 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
76038 AATCTTTGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
36 48 0.60
37 32 0.40
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAGTTTCGTCTCTCTTGAGACAG
Found at i:76090 original size:138 final size:139
Alignment explanation
Indices: 75839--76100 Score: 321
Period size: 138 Copynumber: 1.9 Consensus size: 139
75829 ACAAAAACTT
* * * *
75839 TTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTATCTTGAAACATATAT
1 TTGAGACAGTTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTACCTTGAAACATAAAT
* * * * * *
75904 ATTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACTAAGTT
66 ATTGAAAACATTTCCCCTAAAACAAATTTCGTCTCCCTTGAAACAGTTTCCCTTGAAACTAAGTT
75969 TTGTCTCTC
131 TTGTCTCTC
* * * *
75978 TTGAGACAGTTTCTCTTGAAAC-AAGTTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAT
1 TTGAGACAGTTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTACCTTGAAACATAAAT
* *** * *
76041 CTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAAACAGTTTCTCTTGAAAC
66 -ATTGAAAACATTTCCCCTAAAACAAATTTCGTCTCCCTTGAAACAGTTTCCCTTGAAAC
76101 ACAAAATCTT
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
137 3 0.03
138 79 0.77
139 20 0.20
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (139 bp):
TTGAGACAGTTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTACCTTGAAACATAAAT
ATTGAAAACATTTCCCCTAAAACAAATTTCGTCTCCCTTGAAACAGTTTCCCTTGAAACTAAGTT
TTGTCTCTC
Found at i:76100 original size:65 final size:65
Alignment explanation
Indices: 75996--76170 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
75986 GTTTCTCTTG
* * * * *
75996 AAACAAGTTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCGAATTTATTTCCCCTA
* *
76061 AAACAAATTTTGTCTCCCTTGAAACAGTTTCTCTTGAAACACAAAATCTTCGAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCGAATTTATTTCCCC
76126 TA
64 TA
* * * *
76128 AAACAAAATTTTGTTTCCCTTGAGACCGTTTCTCATAAAACAA
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
76171 CAGATACCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 31 0.33
66 6 0.06
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCGAATTTATTTCCCCTA
Found at i:77711 original size:11 final size:11
Alignment explanation
Indices: 77697--77721 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77687 TGTACGTTTT
77697 TATTTATTTAA
1 TATTTATTTAA
77708 TATTTATTTAA
1 TATTTATTTAA
77719 TAT
1 TAT
77722 ATTTTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:78302 original size:24 final size:24
Alignment explanation
Indices: 78257--78304 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
78247 AAAATTATAT
* *
78257 TAAAATTTTAAGAATATAAAATTA
1 TAAAATCTTAAGAATACAAAATTA
*
78281 TAAAATCTTAAGAATACGAAATTA
1 TAAAATCTTAAGAATACAAAATTA
78305 AATAATTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (24 bp):
TAAAATCTTAAGAATACAAAATTA
Found at i:83246 original size:21 final size:21
Alignment explanation
Indices: 83220--83274 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
83210 GATTTACATA
83220 TTCGCGATGCGATAGTCGAAG
1 TTCGCGATGCGATAGTCGAAG
*
83241 TTCGCGAAGCGATAGTCGAAG
1 TTCGCGATGCGATAGTCGAAG
* *
83262 TTTGCGTTGCGAT
1 TTCGCGATGCGAT
83275 TTATTCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (21 bp):
TTCGCGATGCGATAGTCGAAG
Found at i:83290 original size:21 final size:22
Alignment explanation
Indices: 83266--83365 Score: 95
Period size: 21 Copynumber: 4.7 Consensus size: 22
83256 TCGAAGTTTG
83266 CGTTGCGATTTATTCCAAATT-
1 CGTTGCGATTTATTCCAAATTC
* *
83287 CGTTGCGA--TAGTCCAAGTTC
1 CGTTGCGATTTATTCCAAATTC
83307 GCGTTGCGATTTATTCCAAATT-
1 -CGTTGCGATTTATTCCAAATTC
* * *
83329 CATTGCGA--TAGTCCAAGTTC
1 CGTTGCGATTTATTCCAAATTC
83349 GCGTTGCGATTTATTCC
1 -CGTTGCGATTTATTCC
83366 TCGTTGCGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
19 18 0.29
21 30 0.48
23 14 0.23
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (22 bp):
CGTTGCGATTTATTCCAAATTC
Found at i:83295 original size:42 final size:42
Alignment explanation
Indices: 83249--83365 Score: 207
Period size: 42 Copynumber: 2.8 Consensus size: 42
83239 AGTTCGCGAA
* * *
83249 GCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCGTT
1 GCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCATT
83291 GCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCATT
1 GCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCATT
83333 GCGATAGTCCAAGTTCGCGTTGCGATTTATTCC
1 GCGATAGTCCAAGTTCGCGTTGCGATTTATTCC
83366 TCGTTGCGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (42 bp):
GCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCATT
Found at i:84103 original size:21 final size:21
Alignment explanation
Indices: 84079--84152 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
84069 TTTGGAATAA
84079 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
84100 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
84119 ATCGCAACGCGAACTTTGACT
1 ATCGCAACGCGAACTTCGACT
*
84140 ATCGCAATGCGAA
1 ATCGCAACGCGAA
84153 TATGTAAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
19 15 0.36
21 27 0.64
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:84235 original size:21 final size:21
Alignment explanation
Indices: 84209--84263 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
84199 AATTTGGAAA
*
84209 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
84230 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
84251 ATCGCAATGCGAA
1 ATCGCAATGCGAA
84264 TATATAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:84255 original size:111 final size:111
Alignment explanation
Indices: 84119--84414 Score: 502
Period size: 111 Copynumber: 2.7 Consensus size: 111
84109 AATTTGGAAA
* *
84119 ATCGCAACGCGAACTTTGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
* *
84184 GCGTTGCGATAGTTGAATTTGGAAAATCGCAACGCGAACTTCGACT
66 GCGTTGCGATAGTCGAATTTGGAAAATCGCAACGCAAACTTCGACT
* * * *
84230 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAAATCGTAATGCGATAATAGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
* *
84295 GCTTTGCGATAGTCGAATTTGGAAAATCGCAACGCAAACTTGGACT
66 GCGTTGCGATAGTCGAATTTGGAAAATCGCAACGCAAACTTCGACT
84341 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
84406 GCGTTGCGA
66 GCGTTGCGA
84415 ATTTGAAAAC
Statistics
Matches: 170, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 170 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (111 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
GCGTTGCGATAGTCGAATTTGGAAAATCGCAACGCAAACTTCGACT
Found at i:84282 original size:90 final size:90
Alignment explanation
Indices: 84108--84284 Score: 225
Period size: 90 Copynumber: 2.0 Consensus size: 90
84098 CTATCGCAAC
* *
84108 GAATTTGGAAAATCGCAACGCGAACTTTGACTATCGCAATGCGAATATGTAAATCGCAATGCGAT
1 GAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGGAAATCGCAATGCGAT
* * **
84173 AGTCGAAGTTCGCGTTGCGATAGTT
66 AGTAGAAGATCGCAATGCGATAGTT
*
84198 GAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCG
1 GAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAA-TATGGA-AATCGCAATGCG
* *
84262 AATA-TATAA-ATCGTAATGCGATA
64 -ATAGTAGAAGATCGCAATGCGATA
84285 ATAGAAGTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 57 0.76
91 15 0.20
92 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (90 bp):
GAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGGAAATCGCAATGCGAT
AGTAGAAGATCGCAATGCGATAGTT
Found at i:84369 original size:21 final size:21
Alignment explanation
Indices: 84320--84374 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
84310 AATTTGGAAA
* *
84320 ATCGCAACGCAAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
84341 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
84362 ATCGCAATGCGAA
1 ATCGCAATGCGAA
84375 TATGTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAATGCGAACTTGGACT
Found at i:85378 original size:24 final size:24
Alignment explanation
Indices: 85346--85395 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
85336 ATTTTTTAGA
*
85346 TTTTTAATA-GTGTTTTTAATAAAT
1 TTTTTAATATGTGATTTTAA-AAAT
*
85370 TTTTTAATATTTGATTTTAAAAAT
1 TTTTTAATATGTGATTTTAAAAAT
85394 TT
1 TT
85396 AAAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTTAATATGTGATTTTAAAAAT
Found at i:104253 original size:63 final size:60
Alignment explanation
Indices: 104186--104314 Score: 136
Period size: 63 Copynumber: 2.1 Consensus size: 60
104176 AGGCATTTAT
* *
104186 TATCTTTTTAACACTGAAT-ATTAAAGATAATTATATACTTTT-ATATATTTCAAATTAAAATAA
1 TATCTATTTAACACTGAATGA-TAAAAATAATT-TAT-CTTTTGA-ATATTTCAAATTAAAAT-A
*** * *
104249 TATCTATTTAAGTTTGAATGATAAAAATAGTTTATCTTTTGAGTATTTCAAATTAAAATA
1 TATCTATTTAACACTGAATGATAAAAATAATTTATCTTTTGAATATTTCAAATTAAAATA
104309 TATCTA
1 TATCTA
104315 CAACATCCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
60 7 0.12
61 21 0.37
62 4 0.07
63 24 0.42
64 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (60 bp):
TATCTATTTAACACTGAATGATAAAAATAATTTATCTTTTGAATATTTCAAATTAAAATA
Found at i:104775 original size:48 final size:49
Alignment explanation
Indices: 104703--104804 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 49
104693 ACTAATCTAG
*
104703 AGCAGCATAACAATTTCATAAGCACAAGCATGATGAAGACATGATACTA
1 AGCAGCATAACAATATCATAAGCACAAGCATGATGAAGACATGATACTA
*
104752 AGCAG-ATAAGAATATCATAAGCACAAGCATGATGAAGACATGATACTA
1 AGCAGCATAACAATATCATAAGCACAAGCATGATGAAGACATGATACTA
104800 AGCAG
1 AGCAG
104805 TAGGTACATA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 46 0.90
49 5 0.10
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (49 bp):
AGCAGCATAACAATATCATAAGCACAAGCATGATGAAGACATGATACTA
Found at i:113132 original size:24 final size:24
Alignment explanation
Indices: 113105--113166 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
113095 CGTTCGTGAA
*
113105 CGTTCGGTTATGTTCGTTTATATG
1 CGTTCAGTTATGTTCGTTTATATG
* *
113129 CGTTTAGTTATGTTCGTTTATGTG
1 CGTTCAGTTATGTTCGTTTATATG
*
113153 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
113167 TAACCTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.13, C:0.11, G:0.23, T:0.53
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATATG
Found at i:114661 original size:10 final size:10
Alignment explanation
Indices: 114646--114720 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
114636 GGGTCTCCAA
114646 CGTTTATGTT
1 CGTTTATGTT
114656 CGTTTATGTT
1 CGTTTATGTT
114666 CG----TGTT
1 CGTTTATGTT
*
114672 CATTTATGTT
1 CGTTTATGTT
*
114682 CGTGTT-CGTTT
1 CGT-TTATG-TT
* *
114693 ATGTTTGTGTT
1 -CGTTTATGTT
114704 CGTTTATGTT
1 CGTTTATGTT
114714 CGTTTAT
1 CGTTTAT
114721 TTATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 5 0.10
10 34 0.68
11 8 0.16
12 3 0.06
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.59
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:114677 original size:16 final size:16
Alignment explanation
Indices: 114652--114716 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
114642 CCAACGTTTA
114652 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
114668 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
114684 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
114700 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
114716 T
1 T
114717 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:114808 original size:16 final size:16
Alignment explanation
Indices: 114787--114818 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
114777 AAAAAAATTT
114787 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
114803 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
114819 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:115633 original size:2 final size:2
Alignment explanation
Indices: 115626--115650 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
115616 TTGTTATTGT
115626 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 T
115651 TGCTAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118285 original size:10 final size:10
Alignment explanation
Indices: 118270--118295 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
118260 ATAGAAAGAC
118270 ACTTTTCAGA
1 ACTTTTCAGA
118280 ACTTTTCAGA
1 ACTTTTCAGA
118290 ACTTTT
1 ACTTTT
118296 ATATTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (10 bp):
ACTTTTCAGA
Found at i:119798 original size:36 final size:36
Alignment explanation
Indices: 119756--119858 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
119746 ACGGTGCTGG
119756 ACATTGATACACGAATGTACCAAAGCTGATAGGAAA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGAAA
* * *
119792 ATATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGAAA
119828 ACATTGATACACGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
119859 ATACTCAACT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATAGGAAA
Found at i:127902 original size:36 final size:36
Alignment explanation
Indices: 127862--127964 Score: 197
Period size: 36 Copynumber: 2.9 Consensus size: 36
127852 ACGATGCTGG
127862 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
*
127898 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
127934 ACATTGATACACGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
127965 ATACTCGACT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATAGGATA
Found at i:134394 original size:31 final size:31
Alignment explanation
Indices: 134356--134414 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
134346 TTTTGAAAAG
*
134356 GGATTAATTTTATTAATAGTTGATATGGGAC
1 GGATTAATTTGATTAATAGTTGATATGGGAC
*
134387 GGATTAATTTGATTGATAGTTGATATGG
1 GGATTAATTTGATTAATAGTTGATATGG
134415 ATCGCATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (31 bp):
GGATTAATTTGATTAATAGTTGATATGGGAC
Found at i:134979 original size:15 final size:15
Alignment explanation
Indices: 134959--135213 Score: 438
Period size: 15 Copynumber: 17.0 Consensus size: 15
134949 TAATAAGGTT
*
134959 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
*
134974 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
*
134989 ATTTATTATAAAATG
1 ATTTATTATAAAATA
135004 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
135019 ATTTATTATAAAATG
1 ATTTATTATAAAATA
135034 ATTTATTATAAAATA
1 ATTTATTATAAAATA
135049 ATTTATTATAAAATA
1 ATTTATTATAAAATA
135064 ATTTATTATAAAATA
1 ATTTATTATAAAATA
135079 ATTTATTATAAAATA
1 ATTTATTATAAAATA
135094 ATTTATTATAAAATA
1 ATTTATTATAAAATA
135109 ATTTATTATAAAATA
1 ATTTATTATAAAATA
135124 ATTTATTATAAAATA
1 ATTTATTATAAAATA
135139 ATTTATTATAAAATA
1 ATTTATTATAAAATA
* *
135154 ATTTGTTTTAAAATA
1 ATTTATTATAAAATA
135169 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
135184 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
*
135199 AATTATTATAAAATA
1 ATTTATTATAAAATA
135214 TAGATTGATT
Statistics
Matches: 228, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 228 1.00
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:135241 original size:15 final size:14
Alignment explanation
Indices: 135221--135288 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
135211 ATATAGATTG
135221 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
135236 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
135250 TTTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
*
135268 ATTTATTTTAATTA
1 ATTTATTTTAAATA
135282 ATTTATT
1 ATTTATT
135289 AGTATGGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
14 22 0.50
15 10 0.23
16 2 0.05
17 1 0.02
18 9 0.20
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:135254 original size:14 final size:15
Alignment explanation
Indices: 134959--135256 Score: 364
Period size: 15 Copynumber: 19.5 Consensus size: 15
134949 TAATAAGGTT
134959 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
134974 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
134989 ATTTATTATAAAATG
1 ATTTATTTTAAAATA
*
135004 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* *
135019 ATTTATTATAAAATG
1 ATTTATTTTAAAATA
*
135034 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135049 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135064 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135079 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135094 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135109 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135124 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135139 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
135154 ATTTGTTTTAAAATA
1 ATTTATTTTAAAATA
*
135169 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
135184 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
135199 AATTATTATAAAATATAGA
1 ATTTATT-TTAAA-AT--A
135218 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
135236 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
*
135250 TTTTATT
1 ATTTATT
135257 AGTATGAATT
Statistics
Matches: 261, Mismatches: 15, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.04
15 230 0.88
16 4 0.02
17 2 0.01
18 1 0.00
19 1 0.00
20 2 0.01
21 4 0.02
22 6 0.02
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:135274 original size:18 final size:18
Alignment explanation
Indices: 135251--135306 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
135241 TTTTAAATAT
135251 TTTATTAGTATGAATTGA
1 TTTATTAGTATGAATTGA
*
135269 TTTATT--T-T-AATTAA
1 TTTATTAGTATGAATTGA
*
135283 TTTATTAGTATGGATTGA
1 TTTATTAGTATGAATTGA
135301 TTTATT
1 TTTATT
135307 TTAAAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 11 0.35
15 1 0.03
16 2 0.06
17 1 0.03
18 16 0.52
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (18 bp):
TTTATTAGTATGAATTGA
Found at i:135277 original size:32 final size:32
Alignment explanation
Indices: 135236--135617 Score: 271
Period size: 32 Copynumber: 12.4 Consensus size: 32
135226 TTTTAAAATA
* *
135236 ATTTATTTTAAATATTTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
135268 ATTTATTTTAATTAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
135300 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
135322 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
135354 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * *
135383 ATTGTAGTTGTATAGATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-TA-AATAATTTATTAGTATGGATTG
* * * * *
135416 ATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATT--T-T-AAATAATTTA--TT--AGTATGGATTG
135456 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
135488 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
135510 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
135542 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
135574 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
135606 ATTTATTTTAAA
1 ATTTATTTTAAA
135618 ATATGGATTA
Statistics
Matches: 287, Mismatches: 24, Indels: 78
0.74 0.06 0.20
Matches are distributed among these distances:
22 28 0.10
23 4 0.01
24 3 0.01
25 5 0.02
26 4 0.01
28 4 0.01
29 8 0.03
30 10 0.03
31 10 0.03
32 175 0.61
33 6 0.02
34 10 0.03
36 7 0.02
37 1 0.00
38 2 0.01
39 1 0.00
40 9 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:135316 original size:22 final size:22
Alignment explanation
Indices: 135291--135333 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
135281 AATTTATTAG
135291 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
135313 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
135334 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:135329 original size:54 final size:56
Alignment explanation
Indices: 135259--135728 Score: 291
Period size: 54 Copynumber: 8.6 Consensus size: 56
135249 ATTTTATTAG
* *
135259 TATGAATTGATTTATTTTAATTAATTTATTAGTATGGATTGATTTAT-TTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATATTTATAAA
135313 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT-TTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATATTTATAAA
* * * * * *
135367 TATGGATTGATTTATTATT--GTAGTTGTA-TAG-ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGA-TTT--AT-ATTTATAAA
* * * *
135425 TATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT-ATTTATAAA
* * * *
135479 TATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT-ATTTATAAA
*
135533 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT-TTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATATTT--ATAA---A
* * * * * * **
135593 TTTGTATGGATTGA-TTT--AT--TTTA-AAATATGGATT-ATTTATTATTGTAGT-TG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TATT-TA-TAAA
135644 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT-TTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATATTTATAAA
*
135698 TATGGATTGGTTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
135729 TTATAGTTGT
Statistics
Matches: 351, Mismatches: 33, Indels: 64
0.78 0.07 0.14
Matches are distributed among these distances:
51 10 0.03
52 10 0.03
53 15 0.04
54 216 0.62
55 18 0.05
56 9 0.03
57 24 0.07
58 24 0.07
59 9 0.03
60 16 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (56 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATATTTATAAA
Found at i:135332 original size:86 final size:82
Alignment explanation
Indices: 135236--135700 Score: 388
Period size: 86 Copynumber: 5.6 Consensus size: 82
135226 TTTTAAAATA
* * *
135236 ATTTATTTTAAATATTTTATTAGTATGAATTGATTTATTTTAATTAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA--AA--TA-TAGTATTGATTGA
135301 TTTATTTTA-AAATATGGATTG
61 TTTATTTTAGAAATATGGATTG
* *
135322 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT-GGATTGATTTA-TTAT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGTATTGATTGATTTAT
* *** *
135385 TGTAGTTGTATAGATTG
66 TTTAGAAATATGGATTG
*
135402 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG-ATTGATTTATTTTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGTATTGATTGA-TTT-
** *
135466 AATAATTTATTAGTATGGATTG
64 -AT--TTTAGAAATATGGATTG
*
135488 ATTTATTTT--A-AA---A-TA-TA--GATTGATTTATTTTAAATAATTTATTAGTATAGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAGTATTGATTGA
*
135543 TTTATTTTAAATAATTTATTAGTATGGATTG
61 TTTATTTT--A-GA---A--A-TATGGATTG
* * *
135574 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATAT-GGATT-ATTTA-TTAT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGTATTGATTGATTTAT
* ***
135636 TGTAGTTGTATGGATTG
66 TTTAGAAATATGGATTG
135653 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT
135701 GGATTGGTTT
Statistics
Matches: 317, Mismatches: 29, Indels: 73
0.76 0.07 0.17
Matches are distributed among these distances:
76 14 0.04
77 5 0.02
78 4 0.01
79 68 0.21
80 76 0.24
81 8 0.03
82 11 0.03
83 3 0.01
84 5 0.02
86 82 0.26
88 7 0.02
89 6 0.02
90 3 0.01
91 1 0.00
92 3 0.01
93 1 0.00
94 4 0.01
95 2 0.01
96 14 0.04
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (82 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGTATTGATTGATTTAT
TTTAGAAATATGGATTG
Found at i:135423 original size:134 final size:137
Alignment explanation
Indices: 135216--135585 Score: 553
Period size: 134 Copynumber: 2.7 Consensus size: 137
135206 ATAAAATATA
* * *
135216 GATTGATTTATTTT-AAA-ATA-ATTTA-TT-TTAAATATTTTATTAGTAT-GAATTGATTTATT
1 GATTGATTTATTTTAAAATATAGATTGATTTATTTAATA-TGTATTAGTATAG-ATTGATTTATT
* *
135275 TTAATTAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
64 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTT
135340 ATTAGTATG
129 ATTAGTATG
*
135349 GATTGATTTATTTTAAAATATGGATTGATTTA-TT-AT-TGTAGTT-GTATAGATTGATTTATTT
1 GATTGATTTATTTTAAAATATAGATTGATTTATTTAATATGTA-TTAGTATAGATTGATTTATTT
135410 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTA
65 TAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTA
135475 TTAGTATG
130 TTAGTATG
*
135483 GATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTAT
1 GATTGATTTATTTTAAAATATAGATTGATTTA-TTT-AAT-ATGTATTAGTATAGATTGATTTAT
135548 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
63 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
135586 TAATTTATTT
Statistics
Matches: 215, Mismatches: 8, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
133 14 0.07
134 124 0.58
135 5 0.02
136 8 0.04
137 3 0.01
138 2 0.01
139 2 0.01
140 57 0.27
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (137 bp):
GATTGATTTATTTTAAAATATAGATTGATTTATTTAATATGTATTAGTATAGATTGATTTATTTT
AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTAT
TAGTATG
Found at i:135454 original size:22 final size:22
Alignment explanation
Indices: 135429--135521 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
135419 TATTAGTATG
135429 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
135451 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
*
135478 GTATGGATTGATTTATTTTAAAATATA
1 G-ATTGA-T---TTATTTTAAAATATA
135505 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
135522 TAATTTATTA
Statistics
Matches: 59, Mismatches: 2, Indels: 20
0.73 0.02 0.25
Matches are distributed among these distances:
22 24 0.41
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 6 0.10
28 6 0.10
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.12
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:135701 original size:22 final size:22
Alignment explanation
Indices: 135676--135718 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
135666 AATTTATTAG
135676 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
135698 TATGGATTGGTTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
135719 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:135778 original size:31 final size:31
Alignment explanation
Indices: 135743--135801 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
135733 AGTTGTATGG
* *
135743 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
135774 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
135802 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:139940 original size:6 final size:6
Alignment explanation
Indices: 139929--139973 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
139919 GACACGTATT
139929 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
139974 CGAGACGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:140488 original size:6 final size:6
Alignment explanation
Indices: 140462--140518 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
140452 GTCCGTCTCG
140462 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
140507 GGTCGT GGTCGT
1 GGTCGT GGTCGT
140519 ACGTGTCTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.29
6 36 0.71
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:140662 original size:20 final size:20
Alignment explanation
Indices: 140637--140750 Score: 115
Period size: 20 Copynumber: 5.6 Consensus size: 20
140627 ACTGTAGACT
140637 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** **
140657 ATCGCAATACG-AATGTAGACT
1 ATCGCAACGCGAAATG--GAAA
140678 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
140698 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
140719 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
140739 ATCGCAACGCGA
1 ATCGCAACGCGA
140751 TTTTCAACTA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
19 7 0.09
20 36 0.49
21 24 0.32
22 7 0.09
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:140674 original size:41 final size:41
Alignment explanation
Indices: 140609--140771 Score: 222
Period size: 41 Copynumber: 4.0 Consensus size: 41
140599 ACAACGAATT
*
140609 TGGAAAATCGCAATGAC-AACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAA-CACGAA-TGTAGACTATCGCAACGCGAAA
*
140651 TGGAAAATCGCAATACGAATGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACACGAATGTAGACTATCGCAACGCGAAA
* *
140692 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACACGAATGTAGACTATCGCAACGCGAAA
* * *
140733 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGA
1 TGGAAAATCGCAACACGAATGT-AGACTATCGCAACGCGA
140772 TCTCCAACTA
Statistics
Matches: 113, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
41 97 0.86
42 16 0.14
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (41 bp):
TGGAAAATCGCAACACGAATGTAGACTATCGCAACGCGAAA
Found at i:140713 original size:82 final size:83
Alignment explanation
Indices: 140609--140771 Score: 249
Period size: 82 Copynumber: 2.0 Consensus size: 83
140599 ACAACGAATT
* *
140609 TGGAAAATCGCAATGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAATACGAATGT-
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACACGAATGTC
140673 AGACTATCGCAACGCGAAA
66 A-ACTATCGCAACGCGAAA
* * * *
140692 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTC
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACACGAATGTC
140756 AACTATCGCAACGCGA
66 AACTATCGCAACGCGA
140772 TCTCCAACTA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
82 58 0.79
83 15 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (83 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACACGAATGTC
AACTATCGCAACGCGAAA
Found at i:140770 original size:62 final size:62
Alignment explanation
Indices: 140698--140833 Score: 202
Period size: 62 Copynumber: 2.2 Consensus size: 62
140688 GAAATGGAAA
** * *
140698 ATCGCAACGCGA-CTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATCTCCA-ACTAACGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
*
140760 ATCGCAACGCGATCTCCAACTAACGCAACGCGAAATGGAAAAACGCAATGCGATTTTCAACT
1 ATCGCAACGCGATCTCCAACTAACGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
*
140822 ATCGCAATGCGA
1 ATCGCAACGCGA
140834 AATGCAACGT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 64 0.96
63 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.18
Consensus pattern (62 bp):
ATCGCAACGCGATCTCCAACTAACGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
Found at i:140841 original size:21 final size:21
Alignment explanation
Indices: 140634--140841 Score: 122
Period size: 21 Copynumber: 10.1 Consensus size: 21
140624 ACAACTGTAG
*
140634 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
140655 A-AATCGCAATACG-AATGTA
1 ACTATCGCAACGCGAAATGCA
*
140674 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* * *
140696 A-AATCGCAACGCG-ACTGTA
1 ACTATCGCAACGCGAAATGCA
*
140715 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* ** *
140737 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
** *
140757 ACTATCGCAACGCGATCTCCA
1 ACTATCGCAACGCGAAATGCA
* *
140778 ACTAACGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * * ** *
140799 A-AAACGCAATGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
140819 ACTATCGCAATGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
140840 AC
1 AC
140842 GTGAATTTGC
Statistics
Matches: 141, Mismatches: 38, Indels: 16
0.72 0.19 0.08
Matches are distributed among these distances:
19 9 0.06
20 51 0.36
21 72 0.51
22 9 0.06
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:160921 original size:21 final size:20
Alignment explanation
Indices: 160897--160947 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
160887 AATACCTTTT
160897 AAATTATAATAAATAATTATA
1 AAATTATAATAAATAATTA-A
* *
160918 AAATT-TACATAATTTATTAA
1 AAATTATA-ATAAATAATTAA
160938 AAA-TATAATA
1 AAATTATAATA
160948 TTTTTGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 14 0.54
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTATAATAAATAATTAA
Done.