Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000251.1 Hibiscus syriacus cultivar Beakdansim tig00000453_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: 648719
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:2055 original size:2 final size:2
Alignment explanation
Indices: 2048--2142 Score: 147
Period size: 2 Copynumber: 48.0 Consensus size: 2
2038 ATATGTGTAC
*
2048 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT CT 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
* * *
2089 AT AT AT AT AG AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2131 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2143 GAATATACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3207 original size:3 final size:3
Alignment explanation
Indices: 3199--3235 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
3189 ACAAAATGAT
3199 TAA TAA TAA TAA TAA -ACA TAA TAA TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
3236 GTTTAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.10
3 27 0.87
4 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:3844 original size:128 final size:129
Alignment explanation
Indices: 3439--3866 Score: 425
Period size: 140 Copynumber: 3.2 Consensus size: 129
3429 AGGGTGACAT
* * * * * *
3439 TCCTACGTGATGAGGAAATCTGGTCGAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTC
1 TCCTACGTGATGAGGAGATCTAGTCAAGGGATGACACTGCTCATACGTGATGAAGAGTTCTGGCC
*
3504 ATCTTTAAGAAGGGTGATAACTAGGTTCCTACGTAATGAGGACGGCTGATTATCTAAGGTTGACA
66 AT-TTT-AGAA-GGTGATAACTA-GTTCCTACGTAATGAGGACGGCTGGTTATCTAAGGTTGACA
3569 CGGC
127 C-GC
* * * *
3573 TCCTACGTGATGAGGAGGTCTGATCGTCTAAGGGTAGATGACA-TGGTTCATACATGATGAAGAA
1 TCCTACGTGATGAGGAGATCT-A--GTC-AA-GG--GATGACACT-GCTCATACGTGATGAAGAG
* * ** * *
3637 TTCTGGCCATCTTAGGAAGGGTGATAACTTGGTTCCTACGCGATGAGGACAGCTGGTTATCTAGG
58 TTCTGGCCATTTTA-GAA-GGTGATAAC-TAGTTCCTACGTAATGAGGACGGCTGGTTATCTAAG
*
3702 GGTGACACGAC
120 GTTGACACG-C
*
3713 TCCTACGTGATGAGGAGATCTAATC-AGGGATGACACTGCTC-TACGTGATGAAGAGTTCTTGGC
1 TCCTACGTGATGAGGAGATCTAGTCAAGGGATGACACTGCTCATACGTGATGAAGAGTTC-TGGC
* * **
3776 CATTTTA-TA-GTGATAACATAGTTCCTACGTAATGAGGACGGCTGGTTATCTAATGTTGACGTT
65 CATTTTAGAAGGTGATAAC-TAGTTCCTACGTAATGAGGACGGCTGGTTATCTAAGGTTGAC-AC
3839 GC
128 GC
*
3841 TCCTACGTGATGAGGAGATCTGGTCA
1 TCCTACGTGATGAGGAGATCTAGTCA
3867 GCTGATGTTG
Statistics
Matches: 242, Mismatches: 37, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
128 67 0.28
129 1 0.00
130 1 0.00
131 15 0.06
132 20 0.08
133 1 0.00
134 21 0.09
135 1 0.00
137 5 0.02
138 1 0.00
139 5 0.02
140 72 0.30
141 32 0.13
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (129 bp):
TCCTACGTGATGAGGAGATCTAGTCAAGGGATGACACTGCTCATACGTGATGAAGAGTTCTGGCC
ATTTTAGAAGGTGATAACTAGTTCCTACGTAATGAGGACGGCTGGTTATCTAAGGTTGACACGC
Found at i:18190 original size:10 final size:10
Alignment explanation
Indices: 18175--18204 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
18165 TGAAAATTAA
*
18175 TAATAATAGT
1 TAATAATAAT
18185 TAATAATAAT
1 TAATAATAAT
18195 TAATAATAAT
1 TAATAATAAT
18205 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (10 bp):
TAATAATAAT
Found at i:18206 original size:13 final size:14
Alignment explanation
Indices: 18169--18206 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
18159 GTAATATGAA
18169 AATTAATAATAA-T
1 AATTAATAATAATT
*
18182 AGTTAATAATAATT
1 AATTAATAATAATT
18196 AA-TAATAATAA
1 AATTAATAATAA
18207 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 20 0.91
14 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AATTAATAATAATT
Found at i:19977 original size:156 final size:156
Alignment explanation
Indices: 19771--20084 Score: 601
Period size: 156 Copynumber: 2.0 Consensus size: 156
19761 CACTCTACCT
19771 TTTCTTTTTACGTTTCATTCTTATTCTTGATTCATCTTCTTATTGTACTTTGCATGTTAGTTGAT
1 TTTCTTTTTACGTTTCATTCTTATTCTTGATTCATCTTCTTATTGTACTTTGCATGTTAGTTGAT
*
19836 GTGATTAGTAATTGACAGCTACATTTCATTGTTGTTTTCTGTCAATTATGTGGAAGTTTGGGTCT
66 GTGATTAGTAATTGACAGCTACATTTCATTGTTGTTTTCTGTCAATTATGTGGAAGTTTGGATCT
*
19901 TTTCTTATTGTTTAAGGGTCAGTGTG
131 TTTCTTATTGTTTAAGGGTCAATGTG
19927 TTTCTTTTTACGTTTCATTCTTATTCTTGATTCATCTTCTTATTGTACTTTGCATGTTAGTTGAT
1 TTTCTTTTTACGTTTCATTCTTATTCTTGATTCATCTTCTTATTGTACTTTGCATGTTAGTTGAT
*
19992 GTGATTAGTAATTGAGAGCTACATTTCATTGTTGTTTTCTGTCAATTATGTGGAAGTTTGGATCT
66 GTGATTAGTAATTGACAGCTACATTTCATTGTTGTTTTCTGTCAATTATGTGGAAGTTTGGATCT
20057 TTTCTTATTGTTTAAGGGTCAATGTG
131 TTTCTTATTGTTTAAGGGTCAATGTG
20083 TT
1 TT
20085 ACAACTGTTC
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (156 bp):
TTTCTTTTTACGTTTCATTCTTATTCTTGATTCATCTTCTTATTGTACTTTGCATGTTAGTTGAT
GTGATTAGTAATTGACAGCTACATTTCATTGTTGTTTTCTGTCAATTATGTGGAAGTTTGGATCT
TTTCTTATTGTTTAAGGGTCAATGTG
Found at i:22852 original size:15 final size:16
Alignment explanation
Indices: 22811--22858 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
22801 AGTTTAACGT
22811 ATTTATA-AAAATATAA
1 ATTTATATAAAATAT-A
*
22827 ATTTTTATAAAATATA
1 ATTTATATAAAATATA
*
22843 A-TTATATAAAAAATA
1 ATTTATATAAAATATA
22858 A
1 A
22859 AATGAACCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.46
16 8 0.29
17 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTATATAAAATATA
Found at i:22855 original size:17 final size:17
Alignment explanation
Indices: 22811--22861 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22801 AGTTTAACGT
22811 ATTTAT-AAAAATATAA
1 ATTTATAAAAAATATAA
* *
22827 ATTTTTATAAAATAT-A
1 ATTTATAAAAAATATAA
22843 ATTATATAAAAAATA-AA
1 ATT-TATAAAAAATATAA
22860 AT
1 AT
22862 GAACCTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTATAAAAAATATAA
Found at i:23022 original size:14 final size:14
Alignment explanation
Indices: 23003--23039 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22993 ATCAAAACAT
23003 TGAAAAATATTTCC
1 TGAAAAATATTTCC
*
23017 TGAAAAATATTTTC
1 TGAAAAATATTTCC
*
23031 TAAAAAATA
1 TGAAAAATA
23040 ATTCATTTTT
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:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (14 bp):
TGAAAAATATTTCC
Found at i:24402 original size:2 final size:2
Alignment explanation
Indices: 24395--24426 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24385 GTATTAATCA
24395 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
24427 GTATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32746 original size:262 final size:263
Alignment explanation
Indices: 32281--32805 Score: 1016
Period size: 262 Copynumber: 2.0 Consensus size: 263
32271 TTGGCTATGA
32281 ATTGAAAGGTAAGCTCGATAATTTAACCCATGAGATAAGATTGGATAGCGATGACCTTTTGGATT
1 ATTGAAAGGTAAGCTCGATAATTTAACCCATGAGATAAGATTGGATAGCGATGACCTTTTGGATT
32346 TGACATCGAGGATGAAGATTTGGATTTGGTTCTTCATGAATAATAACAGTGTTAGAGGAAAAGGC
66 TGACATCGAGGATGAAGATTTGGATTTGGTTCTTCATGAATAATAACAGTGTTAGAGGAAAAGGC
32411 TCAAACGAGATTAGGATAGATGACATCATAAATATGCATAAGATTGAGCCACTCCCAAGTGGTAA
131 TCAAACGAGATTAGGATAGATGACATCATAAATATGCATAAGATTGAGCCACTCCCAAGTGGTAA
32476 AAAACTGAAGAAAACTAAATTTATAAATGTTGGAGAA-AGAAATTCTTCATCAAATTTACGTTCC
196 AAAACTGAAGAAAACTAAATTTATAAATGTTGGAGAATAGAAATTCTTCATCAAATTTACGTTCC
32540 GGT
261 GGT
32543 ATTGAAAGGTAAGCTCGATAATTTAACCCATGAGATAAGATTGGATAGCGATGACCTTTTGGATT
1 ATTGAAAGGTAAGCTCGATAATTTAACCCATGAGATAAGATTGGATAGCGATGACCTTTTGGATT
* *
32608 TGACATCGAGGATGAAGATTTGGATTTGGTTCTTCATGAATAATAGCGGTGTTAGAGGAAAAGGC
66 TGACATCGAGGATGAAGATTTGGATTTGGTTCTTCATGAATAATAACAGTGTTAGAGGAAAAGGC
*
32673 TCAAACGAGATTAGGATAGATGACATCATGAATATGCATAAGATTGAGCCACTCCCAAGTGGTAA
131 TCAAACGAGATTAGGATAGATGACATCATAAATATGCATAAGATTGAGCCACTCCCAAGTGGTAA
32738 AAAACTGAAGAAAACTAAATTTATAAATGTTGGAGAATAGAAATTCTTCATCAAATTTACGTTCC
196 AAAACTGAAGAAAACTAAATTTATAAATGTTGGAGAATAGAAATTCTTCATCAAATTTACGTTCC
32803 GGT
261 GGT
32806 CGAATTTGTC
Statistics
Matches: 259, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
262 229 0.88
263 30 0.12
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (263 bp):
ATTGAAAGGTAAGCTCGATAATTTAACCCATGAGATAAGATTGGATAGCGATGACCTTTTGGATT
TGACATCGAGGATGAAGATTTGGATTTGGTTCTTCATGAATAATAACAGTGTTAGAGGAAAAGGC
TCAAACGAGATTAGGATAGATGACATCATAAATATGCATAAGATTGAGCCACTCCCAAGTGGTAA
AAAACTGAAGAAAACTAAATTTATAAATGTTGGAGAATAGAAATTCTTCATCAAATTTACGTTCC
GGT
Found at i:42017 original size:28 final size:28
Alignment explanation
Indices: 41985--42045 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
41975 GGCACCTATG
*
41985 GTGCAAATTACCTACGAGGTACTTTCGA
1 GTGCAAATTACCTACGAGGCACTTTCGA
* * * * *
42013 GTGCAAGTTATCTATGATGCATTTTCGA
1 GTGCAAATTACCTACGAGGCACTTTCGA
42041 GTGCA
1 GTGCA
42046 TATTGCGCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (28 bp):
GTGCAAATTACCTACGAGGCACTTTCGA
Found at i:44505 original size:17 final size:17
Alignment explanation
Indices: 44483--44536 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
44473 AATGTTAATA
44483 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
44500 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
44517 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
44534 TTT
1 TTT
44537 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:46095 original size:21 final size:21
Alignment explanation
Indices: 46065--46112 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
46055 GCAGGGGTAC
* *
46065 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
46086 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
46107 ATGCCA
1 ATGCCA
46113 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:46142 original size:21 final size:21
Alignment explanation
Indices: 46116--46188 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
46106 TATGCCATCT
*
46116 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
46137 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
46158 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
46179 CCGCAGGGTT
1 CCGCAGGGTT
46189 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:46760 original size:34 final size:34
Alignment explanation
Indices: 46710--46807 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
46700 AAATGTTTTT
* *
46710 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* * *
46744 AAAATAAAAATAATATTATTCAAAATTTAAATTT
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* *
46778 AAAATATAAATTATAGTATTCAAAATTTAA
1 AAAATAAAAATTATATTATTCAAAATTTAA
46808 CATTAAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCAAAATTTAAAATA
Found at i:48369 original size:128 final size:128
Alignment explanation
Indices: 48210--48699 Score: 822
Period size: 128 Copynumber: 3.8 Consensus size: 128
48200 TTACCTGATT
* *
48210 TACTGATATATCTAGTGTCCCCCAGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
48275 TGACAAAATAATGGAAGGCGCTCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
48338 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
48403 TGACAAAATAATGGAAGACGCGCCCCCGGGAACGCGCCTTCAATTCCCCTGAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
*
48466 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** * *
48531 TGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGT
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
* *
48594 TACTGATATATCTAGTGTTCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT-
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
48658 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
48700 TGTGAATAGT
Statistics
Matches: 342, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
127 42 0.12
128 300 0.88
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGG
Found at i:48793 original size:8 final size:8
Alignment explanation
Indices: 48780--48820 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
48770 TCACAAGCTT
48780 TCAAATTC
1 TCAAATTC
48788 TCAAATTC
1 TCAAATTC
* *
48796 CCAAACTC
1 TCAAATTC
48804 T-AAATTC
1 TCAAATTC
48811 TCAAATTC
1 TCAAATTC
48819 TC
1 TC
48821 TGAAGATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:53495 original size:16 final size:17
Alignment explanation
Indices: 53463--53495 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53453 CGGGTTAGGG
53463 TTAGGGATTTAGGGTTT
1 TTAGGGATTTAGGGTTT
53480 TTAGGGATTT-GGGTTT
1 TTAGGGATTTAGGGTTT
53496 GTTTTTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.48
Consensus pattern (17 bp):
TTAGGGATTTAGGGTTT
Found at i:54103 original size:17 final size:18
Alignment explanation
Indices: 54081--54114 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
54071 AGCCCACTAA
54081 GAATTCAAA-TTAAATCT
1 GAATTCAAACTTAAATCT
54098 GAATTCAAACTTAAATC
1 GAATTCAAACTTAAATC
54115 AAATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (18 bp):
GAATTCAAACTTAAATCT
Found at i:54119 original size:17 final size:17
Alignment explanation
Indices: 54082--54119 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
54072 GCCCACTAAG
*
54082 AATTCAAATTAAATCTG
1 AATTCAAATTAAATCTA
54099 AATTCAAACTTAAATC-A
1 AATTCAAA-TTAAATCTA
54116 AATT
1 AATT
54120 TATTTACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (17 bp):
AATTCAAATTAAATCTA
Found at i:54395 original size:27 final size:26
Alignment explanation
Indices: 54336--54396 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
54326 TACTCAAAAT
54336 ATTATTATTTTATATACTTAATATTA
1 ATTATTATTTTATATACTTAATATTA
* *
54362 ATATATTATTTTAATATCATTTTA-ATTA
1 AT-TATTATTTT-ATAT-ACTTAATATTA
54390 ATTATTA
1 ATTATTA
54397 AATTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.07
27 14 0.47
28 10 0.33
29 4 0.13
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATTATTTTATATACTTAATATTA
Found at i:54486 original size:29 final size:29
Alignment explanation
Indices: 54445--54500 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
54435 ATTTTTATTG
54445 TTATAATTATATTATT-ATAATATATAATA
1 TTATAATTATATT-TTAATAATATATAATA
* * *
54474 TTATACTTTTATTTTAATGATATATAA
1 TTATAATTATATTTTAATAATATATAA
54501 AAAATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
TTATAATTATATTTTAATAATATATAATA
Found at i:54921 original size:13 final size:14
Alignment explanation
Indices: 54899--54931 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
54889 TAAACACTAT
54899 AAAATAA-TTTTTA
1 AAAATAATTTTTTA
*
54912 AAAATTATTTTTTA
1 AAAATAATTTTTTA
54926 AAAATA
1 AAAATA
54932 TAATTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAATAATTTTTTA
Found at i:58943 original size:14 final size:14
Alignment explanation
Indices: 58924--58982 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
58914 AACCCAAACA
*
58924 GAGTCAACTCATTT
1 GAGTCAACTCATCT
*
58938 GAGTCAACTCATCC
1 GAGTCAACTCATCT
* * *
58952 AAGTGAACTCGTCT
1 GAGTCAACTCATCT
*
58966 GAGTCAACTCATAT
1 GAGTCAACTCATCT
58980 GAG
1 GAG
58983 CCAATCAAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (14 bp):
GAGTCAACTCATCT
Found at i:61776 original size:90 final size:90
Alignment explanation
Indices: 61623--61802 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
61613 TATCAGTGGA
61623 ACCTCAGATCATCCCGAAAACCTATAGACATCTCAATCAACAAGGAAAATTTATGTTTTTCCATT
1 ACCTCAGATCATCCCGAAAACCTATAGACATCTCAATCAACAAGGAAAATTTATGTTTTTCCATT
61688 AATCTGCATGTCCTTCAGCATCACT
66 AATCTGCATGTCCTTCAGCATCACT
61713 ACCTCAGATCATCCCGAAAACCTATAGACATCTCAATCAACAAGGAAAATTTATGTTTTTCCATT
1 ACCTCAGATCATCCCGAAAACCTATAGACATCTCAATCAACAAGGAAAATTTATGTTTTTCCATT
61778 AATCTGCATGTCCTTCAGCATCACT
66 AATCTGCATGTCCTTCAGCATCACT
61803 TGGTAGTTAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (90 bp):
ACCTCAGATCATCCCGAAAACCTATAGACATCTCAATCAACAAGGAAAATTTATGTTTTTCCATT
AATCTGCATGTCCTTCAGCATCACT
Found at i:63595 original size:26 final size:24
Alignment explanation
Indices: 63533--63595 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
63523 CATTTTAATC
63533 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
63557 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
63580 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
63596 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:63597 original size:22 final size:23
Alignment explanation
Indices: 63567--63613 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
63557 AAAATATATT
63567 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
63590 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
63612 TA
1 TA
63614 AAACTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:63719 original size:27 final size:26
Alignment explanation
Indices: 63672--63773 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 26
63662 TATATAAAAC
* *
63672 ATTATTAATAA-AATTTATATTATTT
1 ATTATTAATAATAAATAATATTATTT
* *
63697 ATTAACTTCAT-ATAAATAATATTATTAA
1 ATT-A-TTAATAATAAATAATATTATT-T
*
63725 ATTATTAATAATGAATAATATTATTT
1 ATTATTAATAATAAATAATATTATTT
*
63751 ATATATTTAATATTAATATAATA
1 AT-TA-TTAATAATAA-ATAATA
63774 ATCTAATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
25 3 0.05
26 8 0.13
27 32 0.53
28 11 0.18
29 6 0.10
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTATTAATAATAAATAATATTATTT
Found at i:63941 original size:33 final size:33
Alignment explanation
Indices: 63872--63942 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
63862 ATATAATTTA
** *
63872 TAATATTTTTATTTCAATAAAATATACCAATAT
1 TAATATTTTTATTTCAATAAAATATAAAAAAAT
63905 TAATATTTTTA-TT-AATAAAATCATAAAAAAATT
1 TAATATTTTTATTTCAATAAAAT-ATAAAAAAA-T
63938 TAATA
1 TAATA
63943 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 8 0.24
32 8 0.24
33 17 0.52
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (33 bp):
TAATATTTTTATTTCAATAAAATATAAAAAAAT
Found at i:64572 original size:30 final size:29
Alignment explanation
Indices: 64533--64597 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
64523 TTTGGTTTGG
* * *
64533 TTAATCAAACCAAAATTTATTTGAAAATTA
1 TTAACCAAACC-AAATTAATTTAAAAATTA
*
64563 TTAACCAAACCGAATTAATTTAAAAATTA
1 TTAACCAAACCAAATTAATTTAAAAATTA
64592 TTAACC
1 TTAACC
64598 GAACTGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (29 bp):
TTAACCAAACCAAATTAATTTAAAAATTA
Found at i:64578 original size:29 final size:29
Alignment explanation
Indices: 64546--64608 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
64536 ATCAAACCAA
* *
64546 AATTTATTTGAAAATTATTAACCAAACCG
1 AATTAATTTAAAAATTATTAACCAAACCG
* *
64575 AATTAATTTAAAAATTATTAACCGAACTG
1 AATTAATTTAAAAATTATTAACCAAACCG
64604 AATTA
1 AATTA
64609 GCAGTTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (29 bp):
AATTAATTTAAAAATTATTAACCAAACCG
Found at i:64707 original size:54 final size:54
Alignment explanation
Indices: 64625--64805 Score: 272
Period size: 54 Copynumber: 3.4 Consensus size: 54
64615 TTGTTTCTTG
* * *
64625 AAAATGCACCCTTAGTGCCGAAACGGTTATTCATCCGCATAGGATGAATTCCAT
1 AAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGT
** *
64679 AAAATGCACACTTAGTGCCGAAACGGTTATTTGTCCACATAGGATGATTTCCGT
1 AAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGT
* * *
64733 GAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGGATGAATTTCGT
1 AAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGT
*
64787 GAAATGCACACTTAGTGCC
1 AAAATGCACACTTAGTGCC
64806 TATTTGGTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (54 bp):
AAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGT
Found at i:65248 original size:20 final size:20
Alignment explanation
Indices: 65223--65274 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
65213 CTGTTTTGAA
*
65223 TGGTATCGATACAT-TCCCTT
1 TGGTATCGATAC-TCCCCCTT
65243 TGGTATCGATACTCCCCCTT
1 TGGTATCGATACTCCCCCTT
*
65263 CGGTATCGATAC
1 TGGTATCGATAC
65275 CTATTAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (20 bp):
TGGTATCGATACTCCCCCTT
Found at i:69644 original size:45 final size:45
Alignment explanation
Indices: 69542--69645 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 45
69532 TATCATCCCA
*
69542 TCATGCTTATAATACACCATGATACCATTTCCATTATGGCATACTT
1 TCATGCTT-TTATACACCATGATACCATTTCCATTATGGCATACTT
* * * *
69588 TCATGTTTTTATACACTATTATA-CATTT-CATTTATGGCATCCTT
1 TCATGCTTTTATACACCATGATACCATTTCCA-TTATGGCATACTT
69632 TCATGCCTTTTATA
1 TCATG-CTTTTATA
69646 TTCTGTTTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.04
44 22 0.44
45 19 0.38
46 7 0.14
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (45 bp):
TCATGCTTTTATACACCATGATACCATTTCCATTATGGCATACTT
Found at i:71199 original size:18 final size:18
Alignment explanation
Indices: 71176--71228 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
71166 AGAATTTGTT
*
71176 CCAAAGGACCACTATGTC
1 CCAAAGGACCACTATATC
71194 CCAAAGGACCACTATATC
1 CCAAAGGACCACTATATC
*
71212 CCGAAGGACCAC-ATATC
1 CCAAAGGACCACTATATC
71229 ACATATATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.36, C:0.34, G:0.15, T:0.15
Consensus pattern (18 bp):
CCAAAGGACCACTATATC
Found at i:71262 original size:44 final size:44
Alignment explanation
Indices: 71192--71291 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 44
71182 GACCACTATG
71192 TCCCAAAGGACCACTATATCCCGAAGGACCACATATCACATATA
1 TCCCAAAGGACCACTATATCCCGAAGGACCACATATCACATATA
* * * *
71236 TCCCGAAGGACCACTATGTCCTGAAGGACCACATATCACATATG
1 TCCCAAAGGACCACTATATCCCGAAGGACCACATATCACATATA
71280 TCCCAAAGGACC
1 TCCCAAAGGACC
71292 GCTCCTTAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (44 bp):
TCCCAAAGGACCACTATATCCCGAAGGACCACATATCACATATA
Found at i:73422 original size:34 final size:32
Alignment explanation
Indices: 73362--73431 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
73352 CCTTACAAAC
*
73362 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
* *
73394 TCCCTAGCTTTTACACGGGCTTAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
73428 TCCC
1 TCCC
73432 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:76465 original size:18 final size:18
Alignment explanation
Indices: 76439--76501 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
76429 ACTTAGAATT
*
76439 TGTCTCGAATGACCACTA
1 TGTCCCGAATGACCACTA
*
76457 TGTCCCGAAGGACCACTA
1 TGTCCCGAATGACCACTA
76475 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
*
76493 TATCCCGAA
1 TGTCCCGAA
76502 GGACGACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:76983 original size:15 final size:15
Alignment explanation
Indices: 76963--76998 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
76953 GTTTATATCA
76963 TATTCACACAACATG
1 TATTCACACAACATG
76978 TATT--CACAACATG
1 TATTCACACAACATG
76991 TATTCACA
1 TATTCACA
76999 ACAATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.68
15 6 0.32
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.31
Consensus pattern (15 bp):
TATTCACACAACATG
Found at i:76987 original size:13 final size:13
Alignment explanation
Indices: 76969--77001 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
76959 ATCATATTCA
76969 CACAACATGTATT
1 CACAACATGTATT
76982 CACAACATGTATT
1 CACAACATGTATT
76995 CACAACA
1 CACAACA
77002 ATCATATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (13 bp):
CACAACATGTATT
Found at i:77456 original size:21 final size:22
Alignment explanation
Indices: 77430--77503 Score: 102
Period size: 21 Copynumber: 3.5 Consensus size: 22
77420 AAGTTCCCCG
77430 GGTATCGATATCCTACA-CATA-
1 GGTATCGATA-CCTACATCATAT
77451 GGTATCGATACC-ACATCATAT
1 GGTATCGATACCTACATCATAT
*
77472 GGTATCGATA-CTTCATCATAT
1 GGTATCGATACCTACATCATAT
77493 GGTATCGATAC
1 GGTATCGATAC
77504 TTTTCATACA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
19 3 0.06
20 7 0.15
21 38 0.79
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (22 bp):
GGTATCGATACCTACATCATAT
Found at i:77518 original size:21 final size:21
Alignment explanation
Indices: 77445--77524 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
77435 CGATATCCTA
**
77445 CACATAGGTATCGATACCACAT
1 CACAT-GGTATCGATACTTCAT
*
77467 CATATGGTATCGATACTTCAT
1 CACATGGTATCGATACTTCAT
*
77488 CATATGGTATCGATACTTTTCAT
1 CACATGGTATCGATAC--TTCAT
77511 -ACAT-GTATCGATAC
1 CACATGGTATCGATAC
77525 CCTATGCATC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
21 40 0.77
22 7 0.13
23 5 0.10
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (21 bp):
CACATGGTATCGATACTTCAT
Found at i:78549 original size:79 final size:79
Alignment explanation
Indices: 78439--78793 Score: 559
Period size: 79 Copynumber: 4.5 Consensus size: 79
78429 CATTATTTCA
* * *
78439 TTTCATGTCAATAATGCACCCATATGCATTATTCTGTTATGTCGATAATGTACCCATATACATAT
1 TTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCGATAATGTACCCATATACATAT
*
78504 CAGCTAAGGCATCT
66 CAGCTAAGGCATCC
* * *
78518 TTTTATGCCACTAATGCACCCGTATGCATTATTTTGTTATGCCGATAATGTACCCATATACATAT
1 TTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCGATAATGTACCCATATACATAT
*
78583 CAGTTAAGGCATCC
66 CAGCTAAGGCATCC
*
78597 TTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATATACATAT
1 TTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCGATAATGTACCCATATACATAT
*
78662 CAGCTAAGACATCC
66 CAGCTAAGGCATCC
* * * *
78676 TTTCATGCCACTAATGCACCGATATGCATTATTTTGTTATTCCAATAATGTACCCATATACATAT
1 TTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCGATAATGTACCCATATACATAT
78741 CAGCTAAGGCATCC
66 CAGCTAAGGCATCC
* *
78755 -TTCATGCCACTAATTCACCCATATGCATTATTCTTTTAT
1 TTTCATGCCACTAATGCACCCATATGCATTATTCTGTTAT
78794 TCATTAGTTT
Statistics
Matches: 254, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
78 35 0.14
79 219 0.86
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
TTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCGATAATGTACCCATATACATAT
CAGCTAAGGCATCC
Found at i:79201 original size:20 final size:20
Alignment explanation
Indices: 79176--79229 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
79166 TGGCCTTTCA
79176 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
* *
79196 GTATCGATACTACCCTGCTATG
1 GTATCGATAC--CCCTACCATG
*
79218 ATATCGATACCC
1 GTATCGATACCC
79230 TTTCCAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:82642 original size:54 final size:54
Alignment explanation
Indices: 82584--83120 Score: 741
Period size: 54 Copynumber: 9.9 Consensus size: 54
82574 TAGTACCCAT
** ** * * *
82584 ACGGTTATTCATAAACATATTATGAATTTCATGAAATGCACACTTAGTGTCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* * ***
82638 ACGGTTATTCATCCAAATAGGATGAATTCCGTGAAATGCACACCTAGTGTTAAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* *
82692 ACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGAGCCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* *
82746 ACAGTTATTCATCCACATAGGATGAATCCCGTGAAATGCACACTTAGTGCCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* * *
82800 ACGGTTATTCATCCACATAGGATGAATTACGTAAAATGTACACTTAGTGCCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* * * *
82854 ATGGTTATTAATCCGCATAAGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* * ** *
82908 ACGGTTATTTATCCATATAGGATGAATTTTGTAAAATGCACACTTAGTGCCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* * * *
82962 ACTGTTATTCATCCACATAGGATGAATTCCGTAAAATGCACATTTAGTGTCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
* * * *
83016 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATACAAACTTAATGTCGAA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
*
83070 ACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACTTAGTGCC
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
83121 TATTTGGTAA
Statistics
Matches: 426, Mismatches: 57, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 426 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (54 bp):
ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
Found at i:90001 original size:20 final size:20
Alignment explanation
Indices: 89976--90024 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
89966 TTCAATCAGC
*
89976 ATCGATACCGAAGAGGGAG-T
1 ATCGATACCGAAG-GGAAGAT
*
89996 ATCGATACTGAAGGGAAGAT
1 ATCGATACCGAAGGGAAGAT
90016 ATCGATACC
1 ATCGATACC
90025 AGTTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (20 bp):
ATCGATACCGAAGGGAAGAT
Found at i:90600 original size:45 final size:44
Alignment explanation
Indices: 90536--90791 Score: 221
Period size: 45 Copynumber: 6.2 Consensus size: 44
90526 ACAAAATAAT
*
90536 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCTATAACTGA
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATG-TATAACTGA
*
90581 AATGCATATGGGTGCATTATCGGCGT-AAA--A-G---AA-T--
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATGTATAACTGA
* *
90615 AATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGA
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATGT-ATAACTGA
90660 AATGCATATGGGTGCATTATCGGCAT-AAA--A-G---AA-T--
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATGTATAACTGA
* * * *
90694 AATACATATGGGTGCATTATCGGCATGAAATGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATG-TATAACTGA
* * *
90739 AATGCATATGGGTGCATTATCGGAATAAAAGTATGCTAT-ACTTGA
1 AATGCATATGGGTGCATTATCGGCATGAAAGGATG-TATAAC-TGA
90784 AATGCATA
1 AATGCATA
90792 ATGGTGTATT
Statistics
Matches: 172, Mismatches: 16, Indels: 46
0.74 0.07 0.20
Matches are distributed among these distances:
34 49 0.28
35 6 0.03
36 2 0.01
37 5 0.03
38 2 0.01
41 2 0.01
42 4 0.02
43 2 0.01
44 7 0.04
45 93 0.54
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATCGGCATGAAAGGATGTATAACTGA
Found at i:90664 original size:79 final size:78
Alignment explanation
Indices: 90528--90769 Score: 394
Period size: 79 Copynumber: 3.1 Consensus size: 78
90518 TCGAATGAAC
* *
90528 AAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCTATAACTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGC-ATAGCTGAAATGCATATGGG
*
90593 TGCATTATCGGCGT
65 TGCATTATCGGCAT
90607 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGCTGAAATGCATATGGG
90672 TGCATTATCGGCAT
65 TGCATTATCGGCAT
* * *
90686 AAAAGAATAATACATATGGGTGCATTATCGGCATGAAATGATGCCATAGCTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGCTGAAATGCATATGGG
*
90751 TGCATTATCGGAAT
65 TGCATTATCGGCAT
90765 AAAAG
1 AAAAG
90770 TATGCTATAC
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
79 153 0.99
80 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (78 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCATAGCTGAAATGCATATGGGT
GCATTATCGGCAT
Found at i:95749 original size:23 final size:23
Alignment explanation
Indices: 95681--95749 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
95671 ACACCTTATA
* * *
95681 TGGCATTTCAGTGCATTTCTAAG
1 TGGCACTTCGGTGCATTTCTACG
* *
95704 TGACACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
95727 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
95750 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:98986 original size:20 final size:20
Alignment explanation
Indices: 98961--98998 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
98951 TGATTCAATC
*
98961 AGTATCGATACCGAAGGGGG
1 AGTATCAATACCGAAGGGGG
98981 AGTATCAATACCGAAGGG
1 AGTATCAATACCGAAGGG
98999 AAGGTATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.34, T:0.16
Consensus pattern (20 bp):
AGTATCAATACCGAAGGGGG
Found at i:99604 original size:34 final size:34
Alignment explanation
Indices: 99566--99633 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
99556 CTATAGCTTA
99566 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* *
99600 AATGCATATGGGTGCATTATTGGCATGAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
99634 GCCATAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAAT
Found at i:99648 original size:79 final size:77
Alignment explanation
Indices: 99513--99673 Score: 261
Period size: 79 Copynumber: 2.1 Consensus size: 77
99503 ACGAATGAAC
* * *
99513 AAAAGAATAATGCATATTGGTGCATTATTGGCATGAAAGGATGCTATAGCTTAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTTAAATG--TATGGG
99578 TGCATTATCGGCAT
64 TGCATTATCGGCAT
99592 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAG-TTGAAATGTATGGGT
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTT-AAATGTATGGGT
99656 GCATTATCGGCAT
65 GCATTATCGGCAT
99669 AAAAG
1 AAAAG
99674 TATGCTATAC
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
77 25 0.32
78 2 0.03
79 51 0.65
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (77 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGAATGCCATAGCTTAAATGTATGGGTG
CATTATCGGCAT
Found at i:99654 original size:43 final size:43
Alignment explanation
Indices: 99606--99691 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
99596 GAATAATGCA
* * *
99606 TATGGGTGCATTATTGGCATGAAAGAATGCCATAGTTGAAATG
1 TATGGGTGCATTATCGGCATAAAAGAATGCCATACTTGAAATG
* *
99649 TATGGGTGCATTATCGGCATAAAAGTATGCTATACTTGAAATG
1 TATGGGTGCATTATCGGCATAAAAGAATGCCATACTTGAAATG
99692 CATAATGGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (43 bp):
TATGGGTGCATTATCGGCATAAAAGAATGCCATACTTGAAATG
Found at i:102283 original size:21 final size:22
Alignment explanation
Indices: 102259--102305 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
102249 ATTGTGTAAT
102259 ATTTTTATAAT-TTCTAAAATA
1 ATTTTTATAATATTCTAAAATA
* *
102280 A-TTTTATAATATTTTAGAATA
1 ATTTTTATAATATTCTAAAATA
102301 ATTTT
1 ATTTT
102306 GTAAAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTTTATAATATTCTAAAATA
Found at i:102284 original size:20 final size:21
Alignment explanation
Indices: 102256--102305 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
102246 ATAATTGTGT
*
102256 AATATTTTTATAAT-TTCTAA
1 AATAATTTTATAATATTCTAA
* *
102276 AATAATTTTATAATATTTTAG
1 AATAATTTTATAATATTCTAA
102297 AATAATTTT
1 AATAATTTT
102306 GTAAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
AATAATTTTATAATATTCTAA
Found at i:102316 original size:21 final size:21
Alignment explanation
Indices: 102276--102316 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
102266 TAATTTCTAA
* *
102276 AATAATTTTATAATATTTTAG
1 AATAATTTTATAAAACTTTAG
*
102297 AATAATTTTGTAAAACTTTA
1 AATAATTTTATAAAACTTTA
102317 ATATTTTTAT
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:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
AATAATTTTATAAAACTTTAG
Found at i:102582 original size:23 final size:24
Alignment explanation
Indices: 102537--102582 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
102527 AAATATTTTC
102537 AATGAAATTTCATAATTTTAAAAA
1 AATGAAATTTCATAATTTTAAAAA
* *
102561 AATGATATTT-ATATTTTTAAAA
1 AATGAAATTTCATAATTTTAAAA
102583 GATGAGTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
AATGAAATTTCATAATTTTAAAAA
Found at i:102708 original size:17 final size:15
Alignment explanation
Indices: 102685--102728 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
102675 ATTAAAAGGA
102685 TATATTTATATAACTT
1 TATATTTATATAA-TT
*
102701 TAATATTTTTATAATT
1 T-ATATTTATATAATT
102717 TATCATTTATAT
1 TAT-ATTTATAT
102729 TTTTACAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 11 0.46
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTTATATAATT
Found at i:104063 original size:21 final size:20
Alignment explanation
Indices: 103977--104134 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
103967 AAATGACCAA
**
103977 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
103996 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
104016 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
104036 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
104057 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
104078 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
104098 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
104119 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
104135 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:104125 original size:20 final size:19
Alignment explanation
Indices: 104100--104275 Score: 124
Period size: 19 Copynumber: 9.6 Consensus size: 19
104090 GCGATTTTCC
104100 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAA-ATG
*
104120 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAA-ATG
* *
104139 ATAAATCGCAACGTG-TATCCG
1 A-AAATCGCAACGCGAAAT--G
* *
104160 TATATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
104174 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
*
104193 AAAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
104212 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
104226 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
*
104245 AAAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
104264 AAAATCGCAACG
1 AAAATCGCAACG
104276 AGAGAATCGC
Statistics
Matches: 127, Mismatches: 15, Indels: 29
0.74 0.09 0.17
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 4 0.03
17 3 0.02
18 4 0.03
19 60 0.47
20 37 0.29
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:104200 original size:19 final size:19
Alignment explanation
Indices: 104176--104273 Score: 152
Period size: 19 Copynumber: 5.4 Consensus size: 19
104166 GCAACGAGAG
104176 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104195 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
104214 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
104228 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104247 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104266 AATCGCAA
1 AATCGCAA
104274 CGAGAGAATC
Statistics
Matches: 72, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 56 0.78
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:104284 original size:33 final size:33
Alignment explanation
Indices: 104163--104292 Score: 113
Period size: 33 Copynumber: 3.8 Consensus size: 33
104153 GTATCCGTAT
104163 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* * * * *
104196 ATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGA
1 ATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-A
*
104229 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAA
104267 ATCGCAACGAGAGAATCGCAATGCGA
1 ATCGCAACGAGAGAATCGCAATGCGA
104293 TTTTCATTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
31 7 0.09
32 7 0.09
33 33 0.44
34 1 0.01
35 1 0.01
36 2 0.03
38 10 0.13
39 7 0.09
40 7 0.09
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:104310 original size:19 final size:19
Alignment explanation
Indices: 104282--104414 Score: 148
Period size: 19 Copynumber: 7.6 Consensus size: 19
104272 AACGAGAGAA
*
104282 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
104301 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
104315 TC-CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
104333 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
104353 TCGCATTGCGA---TC---
1 TCGCATTGCGATTTTCATT
*
104366 TCTCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
104384 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
104403 TCGCATTGCGAT
1 TCGCATTGCGAT
104415 AGTCAATTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 26
0.77 0.02 0.20
Matches are distributed among these distances:
13 18 0.18
14 2 0.02
15 5 0.05
16 2 0.02
17 3 0.03
18 11 0.11
19 40 0.41
20 17 0.17
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:104311 original size:52 final size:52
Alignment explanation
Indices: 104163--104292 Score: 260
Period size: 52 Copynumber: 2.5 Consensus size: 52
104153 GTATCCGTAT
104163 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
104215 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
104267 ATCGCAACGAGAGAATCGCAATGCGA
1 ATCGCAACGAGAGAATCGCAATGCGA
104293 TTTTCATTTC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (52 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
Found at i:104345 original size:52 final size:51
Alignment explanation
Indices: 104282--104414 Score: 225
Period size: 52 Copynumber: 2.6 Consensus size: 51
104272 AACGAGAGAA
*
104282 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTC-CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGA-TTTCATT
104333 TCCGCATTGCGATTTTCATTTCGCATTGCGA-TCTCTCATTGCGATTTCATT
1 T-CGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTCATT
104384 TCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCGCATTGCGAT
104415 AGTCAATTTT
Statistics
Matches: 78, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
50 29 0.37
51 13 0.17
52 36 0.46
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (51 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTCATT
Found at i:106532 original size:14 final size:14
Alignment explanation
Indices: 106513--106568 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
106503 GCGAAATGAA
*
106513 AATCGCAACGACAG
1 AATCGCAACGAAAG
106527 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
106544 AAATCGCAACGAAAG
1 -AATCGCAACGAAAG
106559 AATCGCAACG
1 AATCGCAACG
106569 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 18 0.49
15 1 0.03
16 9 0.24
17 1 0.03
18 8 0.22
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:106553 original size:32 final size:33
Alignment explanation
Indices: 106494--106585 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 33
106484 GCGAAACCAA
*
106494 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
106527 AATCGCAATGCGAAATG-AAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
106559 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
106586 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:106583 original size:19 final size:19
Alignment explanation
Indices: 106457--106590 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
106447 TAGTTTACTT
* *
106457 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
106477 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
106496 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106515 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
106529 TCGCAATGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
106547 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
106561 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106580 TCGCAATGCGA
1 TCGCAACGCGA
106591 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 19
0.78 0.06 0.15
Matches are distributed among these distances:
14 16 0.16
15 1 0.01
16 15 0.15
17 6 0.06
18 8 0.08
19 39 0.40
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:106608 original size:19 final size:19
Alignment explanation
Indices: 106586--106713 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
106576 AAAATCGCAA
106586 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
106605 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
106619 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
106638 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
106652 TGCGA-TTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
106670 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
106689 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
106709 TGCGA
1 TGCGA
106714 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 19 0.22
15 1 0.01
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:106628 original size:33 final size:33
Alignment explanation
Indices: 106586--106676 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
106576 AAAATCGCAA
106586 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
106619 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
106652 TGCGA-TTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
106677 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 18 0.33
33 35 0.64
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:106916 original size:93 final size:93
Alignment explanation
Indices: 106757--107320 Score: 1080
Period size: 93 Copynumber: 6.1 Consensus size: 93
106747 TTGAATGGAT
106757 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106822 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
106850 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106915 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
106943 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
107008 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
107036 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
107101 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
107129 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
107194 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
107222 AAA-TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTC-CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
107284 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
107312 AAATTTACT
1 AAATTTACT
107321 AAGCAATCTA
Statistics
Matches: 465, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
90 48 0.10
91 8 0.02
92 38 0.08
93 371 0.80
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:109040 original size:14 final size:14
Alignment explanation
Indices: 109021--109110 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
109011 TTGAAATGAA
109021 AATCGCAACGAGAG
1 AATCGCAACGAGAG
109035 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
109052 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
109068 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
109087 AATCGCAACGAGAG
1 AATCGCAACGAGAG
109101 AATCGCAACG
1 AATCGCAACG
109111 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:109058 original size:33 final size:33
Alignment explanation
Indices: 109013--109127 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
109003 TCTTTTGGTT
109013 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
109046 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
109079 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
109112 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
109128 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:109059 original size:19 final size:18
Alignment explanation
Indices: 109020--109132 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
109010 GTTGAAATGA
109020 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
109035 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
109052 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
109068 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
109085 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
109101 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
109118 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
109133 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:109163 original size:14 final size:14
Alignment explanation
Indices: 109144--109200 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
109134 TTTGGTTTCG
109144 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
109158 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
109177 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
109191 CGTTGCGATT
1 CGTTGCGATT
109201 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:109176 original size:33 final size:33
Alignment explanation
Indices: 109128--109208 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
109118 AAAATCGCAA
**
109128 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
109161 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
109194 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
109209 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:109231 original size:20 final size:20
Alignment explanation
Indices: 109184--109239 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
109174 TCGCGTTGCG
***
109184 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
109204 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACAGTC
109225 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
109240 TTTCATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:109252 original size:20 final size:21
Alignment explanation
Indices: 109185--109261 Score: 104
Period size: 20 Copynumber: 3.8 Consensus size: 21
109175 CGCGTTGCGA
*
109185 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACTTTCAT
**
109206 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGACTTTCAT
109226 TTCTCTCGTTGCGA-TTTCAT
1 TTCTCTCGTTGCGACTTTCAT
*
109246 TTATCTCGTTGCGACT
1 TTCTCTCGTTGCGACT
109262 CTTCTGCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.06
20 27 0.56
21 18 0.38
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGACTTTCAT
Found at i:109255 original size:40 final size:41
Alignment explanation
Indices: 109184--109260 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 41
109174 TCGCGTTGCG
*
109184 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
109225 ATTCTCTCGTTGCGA-TTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
109261 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 20 0.57
41 15 0.43
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:109386 original size:33 final size:33
Alignment explanation
Indices: 109339--109405 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
109329 AATACTAACT
* *
109339 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
109372 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
109405 T
1 T
109406 TAAATCTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:109639 original size:21 final size:22
Alignment explanation
Indices: 109586--109639 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
109576 TGGTTGTGAG
**
109586 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
109608 GGAAATCTTCGGAGATGGGGA-
1 GGATTTCTTCGGAGATGGGGAC
109629 GGATTTCTTCG
1 GGATTTCTTCG
109640 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:109860 original size:20 final size:20
Alignment explanation
Indices: 109784--109975 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
109774 CTTTAAATAT
109784 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
109804 CGC-TTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
109825 -TCGTTGCGA-TTACGGATA
1 CGCGTTGCGATTTACGGATA
*
109843 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
109863 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
109883 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
109903 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
109923 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
109943 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
109963 CGCGTTGCGATTT
1 CGCGTTGCGATTT
109976 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.01
19 19 0.13
20 113 0.79
21 9 0.06
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:109969 original size:60 final size:59
Alignment explanation
Indices: 109784--109975 Score: 233
Period size: 60 Copynumber: 3.2 Consensus size: 59
109774 CTTTAAATAT
**
109784 CGCGTTGCGATTTACGGATACGCTTGCGATTTTATGTATTATCGTTGCGA-TTACGGATA
1 CGCGTTGCGATTTACGGATACGCTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* *** *
109843 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGC-TTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
109903 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGC-TTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
109963 CGCGTTGCGATTT
1 CGCGTTGCGATTT
109976 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
59 36 0.32
60 75 0.68
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (59 bp):
CGCGTTGCGATTTACGGATACGCTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:109992 original size:21 final size:21
Alignment explanation
Indices: 109962--110044 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
109952 ATTTTCATAT
*
109962 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
109983 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
110004 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
110025 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
110045 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:110035 original size:42 final size:43
Alignment explanation
Indices: 109942--110040 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
109932 ATTTATGTGT
* *
109942 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
109983 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
110025 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
110041 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:111116 original size:15 final size:15
Alignment explanation
Indices: 111077--111121 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
111067 AGGAGGCATG
*
111077 CCTTCGATTATT-CC
1 CCTTCAATTATTACC
111091 CC-TCAATTATTACC
1 CCTTCAATTATTACC
*
111105 CCTTCCATTATTACC
1 CCTTCAATTATTACC
111120 CC
1 CC
111122 AGCGAATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 8 0.30
14 6 0.22
15 13 0.48
ACGTcount: A:0.20, C:0.40, G:0.02, T:0.38
Consensus pattern (15 bp):
CCTTCAATTATTACC
Found at i:114644 original size:23 final size:26
Alignment explanation
Indices: 114600--114647 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
114590 GTGAACATTA
114600 AATAAAAACATTACAAACTAAATAAT
1 AATAAAAACATTACAAACTAAATAAT
*
114626 AATAATAA-ATTA-AAA-TAAATAA
1 AATAAAAACATTACAAACTAAATAA
114648 ATGCAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 4 0.19
26 7 0.33
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (26 bp):
AATAAAAACATTACAAACTAAATAAT
Found at i:116552 original size:38 final size:35
Alignment explanation
Indices: 116475--117006 Score: 492
Period size: 38 Copynumber: 14.5 Consensus size: 35
116465 AGAAAACGAT
* * **
116475 TTTTGAAAATGTATATATTATATAGTTTTGAAATTA
1 TTTTGAAAATATATATA-TATATAGTTTTTAAAACA
116511 TTTTGAAAACTTATATAATATATATAGTTTTTAAAACA
1 TTTTGAAAA--TATAT-ATATATATAGTTTTTAAAACA
*
116549 TTTTGGAAAAATATATATAATATATAATTTTTAAAACA
1 TTTT-G-AAAATATATAT-ATATATAGTTTTTAAAACA
*
116587 TTTTTGAAAGCTTATATATAATATATAGTTTTTAAAACA
1 -TTTTGAAA--ATATATAT-ATATATAGTTTTTAAAACA
116626 TTTTGAAAATATATATATAATATATAGTTTTTAAAACA
1 TTTTG-AAA-ATATATAT-ATATATAGTTTTTAAAACA
116664 TTTTTGAAAACTTATATATAATATATAGTTTTTAAAACA
1 -TTTTGAAAA--TATATAT-ATATATAGTTTTTAAAACA
* *
116703 CTTTGAATATATATATA-ATATAGTTTTTAAAACA
1 TTTTGAAAATATATATATATATAGTTTTTAAAACA
* * **
116737 TTTTTGAAAACTTATATATATCTATATTTTTTTTAA-A
1 -TTTTGAAAA--TATATATATATATAGTTTTTAAAACA
116774 TTTT--AAA-ATATAT-TATATAGTTTTTAAAACA
1 TTTTGAAAATATATATATATATAGTTTTTAAAACA
*
116805 TTTTGGAAAACT-TATA-ATAATATAGTTTTTAAAATA
1 TTTT-GAAAA-TATATATAT-ATATAGTTTTTAAAACA
116841 TTTTTGAAAATATATATATTATATAGTTTTTTAAAAACA
1 -TTTTGAAAATATATATA-TATATAG-TTTTT-AAAACA
* *
116880 TTTTGAAAATATATATATTATATAATTTTTAAAATA
1 TTTTGAAAATATATATA-TATATAGTTTTTAAAACA
*
116916 TTTTTG-AAA-ATATATATATATAGTTTTTTAAAAAAATA
1 -TTTTGAAAATATATATATATATAG-TTTTT---AAAACA
* *
116954 TTTTGAAAATATATAT-TATTTAGTTTTTTAAAAATTA
1 TTTTGAAAATATATATATATATAG-TTTTT-AAAA-CA
116991 TTTTGAAAATATATAT
1 TTTTGAAAATATATAT
117007 TATGGTTTGA
Statistics
Matches: 430, Mismatches: 27, Indels: 77
0.81 0.05 0.14
Matches are distributed among these distances:
30 12 0.03
31 11 0.03
34 29 0.07
35 26 0.06
36 58 0.13
37 59 0.14
38 151 0.35
39 80 0.19
40 4 0.01
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (35 bp):
TTTTGAAAATATATATATATATAGTTTTTAAAACA
Found at i:116617 original size:77 final size:75
Alignment explanation
Indices: 116475--117006 Score: 563
Period size: 77 Copynumber: 7.2 Consensus size: 75
116465 AGAAAACGAT
* * * **
116475 TTTTGAAAATGTATATATTATATAGTTTTGAAATTA-TTTTGAAAACTTATATA-ATATATATAG
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATA-ATATATAG
116538 TTTTTAAAACA
65 TTTTTAAAACA
* *
116549 TTTTGGAAAAATATATATAATATATAATTTTTAAAACATTTTTGAAAGCTTATATATAATATATA
1 TTTT-G-AAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATAATATATA
116614 GTTTTTAAAACA
64 GTTTTTAAAACA
116626 TTTTGAAAATATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATAATATATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATAATATATA
116691 GTTTTTAAAACA
64 GTTTTTAAAACA
* * * *
116703 CTTTGAATATATATAT-A-ATATAGTTTTTAAAACATTTTTGAAAACTTATATAT-ATCTATATT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATAATATATAGT
**
116765 TTTTTTAA-A
66 TTTTAAAACA
*
116774 TTTT--AAA-ATATAT--TATATAGTTTTTAAAACATTTTGGAAAACTTATA-AT-A-ATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATAATATATAGT
*
116831 TTTTAAAATA
66 TTTTAAAACA
* *
116841 TTTTTGAAAATATATATATTATATAGTTTTTTAAAAACA-TTTTGAAAA--TATATATATTATAT
1 -TTTTGAAAATATATATAATATATAG-TTTTT-AAAACATTTTTGAAAACTTATATATAATATAT
* *
116903 AATTTTTAAAATA
63 AGTTTTTAAAACA
* *
116916 TTTTTG-AAA-ATATAT-ATATATAGTTTTTTAAAAAAATATTTTGAAAA--TATATAT--TATT
1 -TTTTGAAAATATATATAATATATAG-TTTTT-AAAACAT-TTTTGAAAACTTATATATAATATA
*
116974 TAGTTTTTTAAAAATTA
62 TAG-TTTTT-AAAA-CA
116991 TTTTGAAAATATATAT
1 TTTTGAAAATATATAT
117007 TATGGTTTGA
Statistics
Matches: 404, Mismatches: 29, Indels: 48
0.84 0.06 0.10
Matches are distributed among these distances:
66 11 0.03
67 4 0.01
68 42 0.10
69 2 0.00
70 3 0.01
71 10 0.02
72 41 0.10
73 56 0.14
74 46 0.11
75 42 0.10
76 38 0.09
77 108 0.27
78 1 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (75 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATAATATATAGT
TTTTAAAACA
Found at i:117077 original size:7 final size:7
Alignment explanation
Indices: 117067--117134 Score: 63
Period size: 7 Copynumber: 9.9 Consensus size: 7
117057 TGATTTTGTG
117067 TTTTTTA
1 TTTTTTA
117074 TTTTTTA
1 TTTTTTA
117081 TTTTTTA
1 TTTTTTA
117088 ---TTTA
1 TTTTTTA
117092 TTTTTTA
1 TTTTTTA
**
117099 TTACTTA
1 TTTTTTA
117106 TTTTTTA
1 TTTTTTA
117113 TTTTATT-
1 TTTT-TTA
117120 TTAATTTTA
1 TT--TTTTA
117129 TTTTTT
1 TTTTTT
117135 TGTTTAAGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
4 4 0.08
7 38 0.76
8 4 0.08
9 4 0.08
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTA
Found at i:117093 original size:11 final size:10
Alignment explanation
Indices: 117074--117133 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 10
117064 GTGTTTTTTA
117074 TTTTTTATTT
1 TTTTTTATTT
117084 TTTATTTATTT
1 TTT-TTTATTT
* *
117095 TTTATTACTTA
1 TTTTTTA-TTT
117106 TTTTTTATTT
1 TTTTTTATTT
*
117116 TATTTTAATTT
1 T-TTTTTATTT
117127 TATTTTT
1 T-TTTTT
117134 TTGTTTAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
10 9 0.22
11 32 0.78
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:117099 original size:25 final size:24
Alignment explanation
Indices: 117067--117134 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
117057 TGATTTTGTG
117067 TTTTTTATTTTTTATTTTTTATTT
1 TTTTTTATTTTTTATTTTTTATTT
**
117091 ATTTTTTATTACTTATTTTTTATTT
1 -TTTTTTATTTTTTATTTTTTATTT
* *
117116 TATTTTA-ATTTTATTTTTT
1 TTTTTTATTTTTTATTTTTT
117135 TGTTTAAGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
23 9 0.24
24 6 0.16
25 22 0.59
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTATTTTTTATTTTTTATTT
Found at i:118382 original size:13 final size:14
Alignment explanation
Indices: 118363--118397 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
118353 TTTTTCTTTG
118363 ATTTATTTAATATT
1 ATTTATTTAATATT
*
118377 -TTTATTTATTATT
1 ATTTATTTAATATT
118390 ATTTATTT
1 ATTTATTT
118398 CATTTTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTATTTAATATT
Found at i:118464 original size:6 final size:6
Alignment explanation
Indices: 118436--118513 Score: 92
Period size: 6 Copynumber: 13.5 Consensus size: 6
118426 TTTTTATTAT
* * *
118436 TTTTTG TTTTTG TTTTT- TATTTA TTTTTA TTTTTA --TTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
118480 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTT
118514 AACATTTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
4 4 0.06
5 8 0.12
6 48 0.73
7 6 0.09
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:118492 original size:33 final size:32
Alignment explanation
Indices: 118421--118513 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 32
118411 ATTTGCTTAG
* *
118421 TTTATTT-TTTATTATTTTT-TGTTTTT-GTTT
1 TTTATTTATTT-TTATTTTTATTTTTTTATTTT
118451 TTTATTTATTTTTATTTTTATTTATTTTATTTT
1 TTTATTTATTTTTATTTTTATTT-TTTTATTTT
118484 TATT-TTTATTTTTATTTTTA-TTTTTTATTT
1 T-TTATTTATTTTTATTTTTATTTTTTTATTT
118514 AACATTTTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
30 15 0.27
31 13 0.23
32 6 0.11
33 20 0.36
34 2 0.04
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (32 bp):
TTTATTTATTTTTATTTTTATTTTTTTATTTT
Found at i:119271 original size:22 final size:21
Alignment explanation
Indices: 119235--119291 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
119225 TTCTCCTAAT
119235 TAAATAAATATATAC-AAATTAA
1 TAAATAAATA-ATACTAAA-TAA
119257 -AATATAAACTAATACTAAATAA
1 TAA-ATAAA-TAATACTAAATAA
119279 TAAATAAATAATA
1 TAAATAAATAATA
119292 AATAAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 7 0.23
22 17 0.55
23 7 0.23
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATAAATAATACTAAATAA
Found at i:119286 original size:11 final size:11
Alignment explanation
Indices: 119272--119297 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
119262 AAACTAATAC
119272 TAAATAATAAA
1 TAAATAATAAA
119283 TAAATAATAAA
1 TAAATAATAAA
119294 TAAA
1 TAAA
119298 CATTCACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:119904 original size:18 final size:18
Alignment explanation
Indices: 119881--119916 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
119871 ATTTGACATG
119881 TAATATTATATAATTTGA
1 TAATATTATATAATTTGA
119899 TAATATTATATAATTTGA
1 TAATATTATATAATTTGA
119917 GTGATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TAATATTATATAATTTGA
Found at i:125893 original size:21 final size:21
Alignment explanation
Indices: 125867--125925 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
125857 ATTATCCAAT
*
125867 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
125888 AAACTTGAAATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
*
125909 CAACTTGAAATCCATAA
1 AAACTTGAAATCCATAA
125926 TAATAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.49, C:0.25, G:0.05, T:0.20
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:129820 original size:11 final size:12
Alignment explanation
Indices: 129790--129820 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
129780 ACTAACGTAT
*
129790 GCATTTTTAGTG
1 GCATTTTTAGAG
129802 GCATTTTTAGAG
1 GCATTTTTAGAG
129814 GCATTTT
1 GCATTTT
129821 CACAAAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (12 bp):
GCATTTTTAGAG
Found at i:130330 original size:41 final size:41
Alignment explanation
Indices: 130285--130413 Score: 104
Period size: 41 Copynumber: 3.1 Consensus size: 41
130275 ACATGTGTAC
130285 AAAAATACCGCTAAAGTACTACTCTATTATGGCGTTTGTTG
1 AAAAATACCGCTAAAGTACTACTCTATTATGGCGTTTGTTG
* * * * *
130326 AAAAAAAGCCACTATAAATGA--AC-CTTATTGTGGCATTTGTAT-
1 AAAAATA-CCGCTA-AAGT-ACTACTC-TATTATGGCGTTTGT-TG
* * * *
130368 AAAAATGCCGCTAAAGTACTACTCTGTTACGGTGTTTGTTG
1 AAAAATACCGCTAAAGTACTACTCTATTATGGCGTTTGTTG
130409 AAAAA
1 AAAAA
130414 AATGCCATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
39 1 0.02
40 4 0.06
41 29 0.45
42 26 0.40
43 4 0.06
44 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (41 bp):
AAAAATACCGCTAAAGTACTACTCTATTATGGCGTTTGTTG
Found at i:130372 original size:83 final size:83
Alignment explanation
Indices: 130203--130721 Score: 411
Period size: 83 Copynumber: 6.3 Consensus size: 83
130193 GTTTGTTGGA
* * * * * * * * *
130203 AAAAAAACCACTAACGTACTACTCTTTTGCGGTGTTTGTTGAAAAACA-CCACTATAGATGAATC
1 AAAAACACCGCTAAAGTACTACTATGTTACGGCGTTTGTTGAAAAAAAGCCACTATAGATGAACC
* * *
130267 CTATTACGACATGTGTAC
66 CTATTACGGCATTTGTAT
* * * * *
130285 AAAAATACCGCTAAAGTACTACTCTATTATGGCGTTTGTTGAAAAAAAGCCACTATAAATGAACC
1 AAAAACACCGCTAAAGTACTACTATGTTACGGCGTTTGTTGAAAAAAAGCCACTATAGATGAACC
* **
130350 TTATTGTGGCATTTGTAT
66 CTATTACGGCATTTGTAT
** * * *
130368 AAAAATGCCGCTAAAGTACTACTCTGTTACGGTGTTTGTTGAAAAAAATGCCATTATAGATGAAC
1 AAAAACACCGCTAAAGTACTACTATGTTACGGCGTTTGTTGAAAAAAA-GCCACTATAGATGAAC
** *
130433 CCTATTACAACATTTATAT
65 CCTATTACGGCATTTGTAT
* * * * * *
130452 AAAAACGCCGCTAAACTACTACTATGTTGCAGCGTTTGTTGAAAAAATGCCACTATAGATTAACC
1 AAAAACACCGCTAAAGTACTACTATGTTACGGCGTTTGTTGAAAAAAAGCCACTATAGATGAACC
130517 CTATTACGG-AGTTTGTAT
66 CTATTACGGCA-TTTGTAT
* **** * * *
130535 AAAAACACCGCTAAAGTACTATTATGTTGTTACATTTATT-AAAAAAGGGCCACTATAGATGAAC
1 AAAAACACCGCTAAAGTACTACTATGTTACGGCGTTTGTTGAAAAAA-AGCCACTATAGATGAAC
* * ** *
130599 CTTATTGCGGTGTTTTTAT
65 CCTATTACGGCATTTGTAT
* * * * * * * * * *
130618 ACAAACGCCACTAAAGAACTATTATGTTATGACGTTTGTTGAAAAAACGCCACTATGGAT-AAAC
1 AAAAACACCGCTAAAGTACTACTATGTTACGGCGTTTGTTGAAAAAAAGCCACTATAGATGAACC
*
130682 CTATTGCGG--TGTTGTAT
66 CTATTACGGCAT-TTGTAT
** *
130699 AAAAACGTCGTTAAAGTACTACT
1 AAAAACACCGCTAAAGTACTACT
130722 TTGTCTCGGC
Statistics
Matches: 357, Mismatches: 73, Indels: 15
0.80 0.16 0.03
Matches are distributed among these distances:
80 1 0.00
81 22 0.06
82 58 0.16
83 202 0.57
84 74 0.21
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (83 bp):
AAAAACACCGCTAAAGTACTACTATGTTACGGCGTTTGTTGAAAAAAAGCCACTATAGATGAACC
CTATTACGGCATTTGTAT
Found at i:130492 original size:167 final size:165
Alignment explanation
Indices: 130203--130555 Score: 420
Period size: 167 Copynumber: 2.1 Consensus size: 165
130193 GTTTGTTGGA
* * * * * * *
130203 AAAAAAACCACTAACGTACTACTCTTTTGCGGTGTTTGTTGAAAAACACCACTATAGATGAATCC
1 AAAAACACCGCTAAAGTACTACTCTGTTACGGTGTTTGTTGAAAAAAACCACTATAGATGAACCC
* * * * * **
130268 TATTACGACATGTGTACAAAAATACCGCTAAAGTACTACTCTATTATGGCGTTTGTTGAAAAAAA
66 TATTACAACATGTATACAAAAACACCGCTAAACTACTACTATATTACAGCGTTTGTTGAAAAAAA
* **
130333 GCCACTATAAATGAACCTTATTGTGGCA-TTTGTAT
131 GCCACTATAAATGAACCCTATTACGG-AGTTTGTAT
** *
130368 AAAAATGCCGCTAAAGTACTACTCTGTTACGGTGTTTGTTGAAAAAAATGCCATTATAGATGAAC
1 AAAAACACCGCTAAAGTACTACTCTGTTACGGTGTTTGTTGAAAAAAA--CCACTATAGATGAAC
* * * * *
130433 CCTATTACAACATTTATATAAAAACGCCGCTAAACTACTACTATGTTGCAGCGTTTGTTGAAAAA
64 CCTATTACAACATGTATACAAAAACACCGCTAAACTACTACTATATTACAGCGTTTGTTGAAAAA
* * *
130498 ATGCCACTATAGATTAACCCTATTACGGAGTTTGTAT
129 AAGCCACTATAAATGAACCCTATTACGGAGTTTGTAT
130535 AAAAACACCGCTAAAGTACTA
1 AAAAACACCGCTAAAGTACTA
130556 TTATGTTGTT
Statistics
Matches: 156, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
165 41 0.26
166 1 0.01
167 114 0.73
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (165 bp):
AAAAACACCGCTAAAGTACTACTCTGTTACGGTGTTTGTTGAAAAAAACCACTATAGATGAACCC
TATTACAACATGTATACAAAAACACCGCTAAACTACTACTATATTACAGCGTTTGTTGAAAAAAA
GCCACTATAAATGAACCCTATTACGGAGTTTGTAT
Found at i:132306 original size:54 final size:55
Alignment explanation
Indices: 132210--132374 Score: 212
Period size: 54 Copynumber: 3.0 Consensus size: 55
132200 GTGGCTTTGA
* *
132210 CAAGCCCGATA-TCTATCTTGAGCTTCCCTT-TCGGACACTTGCACCAATGTCTTGG
1 CAAGCCCGATACTCTATCTTGA-CCT-CCTTGTCAGACACTTGCACCAATGTCTTGG
* *
132265 GAAGCCCGATACTCTATCTTGA-CTCTTTGTCAGACACTTGCACCAATGTCTTGG
1 CAAGCCCGATACTCTATCTTGACCTCCTTGTCAGACACTTGCACCAATGTCTTGG
* *
132319 CAAGCCCGATACTATATCTTGGACCTCCATGT-AGGACACTTGCACCAATGTCTTGG
1 CAAGCCCGATACTCTATCTT-GACCTCCTTGTCA-GACACTTGCACCAATGTCTTGG
132375 ACCCAAGTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
53 3 0.03
54 43 0.44
55 13 0.13
56 38 0.39
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (55 bp):
CAAGCCCGATACTCTATCTTGACCTCCTTGTCAGACACTTGCACCAATGTCTTGG
Found at i:135557 original size:54 final size:56
Alignment explanation
Indices: 135450--135615 Score: 203
Period size: 54 Copynumber: 3.0 Consensus size: 56
135440 TCTCGTGGCT
* *
135450 TTGGCAAGCCCGATA-TCTATCTTGAGCTTCCCTTTCGGACGCTTGCACCAATGTC
1 TTGGCAAGCCCGATACTCTATCTTGAGCTTCACTTTCGGACACTTGCACCAATGTC
* * * * *
135505 TTGGAAAGCCTGATACTCTATCTTGA-C-TCATTTTTGGACACTTGCACTAATGTC
1 TTGGCAAGCCCGATACTCTATCTTGAGCTTCACTTTCGGACACTTGCACCAATGTC
* * * * *
135559 TTGGCAAGCCCGATACTCTTTCTTGAGCCTCCCTGTCAGACACTTGCACCAATGTC
1 TTGGCAAGCCCGATACTCTATCTTGAGCTTCACTTTCGGACACTTGCACCAATGTC
135615 T
1 T
135616 CGGACCCAGG
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
54 45 0.49
55 15 0.16
56 32 0.35
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (56 bp):
TTGGCAAGCCCGATACTCTATCTTGAGCTTCACTTTCGGACACTTGCACCAATGTC
Found at i:137347 original size:74 final size:74
Alignment explanation
Indices: 137201--137347 Score: 172
Period size: 74 Copynumber: 2.0 Consensus size: 74
137191 GAATAAATAG
* * **
137201 CATTGAAAGAAAACTCAAGCAATTTCATTTTATACATGATAGAGAAAATGACATCAATTAAAATC
1 CATTGAAAGAAAACTCAAACAACTTCATTACATACATGATAGAGAAAATGACATCAATTAAAATC
**
137266 ATTTAATGC
66 AAATAATGC
* * * *
137275 CATT-AAACGAAAACTCAAACAACTTCATTACATATATGATAGAGGAAATGACA-CTAATTGAAC
1 CATTGAAA-GAAAACTCAAACAACTTCATTACATACATGATAGAGAAAATGACATC-AATTAAAA
137338 TCAAATAATG
64 TCAAATAATG
137348 GCATGTTGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
73 4 0.07
74 57 0.93
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (74 bp):
CATTGAAAGAAAACTCAAACAACTTCATTACATACATGATAGAGAAAATGACATCAATTAAAATC
AAATAATGC
Found at i:142304 original size:31 final size:30
Alignment explanation
Indices: 142237--142311 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
142227 TTCAAAAGTT
* *
142237 ATAAATTGGTCACTAATGTTATGATTTATA
1 ATAAATTGATCACTAACGTTATGATTTATA
* *
142267 ACAAATTGATCACTAACGTTATTGATTTGTA
1 ATAAATTGATCACTAACGTTA-TGATTTATA
*
142298 ATAAATTGCTCACT
1 ATAAATTGATCACT
142312 CGATGTTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 18 0.47
31 20 0.53
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (30 bp):
ATAAATTGATCACTAACGTTATGATTTATA
Found at i:151404 original size:24 final size:23
Alignment explanation
Indices: 151375--151461 Score: 111
Period size: 24 Copynumber: 3.7 Consensus size: 23
151365 GATTTCGAAT
*
151375 TGAATTCTGTTCTGATACGTTATC
1 TGAATTCTGTTCTGATAC-TGATC
*
151399 TGAATTCTGTTCTGATTCTGATC
1 TGAATTCTGTTCTGATACTGATC
* *
151422 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATA-CTGATC
*
151446 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
151462 TTCTGATATC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 19 0.35
24 36 0.65
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTGATC
Found at i:151412 original size:12 final size:12
Alignment explanation
Indices: 151375--151466 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
151365 GATTTCGAAT
151375 TGAATTCTGTTC
1 TGAATTCTGTTC
*
151387 TG-ATAC-GTTATC
1 TGAATTCTG-T-TC
151399 TGAATTCTGTTC
1 TGAATTCTGTTC
*
151411 TG-ATTCTGATC
1 TGAATTCTGTTC
*
151422 TGGATTCTGTTC
1 TGAATTCTGTTC
* *
151434 TG-ATATCTGATA
1 TGAAT-TCTGTTC
*
151446 TGAATTCTGTTT
1 TGAATTCTGTTC
*
151458 TGATTTCTG
1 TGAATTCTG
151467 ATATCTCCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 1 0.02
11 16 0.25
12 40 0.62
13 6 0.09
14 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.49
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:151429 original size:47 final size:48
Alignment explanation
Indices: 151362--151468 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 48
151352 AAATATTTTA
* * *
151362 TCTGATTTC-GAAT-TGAATTCTGTTCTGATA-CGTTATCTGAATTCTGT
1 TCTGATTTCTG-ATCTGGATTCTGTTCTGATATC-TGATATGAATTCTGT
151409 TCTGA-TTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
*
151456 TTTGATTTCTGAT
1 TCTGATTTCTGAT
151469 ATCTCCGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
46 5 0.10
47 39 0.75
48 8 0.15
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.49
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
Found at i:151466 original size:24 final size:24
Alignment explanation
Indices: 151362--151470 Score: 109
Period size: 24 Copynumber: 4.6 Consensus size: 24
151352 AAATATTTTA
151362 TCTGATTTC-GA-ATTGAATTCTGT
1 TCTGATTTCTGATA-TGAATTCTGT
* * *
151385 TCTGA-TACGTTATCTGAATTCTGT
1 TCTGATTTC-TGATATGAATTCTGT
* *
151409 TCTGA-TTCTGATCTGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
151432 TCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
151456 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
151471 CTCCGTTTAC
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
22 2 0.03
23 23 0.32
24 46 0.65
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:159320 original size:25 final size:23
Alignment explanation
Indices: 159245--159325 Score: 58
Period size: 25 Copynumber: 3.3 Consensus size: 23
159235 ATTTAAAATT
*
159245 AAGTTAATA-ATAAATATATTTAA
1 AAGTTAATATATAAAAATATTT-A
*
159268 TAAGTTACTATA-ACAAAATATTTTTA
1 -AAGTTAATATATA-AAAATA--TTTA
159294 AAGTTAATATATATAAAATATTATA
1 AAGTTAATATATA-AAAATATT-TA
*
159319 AATTTAA
1 AAGTTAA
159326 GTTATGTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
24 11 0.24
25 24 0.52
26 8 0.17
27 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
AAGTTAATATATAAAAATATTTA
Found at i:159606 original size:15 final size:15
Alignment explanation
Indices: 159586--159630 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
159576 GAGAGAATGC
159586 ATAAATAATAATGAT
1 ATAAATAATAATGAT
159601 ATAAATAATAATGAT
1 ATAAATAATAATGAT
159616 ATAAATAATAATGAT
1 ATAAATAATAATGAT
159631 CAAATATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAAATAATAATGAT
Found at i:163788 original size:3 final size:3
Alignment explanation
Indices: 163782--163852 Score: 101
Period size: 3 Copynumber: 23.7 Consensus size: 3
163772 ATTTATTTAT
163782 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
163829 TTT TTA TTAA TTA -TA TTAA TTA TT
1 TTA TTA TT-A TTA TTA TT-A TTA TT
163853 TTGTAGGCCT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
2 4 0.06
3 52 0.84
4 6 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:165117 original size:2 final size:2
Alignment explanation
Indices: 165110--165236 Score: 190
Period size: 2 Copynumber: 65.0 Consensus size: 2
165100 AATAATAATT
165110 TA TA TA TA TA TA 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 TA TA TA TA TA TA
**
165152 -A TA TA TA TA TA TA TA TA TA TA TA CG T- TA -A TA GTA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
165191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165233 TA TA
1 TA TA
165237 CAATATCTTT
Statistics
Matches: 115, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
1 4 0.03
2 109 0.95
3 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:166597 original size:21 final size:21
Alignment explanation
Indices: 166571--166612 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
166561 CTAAGATAGG
166571 GGGTATCGGTACCT-CTTCATA
1 GGGTATCGGTA-CTACTTCATA
166592 GGGTATCGGTACTACTTCATA
1 GGGTATCGGTACTACTTCATA
166613 AAATTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (21 bp):
GGGTATCGGTACTACTTCATA
Found at i:166665 original size:17 final size:17
Alignment explanation
Indices: 166643--166710 Score: 86
Period size: 17 Copynumber: 4.0 Consensus size: 17
166633 GTTGCAGCCA
166643 GGGGGTATAGATACCCT
1 GGGGGTATAGATACCCT
*
166660 GGGGGTATCGATACCC-
1 GGGGGTATAGATACCCT
*
166676 -GGGGTATGGATACCCCT
1 GGGGGTATAGATA-CCCT
166693 GGGGGGTATAGATACCCT
1 -GGGGGTATAGATACCCT
166711 CCGAGCAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 11 0.25
16 3 0.07
17 15 0.34
18 4 0.09
19 11 0.25
ACGTcount: A:0.21, C:0.21, G:0.37, T:0.22
Consensus pattern (17 bp):
GGGGGTATAGATACCCT
Found at i:166867 original size:29 final size:29
Alignment explanation
Indices: 166846--166903 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
166836 AAACTTTGAA
166846 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
166875 TAAATTCAATTCAAGTCCAAAAATCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
166904 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:166893 original size:30 final size:30
Alignment explanation
Indices: 166846--166905 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
166836 AAACTTTGAA
166846 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAATCATTTTG
166875 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATT-AAGTCCAAAAATCATTTTG
166906 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAATCATTTTG
Done.