Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006206.1 Hibiscus syriacus cultivar Beakdansim tig00014773_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: 480835
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 3
Found at i:1169 original size:31 final size:31
Alignment explanation
Indices: 1131--1194 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
1121 CTTTAATTGG
*
1131 AAGGAAATTAAAAATAAAAGGGCTAAAGTGA
1 AAGGAAATTAAAAATAAAAGGGCTAAAATGA
* * *
1162 AAGGAAATTACAAATACAATGGCTAAAATGA
1 AAGGAAATTAAAAATAAAAGGGCTAAAATGA
1193 AA
1 AA
1195 CTCTAATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.17
Consensus pattern (31 bp):
AAGGAAATTAAAAATAAAAGGGCTAAAATGA
Found at i:13552 original size:31 final size:32
Alignment explanation
Indices: 13512--13575 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
13502 GATTATTAAA
13512 ATTATTAAATTATTACAAAATGACACCAACAC
1 ATTATTAAATTATTACAAAATGACACCAACAC
13544 ATTA-TAAATTATTACAAAATGACACCAACAC
1 ATTATTAAATTATTACAAAATGACACCAACAC
13575 A
1 A
13576 ATAGTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.27
Consensus pattern (32 bp):
ATTATTAAATTATTACAAAATGACACCAACAC
Found at i:21558 original size:39 final size:39
Alignment explanation
Indices: 21504--21580 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
21494 TTAATAGGTC
21504 AAATTCCCAATTAATGTTTTCTTTATGGAGCAAATGGTA
1 AAATTCCCAATTAATGTTTTCTTTATGGAGCAAATGGTA
*
21543 AAATTCCCCATTAATGTTTTCTTTATGGAGCAAATGGT
1 AAATTCCCAATTAATGTTTTCTTTATGGAGCAAATGGT
21581 TAATAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (39 bp):
AAATTCCCAATTAATGTTTTCTTTATGGAGCAAATGGTA
Found at i:23167 original size:44 final size:44
Alignment explanation
Indices: 23117--23262 Score: 229
Period size: 44 Copynumber: 3.3 Consensus size: 44
23107 CAATAGCTCC
23117 TTTATGTGATTTGGTTCCAAGTCTCATCATGGTGTATGTATTTG
1 TTTATGTGATTTGGTTCCAAGTCTCATCATGGTGTATGTATTTG
23161 TTTATGTGATTTGGTTCCAAGTCTCATCATGGTGTATGTATTTG
1 TTTATGTGATTTGGTTCCAAGTCTCATCATGGTGTATGTATTTG
* ** * *
23205 TTTATGTGATTTGCTTATAAGTTTCATTCATGGTGTATGTAATTG
1 TTTATGTGATTTGGTTCCAAGTCTCA-TCATGGTGTATGTATTTG
*
23250 TTTATGTGGTTTG
1 TTTATGTGATTTG
23263 CTCTCCACAT
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 66 0.69
45 29 0.31
ACGTcount: A:0.18, C:0.09, G:0.23, T:0.50
Consensus pattern (44 bp):
TTTATGTGATTTGGTTCCAAGTCTCATCATGGTGTATGTATTTG
Found at i:26062 original size:16 final size:16
Alignment explanation
Indices: 26017--26063 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
26007 ATAAATAAAA
*
26017 GAACATAAACGAATAC
1 GAACATAAACGAACAC
* * *
26033 GAACGTATATGAACAC
1 GAACATAAACGAACAC
26049 GAACATAAACGAACA
1 GAACATAAACGAACA
26064 TAAACGATGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.13
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:27169 original size:24 final size:24
Alignment explanation
Indices: 27129--27190 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
27119 GATTGGGTTA
*
27129 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
27153 AACATAATCGAACGAACATGAACG
1 AACATAATCGAACGAACATAAACG
*
27177 AACATAACCGAACG
1 AACATAATCGAACG
27191 TTCACGAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 3 0.09
24 31 0.91
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:27199 original size:24 final size:24
Alignment explanation
Indices: 27149--27200 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
27139 AATGAACATA
* *
27149 AACGAACATAATCGAACGAACATG
1 AACGAACATAACCGAACGAACACG
**
27173 AACGAACATAACCGAACGTTCACG
1 AACGAACATAACCGAACGAACACG
27197 AACG
1 AACG
27201 TAAATGAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.12
Consensus pattern (24 bp):
AACGAACATAACCGAACGAACACG
Found at i:37758 original size:32 final size:32
Alignment explanation
Indices: 37693--37764 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
37683 AAAATATATA
* * * *
37693 CCTAATG-TTTTCTCTGTTACACTTTTACCTG
1 CCTAATGTTTTTCTCCGTAACACTTATAACTG
*
37724 CCTAATGTTTTTCTCCGTAACACTTATAAGTG
1 CCTAATGTTTTTCTCCGTAACACTTATAACTG
*
37756 CCTACTGTT
1 CCTAATGTT
37765 ACAAAAATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.44
Consensus pattern (32 bp):
CCTAATGTTTTTCTCCGTAACACTTATAACTG
Found at i:40055 original size:34 final size:34
Alignment explanation
Indices: 40016--40082 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
40006 GGGTAGATAG
*
40016 ATATAATTAAT-ATGAGT-ATAATATATATATATAT
1 ATATAA-TAATAAT-AGTAATAAAATATATATATAT
40050 ATATAATAATAATAGTAATAAAATATATATATA
1 ATATAATAATAATAGTAATAAAATATATATATA
40083 CAACGACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (34 bp):
ATATAATAATAATAGTAATAAAATATATATATAT
Found at i:41351 original size:2 final size:2
Alignment explanation
Indices: 41344--41386 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
41334 GAAAATAATT
**
41344 TA TA TA TA TA CG TA -A 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 TA TA TA TA TA TA
41385 TA
1 TA
41387 AATAGTGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:41851 original size:105 final size:105
Alignment explanation
Indices: 41669--42233 Score: 1031
Period size: 105 Copynumber: 5.4 Consensus size: 105
41659 GTATTGTTCC
* *
41669 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTGTTGACAAC
* *
41734 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
41774 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTGTTGACAAC
*
41839 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
41879 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTGTTGACAAC
*
41944 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
41984 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTGTTGACAAC
*
42049 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
42089 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTGTTGACAAC
42154 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
42194 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG
42234 GTAAAACCTG
Statistics
Matches: 449, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 449 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATTTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:43073 original size:64 final size:64
Alignment explanation
Indices: 43005--43129 Score: 155
Period size: 64 Copynumber: 2.0 Consensus size: 64
42995 CTTTCGTTCT
* *
43005 TTTTTCTCTTTTTCTTT-TTCTTTTTTT-CAATTCAGGGCACCCTTTCGGGTTTTCACCCTAAAT
1 TTTTTCT-TTTTTCTTTCTTCTTTTTTTCCAATT-AGGACACCCTCTCGGGTTTTCACCCTAAAT
43068 G
64 G
* * * * *
43069 TTTTTCTTTTTTTTTTCTTTTTTTTTTCCACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTTTCTTTCTTCTTTTTTTCCAATTAGGACACCCTCTCGGGTTTTCACCCTAA
43130 GCGAAGTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 8 0.15
64 40 0.77
65 4 0.08
ACGTcount: A:0.11, C:0.23, G:0.10, T:0.55
Consensus pattern (64 bp):
TTTTTCTTTTTTCTTTCTTCTTTTTTTCCAATTAGGACACCCTCTCGGGTTTTCACCCTAAATG
Found at i:43090 original size:12 final size:11
Alignment explanation
Indices: 43069--43096 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
43059 ACCCTAAATG
43069 TTTTTCTTTTT
1 TTTTTCTTTTT
43080 TTTTTCTTTTT
1 TTTTTCTTTTT
43091 TTTTTC
1 TTTTTC
43097 CACTTAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:45223 original size:10 final size:10
Alignment explanation
Indices: 45204--45240 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
45194 AAGGTTAGTA
*
45204 AAATATAAAT
1 AAATAAAAAT
45214 AAATAAAAAT
1 AAATAAAAAT
*
45224 AAAAAAAAAT
1 AAATAAAAAT
45234 AAATAAA
1 AAATAAA
45241 TAGTAAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:45224 original size:16 final size:16
Alignment explanation
Indices: 45203--45236 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45193 AAAGGTTAGT
* *
45203 AAAATATAAATAAATA
1 AAAATAAAAAAAAATA
45219 AAAATAAAAAAAAATA
1 AAAATAAAAAAAAATA
45235 AA
1 AA
45237 TAAATAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAAAAATA
Found at i:47773 original size:2 final size:2
Alignment explanation
Indices: 47766--47836 Score: 126
Period size: 2 Copynumber: 36.0 Consensus size: 2
47756 GAAAATAATT
*
47766 TA TA TA TA TA TG TA -A 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 TA TA TA TA TA TA
47807 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
47837 AAAAATAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:50044 original size:26 final size:26
Alignment explanation
Indices: 50015--50065 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
50005 CTGAGCACAA
* *
50015 CTCGACTCGAAAACTTTGAAATGAAG
1 CTCGACTCGAAAACTCTAAAATGAAG
50041 CTCGACTCGAAAACTCTAAAATGAA
1 CTCGACTCGAAAACTCTAAAATGAA
50066 ACTCTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (26 bp):
CTCGACTCGAAAACTCTAAAATGAAG
Found at i:56357 original size:69 final size:69
Alignment explanation
Indices: 56271--56401 Score: 194
Period size: 69 Copynumber: 1.9 Consensus size: 69
56261 AAGTTTAACT
*
56271 GTCAAAACTCCAATGTTTGTCCCATTATTGACTGTG-TTCAAATA-TATTTTAGATAATCAATTA
1 GTCAAAACTCCAATGTTTGTCCCATTATTAACTG-GATTCAAA-AGTATTTTAGATAATCAATTA
56334 TAAGTC
64 TAAGTC
* *
56340 GTCAATACTCCAATGTTTGTCCCATTATTAAGTGGATTTCAAAAGTATTTTAGATAATCAAT
1 GTCAAAACTCCAATGTTTGTCCCATTATTAACTGGA-TTCAAAAGTATTTTAGATAATCAAT
56402 GTCGGTCCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
68 1 0.02
69 32 0.57
70 23 0.41
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (69 bp):
GTCAAAACTCCAATGTTTGTCCCATTATTAACTGGATTCAAAAGTATTTTAGATAATCAATTATA
AGTC
Found at i:56894 original size:23 final size:22
Alignment explanation
Indices: 56868--56913 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56858 CACGTTTTCA
56868 TATGCCTTTATGACATATTTTTT
1 TATG-CTTTATGACATATTTTTT
* * *
56891 TATGCTTTTTGGCATTTTTTTT
1 TATGCTTTATGACATATTTTTT
56913 T
1 T
56914 GTTTGACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.63
Consensus pattern (22 bp):
TATGCTTTATGACATATTTTTT
Found at i:59966 original size:18 final size:18
Alignment explanation
Indices: 59928--60014 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 18
59918 TACTAAGGGG
* *
59928 TTCCTGACGCGGCAGAGA
1 TTCCTGACGTGGAAGAGA
** *
59946 TTCCTGACGTGGGGGATA
1 TTCCTGACGTGGAAGAGA
* *
59964 TTCTTGACATGGAAGAGA
1 TTCCTGACGTGGAAGAGA
*** *
59982 TTCCTGACGTACCAGGGA
1 TTCCTGACGTGGAAGAGA
*
60000 TTCCTGAAGTGGAAG
1 TTCCTGACGTGGAAG
60015 CAACATTTGA
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (18 bp):
TTCCTGACGTGGAAGAGA
Found at i:60653 original size:17 final size:17
Alignment explanation
Indices: 60628--60678 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
60618 TTATTCAAGG
*
60628 ATAACTTAAACAAATTA
1 ATAATTTAAACAAATTA
***
60645 ATAATTTAAAGTTGATTA
1 ATAATTTAAA-CAAATTA
60663 ATAATTTAAACAAATT
1 ATAATTTAAACAAATT
60679 TTAAAAGAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (17 bp):
ATAATTTAAACAAATTA
Found at i:60798 original size:30 final size:28
Alignment explanation
Indices: 60725--60798 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
60715 ACTTTTTATA
** *
60725 AAAAAAATAAAATAGAGTTCGATTAACT
1 AAAAAAATAAAATTTAGTTCGAATAACT
* *
60753 AAACAAAGAAAATTTAGTTCGAATAACT
1 AAAAAAATAAAATTTAGTTCGAATAACT
60781 AAAAAAATTACAAATTTA
1 AAAAAAA-TA-AAATTTA
60799 AACAACTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 29 0.78
29 1 0.03
30 7 0.19
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (28 bp):
AAAAAAATAAAATTTAGTTCGAATAACT
Found at i:63577 original size:31 final size:31
Alignment explanation
Indices: 63539--63599 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
63529 TCCCTACAAA
63539 CAAACAAACAAATAAATTCAAAATAACTAAG
1 CAAACAAACAAATAAATTCAAAATAACTAAG
*
63570 CAAACAAACAAATAAATTTAAAATAACTAA
1 CAAACAAACAAATAAATTCAAAATAACTAA
63600 ATAAATAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.18
Consensus pattern (31 bp):
CAAACAAACAAATAAATTCAAAATAACTAAG
Found at i:63604 original size:4 final size:4
Alignment explanation
Indices: 63590--63693 Score: 52
Period size: 4 Copynumber: 26.0 Consensus size: 4
63580 AATAAATTTA
* * ** **
63590 AAAT AACT AAAT AAAT AAGT TCA- AAAT AAAT AAAT AAAT AAATTT GAGTT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA--T -AAAT
* * * * **
63640 GAAT AAAT AAAT AAAT AAA- ACAT AAAT GAAT ATAT AAAT TCA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
63686 AAAT AAAT
1 AAAT AAAT
63694 TGTAACACCC
Statistics
Matches: 70, Mismatches: 24, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
3 4 0.06
4 63 0.90
5 1 0.01
6 1 0.01
7 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:63605 original size:23 final size:23
Alignment explanation
Indices: 63579--63693 Score: 115
Period size: 23 Copynumber: 5.0 Consensus size: 23
63569 GCAAACAAAC
* *
63579 AAATAAATTTAAAATAACTAAAT
1 AAATAAATTCAAAATAAATAAAT
*
63602 AAATAAGTTCAAAATAAATAAAT
1 AAATAAATTCAAAATAAATAAAT
** ** *
63625 AAATAAATTTGAGTTGAATAAAT
1 AAATAAATTCAAAATAAATAAAT
* *
63648 AAATAAA-TAAAACATAAATGAAT
1 AAATAAATTCAAA-ATAAATAAAT
*
63671 ATATAAATTCAAAATAAATAAAT
1 AAATAAATTCAAAATAAATAAAT
63694 TGTAACACCC
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 2 0.03
23 66 0.92
24 4 0.06
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (23 bp):
AAATAAATTCAAAATAAATAAAT
Found at i:63627 original size:27 final size:26
Alignment explanation
Indices: 63590--63658 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
63580 AATAAATTTA
*
63590 AAATAACTAAATAAA-TAAGTTCAAAAT
1 AAATAAATAAATAAATTAAGTT--AAAT
* *
63617 AAATAAATAAATAAATTTGAGTTGAAT
1 AAATAAATAAATAAA-TTAAGTTAAAT
63644 AAATAAATAAATAAA
1 AAATAAATAAATAAA
63659 ACATAAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 32 0.86
29 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (26 bp):
AAATAAATAAATAAATTAAGTTAAAT
Found at i:63664 original size:19 final size:20
Alignment explanation
Indices: 63642--63693 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
63632 TTTGAGTTGA
63642 ATAAATAAATAAATAAA-AC
1 ATAAATAAATAAATAAATAC
* * *
63661 ATAAATGAATATATAAATTC
1 ATAAATAAATAAATAAATAC
63681 A-AAATAAATAAAT
1 ATAAATAAATAAAT
63694 TGTAACACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 25 0.93
20 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAATAAATAAATAAATAC
Found at i:64361 original size:20 final size:20
Alignment explanation
Indices: 64336--64433 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 20
64326 TGGGAAAATT
64336 GCAATGCGATACTGACTATC
1 GCAATGCGATACTGACTATC
*
64356 GCAATGCGATACTTACTATC
1 GCAATGCGATACTGACTATC
* *
64376 GCAATGCGATAAT-ACAAAATC
1 GCAATGCGATACTGAC--TATC
* * *
64397 GCAACGAGATACTGACTTTC
1 GCAATGCGATACTGACTATC
* *
64417 GCAACGCGATTCTGACT
1 GCAATGCGATACTGACT
64434 TTCACAACGC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 48 0.74
21 13 0.20
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
GCAATGCGATACTGACTATC
Found at i:64395 original size:61 final size:60
Alignment explanation
Indices: 64330--64466 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 60
64320 GCGAATTGGG
* * * * *
64330 AAAATTGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGAT-ATAC
* * * * * *
64391 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCACAACGCGATTTAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGATATAC
*
64451 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
64467 TTTCAAAGCG
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 16 0.26
61 46 0.74
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (60 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGATATAC
Found at i:64434 original size:20 final size:20
Alignment explanation
Indices: 64395--64447 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
64385 TAATACAAAA
* *
64395 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
64415 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
64435 TCACAACGCGATT
1 TCGCAACGCGATT
64448 TACATAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:64995 original size:20 final size:20
Alignment explanation
Indices: 64941--64999 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
64931 GCGATTCTCT
**
64941 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
64961 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
64981 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
65000 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:65190 original size:25 final size:24
Alignment explanation
Indices: 65136--65190 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
65126 TGTTTATTAT
* *
65136 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
65160 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
65186 TGTTT
1 TGTTT
65191 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:66340 original size:18 final size:18
Alignment explanation
Indices: 66319--66363 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
66309 TCCACTTCGG
*
66319 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
66337 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
66355 GAGCCATCA
1 GAGCCATCA
66364 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:66899 original size:19 final size:20
Alignment explanation
Indices: 66845--66890 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
66835 TAGTTTACTT
* *
66845 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
66865 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
66885 TCGCAA
1 TCGCAA
66891 TGTGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:66919 original size:14 final size:14
Alignment explanation
Indices: 66900--66957 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
66890 ATGTGAAATG
66900 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
66914 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
66930 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
66946 AAAATCGCAACG
1 AAAATCGCAACG
66958 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:66942 original size:32 final size:33
Alignment explanation
Indices: 66884--66974 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
66874 GGAAATGGCT
*
66884 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
66917 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
66949 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
66975 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:66968 original size:19 final size:19
Alignment explanation
Indices: 66845--66979 Score: 67
Period size: 19 Copynumber: 7.6 Consensus size: 19
66835 TAGTTTACTT
* **
66845 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
66865 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
* *
66885 TCGCAATGTGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
66904 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
*
66918 TCGCAATGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
66936 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
66950 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
66969 TCGCAATGCGA
1 TCGCAACGCGA
66980 TTTGTGTTTC
Statistics
Matches: 90, Mismatches: 13, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 1 0.01
18 11 0.12
19 27 0.30
20 23 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:67050 original size:20 final size:20
Alignment explanation
Indices: 67016--67071 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
67006 GTTGCGATTT
*
67016 CATTTC-GCATTGCGATAGC
1 CATTTCTGCGTTGCGATAGC
*
67035 CATTTCTGCGTTGCGATAGT
1 CATTTCTGCGTTGCGATAGC
67055 CATTT-TCGCGTTGCGAT
1 CATTTCT-GCGTTGCGAT
67072 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
CATTTCTGCGTTGCGATAGC
Found at i:68754 original size:20 final size:20
Alignment explanation
Indices: 68729--68767 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
68719 ATGTTGAAGG
68729 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
68749 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
68768 GAGAGAATCG
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:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:68779 original size:14 final size:14
Alignment explanation
Indices: 68760--68813 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
68750 AAAACTGACT
*
68760 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
68774 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
68793 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
68807 ATCGCAA
1 ATCGCAA
68814 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:68797 original size:19 final size:17
Alignment explanation
Indices: 68773--68818 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
68763 GCAACGAGAG
68773 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AA-GAA
68792 AATCGCAA--CG-AGAA
1 AATCGCAATGCGAAGAA
68806 AATCGCAATGCGA
1 AATCGCAATGCGA
68819 TTTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 2 0.08
17 2 0.08
19 8 0.33
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (17 bp):
AATCGCAATGCGAAGAA
Found at i:68867 original size:20 final size:20
Alignment explanation
Indices: 68844--68894 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
68834 GCGATTTTGT
68844 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
*
68864 CGTTGTGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
68884 CGTTGCGATAG
1 CGTTGCGATAG
68895 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:69136 original size:20 final size:20
Alignment explanation
Indices: 69107--69157 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
69097 AAATGATTGC
*
69107 CTTTCTCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
69127 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
69147 CTTTCGCAACG
1 CTTTCGCAACG
69158 AGATAATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:70147 original size:12 final size:12
Alignment explanation
Indices: 70130--70154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70120 ATATAATCCT
70130 GAAGAAGAAAAA
1 GAAGAAGAAAAA
70142 GAAGAAGAAAAA
1 GAAGAAGAAAAA
70154 G
1 G
70155 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:71673 original size:19 final size:19
Alignment explanation
Indices: 71651--71781 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
71641 GGAAATTACT
71651 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
71670 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
71684 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
71703 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
71717 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
71736 ATCGCAA--CG-AGTG--A
1 ATCGCAATGCGAAATGAAA
71750 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
71769 ATCGCAACGCGAA
1 ATCGCAATGCGAA
71782 TTTAATTTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 26 0.30
15 2 0.02
16 9 0.10
17 9 0.10
18 2 0.02
19 38 0.44
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:71693 original size:33 final size:33
Alignment explanation
Indices: 71651--71777 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
71641 GGAAATTACT
71651 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
71684 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
71716 TTTCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
71750 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
71778 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:71758 original size:66 final size:66
Alignment explanation
Indices: 71652--71784 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
71642 GAAATTACTA
*
71652 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
71717 T
66 T
*
71718 TCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
71783 T
66 T
71784 T
1 T
71785 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:71828 original size:33 final size:33
Alignment explanation
Indices: 71786--71866 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
71776 CGCGAATTTA
71786 ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
* *
71819 ATTTCGCGTTGCGATTCTCTCGTTGCTATTTTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
*
71852 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
71867 AGTACTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
Found at i:71833 original size:19 final size:19
Alignment explanation
Indices: 71806--71866 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
71796 GCGATTCTCT
*
71806 CGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
71825 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
71839 CGTTGCTATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
71858 CATTGCGAT
1 CGTTGCGAT
71867 AGTACTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
14 9 0.29
16 3 0.10
17 3 0.10
19 16 0.52
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:71992 original size:14 final size:14
Alignment explanation
Indices: 71973--72009 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
71963 CATCAATTAA
71973 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
71987 ACAAATCACCTTTT
1 ACAAATCAACTTTT
72001 ACAAATCAA
1 ACAAATCAA
72010 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:73424 original size:42 final size:41
Alignment explanation
Indices: 73365--73570 Score: 148
Period size: 42 Copynumber: 4.9 Consensus size: 41
73355 GTGAATCGGG
* * *
73365 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTAGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
73407 CTCTTGAACGGTAGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTAGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
73449 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTAGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
73491 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATA-TGGGC
1 CTCTTGAACGGTAGGA-GGGACTCTTCAAGG-ATGACAGT-GGC
* * * * *
73533 CTCTTCAACGATAGGAGTAGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTAGGAG-GGACTCTTCAAGGATGACAG
73571 GCGAGTCGGG
Statistics
Matches: 124, Mismatches: 30, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
41 10 0.08
42 103 0.83
43 11 0.09
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTAGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:73508 original size:84 final size:84
Alignment explanation
Indices: 73395--73570 Score: 316
Period size: 84 Copynumber: 2.1 Consensus size: 84
73385 CCTCTTCAAC
*
73395 GATGACAGTGGCCTCTTGAACGGTAGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTAGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
73460 TAGGAGTGGACTCTTGAGG
66 TAGGAGTAGACTCTTGAGG
* *
73479 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATATGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTAGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
73544 TAGGAGTAGACTCTTGAGG
66 TAGGAGTAGACTCTTGAGG
73563 GATGACAG
1 GATGACAG
73571 GCGAGTCGGG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTAGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTAGACTCTTGAGG
Found at i:73964 original size:91 final size:90
Alignment explanation
Indices: 73787--73973 Score: 304
Period size: 91 Copynumber: 2.0 Consensus size: 90
73777 ATATTTCAAA
*
73787 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTA
73852 GCAGAATTGGCAGCAACCGAATAAATTT
63 GCAGAATTGGCAGCAACCGAATAAATTT
73880 ACTTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAG
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAG
*
73944 CAGTATTGGCAGCAACCGAATAAATTT
64 CAGAATTGGCAGCAACCGAATAAATTT
73971 ACT
1 ACT
73974 AAGCAATCTA
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.47
93 21 0.23
95 27 0.30
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
GAATTGGCAGCAACCGAATAAATTT
Found at i:74176 original size:63 final size:63
Alignment explanation
Indices: 74117--74258 Score: 160
Period size: 63 Copynumber: 2.3 Consensus size: 63
74107 CTTAGAGCGG
* * *
74117 CAACCTCAC-CACGTAAAGTAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTC-CTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* * *** * *
74180 CGATCTCCTCACGCAAAGCATTGACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAT
1 CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* *
74243 CGATCTCCTCACGCAA
1 CAACCTCCTCACGCAA
74259 GGCATTGACC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
62 1 0.01
63 69 0.99
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.20
Consensus pattern (63 bp):
CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
Found at i:74264 original size:63 final size:63
Alignment explanation
Indices: 74140--74270 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
74130 TAAAGTAGAC
74140 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAAGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAAGCATTG
* *
74203 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTATCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAAGCATTG
74266 ACCTC
1 ACCTC
74271 ATCACGTAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (63 bp):
ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAAGCATTG
Found at i:75754 original size:20 final size:19
Alignment explanation
Indices: 75723--75862 Score: 113
Period size: 19 Copynumber: 7.8 Consensus size: 19
75713 TCTTTTGGTT
75723 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
75742 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGA
**
75762 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
75781 G--A-G--AATCGTAAC-A
1 GAAATGAAAATCGCAACGA
*
75794 CGAAATGAAAATCGCAACGC
1 -GAAATGAAAATCGCAACGA
*
75814 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
75833 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
75847 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
75863 TGCGATTTTG
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
13 1 0.01
14 18 0.19
16 4 0.04
17 4 0.04
19 51 0.54
20 17 0.18
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:75798 original size:33 final size:33
Alignment explanation
Indices: 75748--75812 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
75738 ACGAGATAAT
* **
75748 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACACGAAATGAAAATCGCAACGA
*
75781 GAGAATCGTAACACGAAATGAAAATCGCAACG
1 GAGAATCGCAACACGAAATGAAAATCGCAACG
75813 CGAAATGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACACGAAATGAAAATCGCAACGA
Found at i:75807 original size:52 final size:52
Alignment explanation
Indices: 75731--75867 Score: 186
Period size: 52 Copynumber: 2.6 Consensus size: 52
75721 TTGAAATGAA
* **
75731 AATCGCAACGA-GATAATGAGAATCGCAACGCGAAATGACTATCGCAACGAGAG
1 AATCGCAAC-ACGA-AATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
* *
75784 AATCGTAACACGAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGAGAG
1 AATCGCAACACGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
* *
75836 AATCGCAACGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACACGAAATGAAAATCGCAACGCGA
75868 TTTTGGTTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
52 65 0.87
53 10 0.13
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.13
Consensus pattern (52 bp):
AATCGCAACACGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:75896 original size:19 final size:19
Alignment explanation
Indices: 75863--75907 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
75853 AAAATCGCAA
*
75863 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
* *
75882 TGCGATTTTTATTTCGTGT
1 TGCGATTTTGATTTCGCGT
75901 TGCGATT
1 TGCGATT
75908 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.13, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:76477 original size:20 final size:20
Alignment explanation
Indices: 76452--76504 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
76442 GCGCTATGTA
76452 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
76472 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
76492 TATCTCGTTGCGA
1 AATCGCGTTGCGA
76505 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:76538 original size:20 final size:20
Alignment explanation
Indices: 76513--76566 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
76503 GATTTTGTAT
76513 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
76533 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
76553 TATCGCATTGCGAT
1 TATCGCATTGCGAT
76567 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:76551 original size:61 final size:61
Alignment explanation
Indices: 76453--76569 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
76443 CGCTATGTAA
* * * * *
76453 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
76514 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
76570 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:76585 original size:61 final size:61
Alignment explanation
Indices: 76453--76587 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
76443 CGCTATGTAA
* * * * * ** *
76453 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
76514 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
76576 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
76588 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:76677 original size:21 final size:21
Alignment explanation
Indices: 76637--76677 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
76627 ACTGTAGACC
** *
76637 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATACAACT
76658 ATCGCAACGCGAAATACAAC
1 ATCGCAACGCGAAATACAAC
76678 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATACAACT
Found at i:76822 original size:2 final size:2
Alignment explanation
Indices: 76815--76843 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
76805 CGATTTTCTC
76815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76844 ACAACTACCC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79856 original size:60 final size:60
Alignment explanation
Indices: 79737--79859 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 60
79727 GCTCTCAAAG
* * * * * * * *
79737 TATGACTCTCATTTTAAATTTGTTCTTAAACTTTTAAATGTTTCAATTTTATCTATAAAC
1 TATGACTATCATTCTAAATTAGTCCTCAAACTTTTAAATATTCCAATTTTAACTATAAAC
* *
79797 TATGACTATCATTCTAAATTAGTCCTCAAACGTTTTGAATATTCCAATTTTAAC-CTAAAC
1 TATGACTATCATTCTAAATTAGTCCTCAAAC-TTTTAAATATTCCAATTTTAACTATAAAC
79857 TAT
1 TAT
79860 ATATATATAC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 34 0.65
61 18 0.35
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (60 bp):
TATGACTATCATTCTAAATTAGTCCTCAAACTTTTAAATATTCCAATTTTAACTATAAAC
Found at i:80135 original size:220 final size:220
Alignment explanation
Indices: 79753--80195 Score: 832
Period size: 220 Copynumber: 2.0 Consensus size: 220
79743 TCTCATTTTA
79753 AATTTGTTCTTAAACTTTTAAATGTTTCAATTTTATCTATAAACTATGACTATCATTCTAAATTA
1 AATTTGTTCTTAAACTTTTAAATGTTTCAATTTTATCTATAAACTATGACTATCATTCTAAATTA
79818 GTCCTCAAACGTTTTGAATATTCCAATTTTAACCTAAACTATATATATATACTAATTACATCTCT
66 GTCCTCAAACGTTTTGAATATTCCAATTTTAACCTAAACTATATATATATACTAATTACATCTCT
*
79883 TGTTTATAAAATCATTAGGCCAAGTAAGGGATTTAAATTGCAGTTGCAGTCTCATTTTTTTTCAA
131 TGTTTATAAAATCATTAGGCCAAGTAAGGGATTTAAATTGCAGTTGCAGTCTCATTTTTTGTCAA
*
79948 GTTTATCGCGGTTGCGCATATAACG
196 GTTTATCGCGGTTGCGCATATAAAG
*
79973 AATTTGTTCTTAAACTTTTAAATTTTTCAATTTTATCTATAAACTATGACTATCATTCTAAATTA
1 AATTTGTTCTTAAACTTTTAAATGTTTCAATTTTATCTATAAACTATGACTATCATTCTAAATTA
80038 GTCCTCAAACGTTTTGAATATTCCAATTTTAACCTAAACTATATATATATACTAATTACATCTCT
66 GTCCTCAAACGTTTTGAATATTCCAATTTTAACCTAAACTATATATATATACTAATTACATCTCT
* * *
80103 TGTTTATAAAATCGTTAGGCCAAGTAAGGGATTTAAATTGCGGTTGCGGTCTCATTTTTTGTCAA
131 TGTTTATAAAATCATTAGGCCAAGTAAGGGATTTAAATTGCAGTTGCAGTCTCATTTTTTGTCAA
80168 GTTTATCGCGGTTGCGCATATAAAG
196 GTTTATCGCGGTTGCGCATATAAAG
80193 AAT
1 AAT
80196 GCTATTGCGG
Statistics
Matches: 217, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
220 217 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (220 bp):
AATTTGTTCTTAAACTTTTAAATGTTTCAATTTTATCTATAAACTATGACTATCATTCTAAATTA
GTCCTCAAACGTTTTGAATATTCCAATTTTAACCTAAACTATATATATATACTAATTACATCTCT
TGTTTATAAAATCATTAGGCCAAGTAAGGGATTTAAATTGCAGTTGCAGTCTCATTTTTTGTCAA
GTTTATCGCGGTTGCGCATATAAAG
Found at i:88737 original size:2 final size:2
Alignment explanation
Indices: 88730--88793 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
88720 CCCTTACCCC
88730 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
88772 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
88794 GTGAGAAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91756 original size:20 final size:20
Alignment explanation
Indices: 91727--91780 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
91717 AAATAACCAA
91727 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCGAATTC
* * * *
91747 CAATTTCGCAATGCGATTTT
1 CAAATTCGCAACGCGAATTC
91767 CAAATTCGCAACGC
1 CAAATTCGCAACGC
91781 TGATTACCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTC
Found at i:96652 original size:17 final size:18
Alignment explanation
Indices: 96630--96669 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
96620 GAATGCTTGT
96630 TTAAATAA-ATTTAATCA
1 TTAAATAATATTTAATCA
*
96647 TTAAATAATCTTTAATCA
1 TTAAATAATATTTAATCA
*
96665 CTAAA
1 TTAAA
96670 ATTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATAATATTTAATCA
Found at i:100366 original size:24 final size:24
Alignment explanation
Indices: 100339--100394 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
100329 CGATCTTCAA
*
100339 TTGAATTTCGTTCTAACAAATCAC
1 TTGAATTTCGTTCCAACAAATCAC
100363 TTGAATTTCGTTCCAACAAATCAC
1 TTGAATTTCGTTCCAACAAATCAC
100387 TTGAATTT
1 TTGAATTT
100395 ATCTAAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (24 bp):
TTGAATTTCGTTCCAACAAATCAC
Found at i:101821 original size:2 final size:2
Alignment explanation
Indices: 101814--101861 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
101804 TCTGTAAGCG
101814 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
101856 AT AT AT
1 AT AT AT
101862 CCTCGTATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104681 original size:2 final size:2
Alignment explanation
Indices: 104674--104698 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104664 ATCCAGCCCC
104674 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
104699 ACATTGAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105865 original size:14 final size:14
Alignment explanation
Indices: 105846--105873 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105836 TAACAGACTT
105846 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
105860 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
105874 TGGTATCAGG
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:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:107691 original size:51 final size:51
Alignment explanation
Indices: 107632--107732 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
107622 TCAGGGGGAG
* *
107632 AGTTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
107683 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
107733 CCTTTCCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
Found at i:109976 original size:14 final size:14
Alignment explanation
Indices: 109957--109984 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
109947 TAACAGACTT
109957 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
109971 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
109985 TGTATAACAC
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:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:117425 original size:27 final size:27
Alignment explanation
Indices: 117368--117426 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
117358 GACAAAGAAG
** *
117368 AAAAGAAAAGAAGAAATATTGAGTGCA
1 AAAAGAAAAGAAGAAATACCGAGTACA
117395 AAAAGTAAAAGAAGAAATACCGAGTACA
1 AAAAG-AAAAGAAGAAATACCGAGTACA
117423 AAAA
1 AAAA
117427 TTACACGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (27 bp):
AAAAGAAAAGAAGAAATACCGAGTACA
Found at i:131338 original size:198 final size:199
Alignment explanation
Indices: 130994--131353 Score: 524
Period size: 198 Copynumber: 1.8 Consensus size: 199
130984 AGATCGCATG
* * * *
130994 ACAATGAATGTGTACTGTGTCATGCCTACAAAAGAGAACTACATTCATTTCATTTATAGCTTGGA
1 ACAATGAATGTGTACTGTATCAAGCCTACAAAAGAGAACTACATGCATCTCATTTATAGCTTGGA
* * * * * * *
131059 TTTACGCAATAAAAACTCTTTATTTCAATACTCCAGAAGAAGCTAGTAGGGGCTCTAATTTCATA
66 TATAAGCAATAAAAACTATTTATTTCAAGACTCCAGAAGAAGCTACTAGGGACTCTAATGTCATA
*
131124 TGCAAATCTGTTTATTTACCATGAGATCTATATCAAACCCCTCAAAATAGAAATAGAGGCATAAA
131 TGCAAATCTATTTATTTACCATGAGATCTATATCAAACCCCTCAAAATAGAAATAGAGGCATAAA
131189 CCTA
196 CCTA
* *
131193 ACAATGAATGTGTTCTGTATCAAGCCTAC-AAAGAGAACTCCATGCATCTCATTTATAGCTTGGA
1 ACAATGAATGTGTACTGTATCAAGCCTACAAAAGAGAACTACATGCATCTCATTTATAGCTTGGA
* ** *
131257 TATAAGCAATAAAAACTATTTGTTTCAAGACTCCAGAAGATTCTACTAGGGACTCTACTGTCATA
66 TATAAGCAATAAAAACTATTTATTTCAAGACTCCAGAAGAAGCTACTAGGGACTCTAATGTCATA
* * *
131322 TTCGAATCTATTTATTTACCATGAGTTCTATA
131 TGCAAATCTATTTATTTACCATGAGATCTATA
131354 ACAAGTCCAT
Statistics
Matches: 140, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
198 114 0.81
199 26 0.19
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (199 bp):
ACAATGAATGTGTACTGTATCAAGCCTACAAAAGAGAACTACATGCATCTCATTTATAGCTTGGA
TATAAGCAATAAAAACTATTTATTTCAAGACTCCAGAAGAAGCTACTAGGGACTCTAATGTCATA
TGCAAATCTATTTATTTACCATGAGATCTATATCAAACCCCTCAAAATAGAAATAGAGGCATAAA
CCTA
Found at i:137497 original size:2 final size:2
Alignment explanation
Indices: 137490--137526 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
137480 TATTAAAATT
137490 TA TA TA TA 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 TA TA TA TA T
137527 GATTATTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:138037 original size:31 final size:31
Alignment explanation
Indices: 137983--138043 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
137973 TTTAGTTGAA
* * *
137983 TTTAATAATCAAATTAATGTTTTATCTAAAG
1 TTTAAAAATCAAAATAATATTTTATCTAAAG
*
138014 TTTAAAAATTAAAATAATATTTTATCTAAA
1 TTTAAAAATCAAAATAATATTTTATCTAAA
138044 CTTCAATGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (31 bp):
TTTAAAAATCAAAATAATATTTTATCTAAAG
Found at i:142064 original size:31 final size:30
Alignment explanation
Indices: 142029--142136 Score: 105
Period size: 31 Copynumber: 3.6 Consensus size: 30
142019 GCTTTAGTTG
142029 AATTCAATGATCAAATTGATATTTTATCTAA
1 AATTCAATGATCAAATTGATATTTTAT-TAA
*
142060 AATTC-ATGGATCAAAATGATATTTTATATAA
1 AATTCAAT-GATCAAATTGATATTTTAT-TAA
* * *
142091 AATTCAA-GGTCTAATT-AGTATTCTATTAA
1 AATTCAATGATCAAATTGA-TATTTTATTAA
* *
142120 AGTTCAATGATAAAATT
1 AATTCAATGATCAAATT
142137 AAAGGTTATC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
29 10 0.16
30 21 0.33
31 31 0.49
32 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (30 bp):
AATTCAATGATCAAATTGATATTTTATTAA
Found at i:150452 original size:55 final size:53
Alignment explanation
Indices: 150380--150756 Score: 221
Period size: 55 Copynumber: 7.0 Consensus size: 53
150370 AGGATAAATG
* * * *
150380 AGACTTGAAACATCTTCAAATGACGAGCCTGCTCCCTATTCCTTCAG-GAAGTATA
1 AGACTCGAAAAATCTTCAAA-AACG-GCCTGCTCTCTATTCCTTCAGAG-AGTATA
* * * *
150435 AGACTCGAACAATCTTCATAAAATGTGTCTGCTCTCTATTCATTCAGAGAGTATA
1 AGACTCGAAAAATCTTCA-AAAACG-GCCTGCTCTCTATTCCTTCAGAGAGTATA
* * **
150490 AGACTTGAATAATCTTCAATAAAACGGGTTCGCTCTCTATTCCTTCAGAGAGTAT-
1 AGACTCGAAAAATCTTC-A-AAAACGGCCT-GCTCTCTATTCCTTCAGAGAGTATA
* *
150545 AGAACTCGAAAAATCTTCAATAAACAGGTCC-GCTCCCTATTCTTTCAGAGAGTATA
1 AG-ACTCGAAAAATCTTCAA-AAAC-GG-CCTGCTCTCTATTCCTTCAGAGAGTATA
* * * * *
150601 GGACTC----AATCTTTAACAAACGTG-TTCGCTCCCTA-TCCGTTCAGGGAGTAT-
1 AGACTCGAAAAATCTTCAA-AAACG-GCCT-GCTCTCTATTCC-TTCAGAGAGTATA
150651 AGAACTCG----ATCTTCAATAAAACGGGTCC-GCTCTCTATTCCTTCAGAGAGTAT-
1 AG-ACTCGAAAAATCTTC-A-AAAAC-GG-CCTGCTCTCTATTCCTTCAGAGAGTATA
* *
150703 AGAACTCGAAAAATCTTCAATAAACAGGTCC-GCTCCCTATTCTTTCAGAGAGTA
1 AG-ACTCGAAAAATCTTCAA-AAAC-GG-CCTGCTCTCTATTCCTTCAGAGAGTA
150757 CAGGACTCAA
Statistics
Matches: 261, Mismatches: 35, Indels: 52
0.75 0.10 0.15
Matches are distributed among these distances:
50 4 0.02
51 41 0.16
52 32 0.12
53 5 0.02
54 2 0.01
55 122 0.47
56 55 0.21
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (53 bp):
AGACTCGAAAAATCTTCAAAAACGGCCTGCTCTCTATTCCTTCAGAGAGTATA
Found at i:150634 original size:51 final size:51
Alignment explanation
Indices: 150459--151085 Score: 718
Period size: 51 Copynumber: 12.0 Consensus size: 51
150449 TTCATAAAAT
* * * * **
150459 GTGTCTGCTCTCTATTCATTCAGAGAGTATAAGACTTGAATAATCTTCAATAAAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGAC-T---CAATCTTCAA-CGAAC
* * * * * **
150515 GGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC----AATCTTCAACGAAC
* * *
150570 AG-GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTTAACAAAC
1 -GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
* * * * * * **
150621 GTGTTCGCTCCCTATCCGTTCAGGGAGTATAGAACTCGATCTTCAATAAAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAA-CGAAC
* * * * **
150673 GGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC----AATCTTCAACGAAC
* *
150728 AG-GTCCGCTCCCTATTCTTTCAGAGAGTACAGGACTCAATCTTCAACGAAC
1 -GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
* * *
150779 TTGTCCGCTCCCTATTCTTTCAGAGAGTACAGGACTCAATCTTCAACGAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
* *
150830 TTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
*
150881 TTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
*
150932 TTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
*
150983 TTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
* *
151034 TTGTCCGCTCCCTATTCATTCAGAGAGTATAAGACTCAATCTTCAACGAAC
1 GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
151085 G
1 G
151086 AATTTGCTTC
Statistics
Matches: 517, Mismatches: 41, Indels: 31
0.88 0.07 0.05
Matches are distributed among these distances:
50 1 0.00
51 362 0.70
52 35 0.07
55 71 0.14
56 48 0.09
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (51 bp):
GTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
Found at i:152233 original size:14 final size:14
Alignment explanation
Indices: 152214--152261 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 14
152204 TGAACCCTCC
152214 TTTTATTTCTCTTT
1 TTTTATTTCTCTTT
152228 TTTTATTTTTCTCTTT
1 TTTTA--TTTCTCTTT
* *
152244 TTTCATTTTTCATTT
1 TTTTATTTCTC-TTT
152259 TTT
1 TTT
152262 CTTTTTCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 10 0.34
15 6 0.21
16 13 0.45
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTCTCTTT
Found at i:152240 original size:16 final size:16
Alignment explanation
Indices: 152219--152302 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
152209 CCTCCTTTTA
*
152219 TTTCTCTTTTTTTATT
1 TTTCTCTTTTTTCATT
152235 TTTCTCTTTTTTCATT
1 TTTCTCTTTTTTCATT
*
152251 TTTC-ATTTTTTC-TT
1 TTTCTCTTTTTTCATT
*
152265 TTTC-CATTTTCTTCTTT
1 TTTCTC-TTTT-TTCATT
* *
152282 TTTCGTTTTTTTTCGTT
1 TTTC-TCTTTTTTCATT
152299 TTTC
1 TTTC
152303 CATCATCATT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
14 6 0.10
15 11 0.19
16 22 0.38
17 15 0.26
18 4 0.07
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTCTCTTTTTTCATT
Found at i:152244 original size:7 final size:8
Alignment explanation
Indices: 152225--152292 Score: 63
Period size: 8 Copynumber: 8.8 Consensus size: 8
152215 TTTATTTCTC
*
152225 TTTTTTTA
1 TTTTTTCA
152233 TTTTTCTC-
1 TTTTT-TCA
152241 TTTTTTCA
1 TTTTTTCA
152249 -TTTTTCA
1 TTTTTTCA
152256 TTTTTTC-
1 TTTTTTCA
*
152263 TTTTTCCA
1 TTTTTTCA
152271 TTTTCTTC-
1 TTTT-TTCA
*
152279 TTTTTTCG
1 TTTTTTCA
152287 TTTTTT
1 TTTTTT
152293 TTCGTTTTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 18 0.35
8 30 0.59
9 3 0.06
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:152252 original size:22 final size:22
Alignment explanation
Indices: 152226--152291 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
152216 TTATTTCTCT
* *
152226 TTTTTTATTTTTCTCTTTTTTCA
1 TTTTTCATTTTT-TCTTTTTCCA
152249 TTTTTCATTTTTTCTTTTTCCA
1 TTTTTCATTTTTTCTTTTTCCA
152271 TTTTCTTC-TTTTTTCGTTTTT
1 -TTT-TTCATTTTTTC-TTTTT
152292 TTTCGTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 9 0.24
23 21 0.55
24 8 0.21
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTCATTTTTTCTTTTTCCA
Found at i:152272 original size:15 final size:15
Alignment explanation
Indices: 152226--152283 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
152216 TTATTTCTCT
*
152226 TTTTTTATTTTTCTC-
1 TTTTTTCTTTTTC-CA
152241 TTTTTTCATTTTT-CA
1 TTTTTTC-TTTTTCCA
152256 TTTTTTCTTTTTCCA
1 TTTTTTCTTTTTCCA
152271 TTTTCTTCTTTTT
1 TTTT-TTCTTTTT
152284 TCGTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 6 0.16
15 19 0.50
16 13 0.34
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCTTTTTCCA
Found at i:168140 original size:26 final size:27
Alignment explanation
Indices: 168097--168155 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
168087 ACACTTGAAA
*
168097 TATTTTTTCATTAAATAATTATTTAAAT
1 TATTTTTTCATTAAATAATCA-TTAAAT
*
168125 TATTTTTT-A-TATATAATCATTAAAT
1 TATTTTTTCATTAAATAATCATTAAAT
168150 TATTTT
1 TATTTT
168156 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 12 0.41
26 8 0.28
27 1 0.03
28 8 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTTTTTCATTAAATAATCATTAAAT
Found at i:168164 original size:18 final size:19
Alignment explanation
Indices: 168143--168179 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
168133 ATATATAATC
168143 ATTAAATTA-TTTTAAAAA
1 ATTAAATTAGTTTTAAAAA
168161 ATTAAATTAGTTTTTAAAA
1 ATTAAATTAG-TTTTAAAA
168180 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTAAATTAGTTTTAAAAA
Found at i:169475 original size:20 final size:21
Alignment explanation
Indices: 169450--169542 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
169440 TTTTCCCAAT
*
169450 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
169470 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
* *
169491 TCACAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
169511 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
169532 TCGCAATGCGA
1 TCGCAATGCGA
169543 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:169498 original size:41 final size:41
Alignment explanation
Indices: 169453--169542 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
169443 TCCCAATTCG
169453 CAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCA
1 CAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCA
*
169494 CAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCG
1 CAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCA
169535 CAATGCGA
1 CAATGCGA
169543 TACTGACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (41 bp):
CAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCA
Found at i:169555 original size:41 final size:41
Alignment explanation
Indices: 169469--169603 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
169459 GAATAAGTAA
* * *
169469 ATCGCAACGCGAATTGGGAAAATCACAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
169510 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
169551 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
169592 TTCGCAACGCGA
1 ATCGCAACGCGA
169604 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:169556 original size:20 final size:20
Alignment explanation
Indices: 169531--169625 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
169521 AATTGGGAAA
*
169531 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
169551 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
169572 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
169592 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
169612 TTCGCAACGCGATA
1 ATCGCAACGCGATA
169626 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:171486 original size:18 final size:18
Alignment explanation
Indices: 171465--171509 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
171455 TCCACTTCGG
*
171465 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
171483 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
171501 GAGCCATCA
1 GAGCCATCA
171510 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:172036 original size:19 final size:20
Alignment explanation
Indices: 171993--172048 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
171983 CGTAACACGA
171993 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
172013 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
172032 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
172049 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:172056 original size:14 final size:14
Alignment explanation
Indices: 172037--172094 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
172027 ATGCGAAATG
172037 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
172051 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
172067 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
172083 AAAATCGCAACG
1 AAAATCGCAACG
172095 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:172079 original size:32 final size:33
Alignment explanation
Indices: 172021--172111 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
172011 GGAAATGGCT
172021 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
172054 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
172086 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
172112 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:172105 original size:19 final size:19
Alignment explanation
Indices: 172021--172116 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
172011 GGAAATGGCT
172021 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
172040 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
172054 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
172072 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
172086 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
172105 ATCGCAATGCGA
1 ATCGCAATGCGA
172117 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.33
15 1 0.02
16 6 0.10
17 2 0.03
18 11 0.18
19 21 0.34
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:172147 original size:14 final size:14
Alignment explanation
Indices: 172128--172185 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
172118 TTGTGTTTCG
172128 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
172142 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
172158 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
172174 CGTTGCGATTTT
1 CGTTGCGATTTT
172186 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:172162 original size:32 final size:33
Alignment explanation
Indices: 172123--172201 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
172113 GCGATTTGTG
172123 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
172155 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
172188 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
172202 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:172200 original size:19 final size:19
Alignment explanation
Indices: 172144--172243 Score: 77
Period size: 19 Copynumber: 5.5 Consensus size: 19
172134 GATTTTGTCG
*
172144 TTGCGA-TTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
172162 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
172176 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
***
172195 TTGCGATAGCCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
** *
172215 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
172234 TTGCGATTTT
1 TTGCGATTTT
172244 AAGTTTCGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 4 0.06
17 4 0.06
18 9 0.13
19 23 0.34
20 18 0.27
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:172216 original size:20 final size:19
Alignment explanation
Indices: 172186--172240 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
172176 TTGCGATTTT
172186 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
172205 CATTTCCGCATTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
172225 CATTTCGCGTTGCGAT
1 CATTTCGCATTGCGAT
172241 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:174272 original size:19 final size:19
Alignment explanation
Indices: 174250--174317 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
174240 ATCGCAACGA
174250 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
174269 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
174288 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
174302 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
174318 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:174361 original size:20 final size:20
Alignment explanation
Indices: 174336--174413 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
174326 TCGCATTGCG
* *
174336 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
174356 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
174376 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
174396 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
174414 TCAAATGAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:175495 original size:24 final size:24
Alignment explanation
Indices: 175468--175521 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
175458 GTATTCAAAA
* *
175468 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
175492 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
175516 TTTGAT
1 TTTGAT
175522 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:178023 original size:19 final size:19
Alignment explanation
Indices: 178001--178130 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
177991 GGAAATTACT
178001 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
178020 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
178034 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
178053 ATCGCAA--CG--CT--AA
1 ATCGCAATGCGAAATGAAA
*
178066 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
178085 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
178099 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
178118 ATCGCAACGCGAA
1 ATCGCAATGCGAA
178131 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 11, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
13 8 0.10
14 19 0.23
15 5 0.06
16 4 0.05
17 7 0.08
18 2 0.02
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:178043 original size:33 final size:33
Alignment explanation
Indices: 178001--178126 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
177991 GGAAATTACT
178001 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
178034 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
178066 TTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
178099 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
178127 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
32 28 0.33
33 57 0.67
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:178106 original size:65 final size:65
Alignment explanation
Indices: 178002--178132 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
177992 GAAATTACTA
*
178002 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
*
178067 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
178132 T
1 T
178133 TAATTTCGCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
Found at i:178308 original size:14 final size:14
Alignment explanation
Indices: 178289--178325 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
178279 CATCAATTAA
178289 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
178303 ACAAATCACCTTTT
1 ACAAATCAACTTTT
178317 ACAAATCAA
1 ACAAATCAA
178326 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:179744 original size:21 final size:21
Alignment explanation
Indices: 179678--179744 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
179668 GTGAATCGGG
*
179678 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
179698 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
179720 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
179741 CTCT
1 CTCT
179745 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:179763 original size:42 final size:41
Alignment explanation
Indices: 179678--179800 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
179668 GTGAATCGGG
* * * * *
179678 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
179720 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * ** *
179762 CTCTTCAACGATAGGAGTAGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
179801 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:181883 original size:33 final size:33
Alignment explanation
Indices: 181826--181924 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
181816 ACGAGATAAT
*
181826 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
181860 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
181893 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
181925 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:181918 original size:19 final size:19
Alignment explanation
Indices: 181801--181984 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
181791 TCTTTTGGTT
*
181801 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
181820 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
181840 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
181858 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
181874 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
181892 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
181907 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
181927 GAAAT-AAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
181945 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
181964 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
181983 GA
1 GA
181985 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 13, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 12 0.09
19 64 0.46
20 35 0.25
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:182629 original size:21 final size:21
Alignment explanation
Indices: 182596--182696 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
182586 TGCGAAAGTA
* * *
182596 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
182617 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
182637 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
182659 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
182680 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
182697 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:182644 original size:20 final size:20
Alignment explanation
Indices: 182559--182652 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
182549 CGTTATGTAA
* *
182559 ATCGCGTTGCGAAAGTCAAT
1 ATCGCGTTGCGATAGTCAGT
* *
182579 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
182599 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
182620 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
182640 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
182653 TTTCCCAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:182671 original size:41 final size:42
Alignment explanation
Indices: 182575--182714 Score: 144
Period size: 41 Copynumber: 3.4 Consensus size: 42
182565 TTGCGAAAGT
* * * *
182575 CAATATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-T
1 CAATATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCC
* * * *
182616 TATTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCC
1 CAATATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCC
* **
182658 CAAT-TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCC
1 CAATATCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCC
182699 CAAT-TCGCGTTGCGAT
1 CAATATCGCGTTGCGAT
182715 TTACTTATTC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 77 0.94
42 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (42 bp):
CAATATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCC
Found at i:182706 original size:21 final size:20
Alignment explanation
Indices: 182641--182733 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
182631 ATAGTCAGTA
*
182641 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
182662 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
182682 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
182703 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
182723 TCGCATTGCGA
1 TCGCATTGCGA
182734 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:182715 original size:41 final size:41
Alignment explanation
Indices: 182641--182733 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
182631 ATAGTCAGTA
182641 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
182682 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
182723 TCGCATTGCGA
1 TCGCATTGCGA
182734 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:192294 original size:85 final size:84
Alignment explanation
Indices: 192178--192384 Score: 224
Period size: 85 Copynumber: 2.5 Consensus size: 84
192168 TTAGAGTATT
** *
192178 TTGGCCCGTAATGTTTCATCAT-GGGTCAAAAAGGCTCCTAACGTTTGAATAAATGATCATTTTA
1 TTGGCCC-TAATGTTTCATTTTAGGGT-AAAAAGGCTCCTAACGTTTGAATAAATAATCATTTTA
* **
192242 AATCTTATTTTTTGGAGCATC
64 AACCACATTTTTTGGAGCATC
* *
192263 TTGGCCTCTAATGTTTCATTTTAGGGTAAAAAGAC-CCTTATCGTTTGAATAAATAATCATTTTA
1 TTGGCC-CTAATGTTTCATTTTAGGGTAAAAAGGCTCC-TAACGTTTGAATAAATAATCATTTTA
* * *
192327 GACCACATTTTTTGGAGTATT
64 AACCACATTTTTTGGAGCATC
**
192348 TTGGCCCCTAATGTTTTGTTTTAGGG-AAAAAGG-TCCT
1 TTGG-CCCTAATGTTTCATTTTAGGGTAAAAAGGCTCCT
192385 TATTTTAGAG
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
83 1 0.01
84 10 0.10
85 85 0.83
86 7 0.07
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (84 bp):
TTGGCCCTAATGTTTCATTTTAGGGTAAAAAGGCTCCTAACGTTTGAATAAATAATCATTTTAAA
CCACATTTTTTGGAGCATC
Done.