Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 230 of 345
Found at i:78074081 original size:40 final size:40
Alignment explanation
Indices: 78074025--78074242 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 40
78074015 CGAATGATAA
* *
78074025 CCGGGCTAAGTCCCGAAGGCGTTTGTGCAAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
78074065 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * * *
78074105 CCAGGCTAAGTCCCAAAGGCATTTATGCGAGTTATTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
78074145 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
78074185 CCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
78074225 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78074243 TACTTGGTTG
Statistics
Matches: 155, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 15 0.10
40 140 0.90
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:78078552 original size:21 final size:21
Alignment explanation
Indices: 78078523--78078573 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
78078513 ACTAAGTTGA
*
78078523 AAGAGTTGAAAGCACAATTGT
1 AAGAGTTGAAAGCACAATTGC
* *
78078544 AATAGTTGAAAGCGCAATTGC
1 AAGAGTTGAAAGCACAATTGC
78078565 AAGAGTTGA
1 AAGAGTTGA
78078574 TAGATAGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (21 bp):
AAGAGTTGAAAGCACAATTGC
Found at i:78106116 original size:34 final size:33
Alignment explanation
Indices: 78106078--78106184 Score: 151
Period size: 34 Copynumber: 3.2 Consensus size: 33
78106068 GGCAGTCCAA
* *
78106078 TATCAGTGTAGGCCTTAGCCCATAGCAGTAACAG
1 TATCAATGTGGGCCTTAGCCCATA-CAGTAACAG
78106112 TATCAATGTGGGCCTTAGCCCATAACAGTAACAG
1 TATCAATGTGGGCCTTAGCCCAT-ACAGTAACAG
* *
78106146 TATCAATGTGGGCCTTATCCCATTACAGTAACAT
1 TATCAATGTGGGCCTTAGCCCA-TACAGTAACAG
78106180 TATCA
1 TATCA
78106185 GTAATGCAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
34 65 0.97
35 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (33 bp):
TATCAATGTGGGCCTTAGCCCATACAGTAACAG
Found at i:78116001 original size:18 final size:18
Alignment explanation
Indices: 78115978--78116014 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78115968 AGCACCTTCC
* *
78115978 TAGAGGCCAGTTTGCAAT
1 TAGAGGCCAATCTGCAAT
78115996 TAGAGGCCAATCTGCAAT
1 TAGAGGCCAATCTGCAAT
78116014 T
1 T
78116015 TCAATCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (18 bp):
TAGAGGCCAATCTGCAAT
Found at i:78118143 original size:28 final size:29
Alignment explanation
Indices: 78118081--78118143 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
78118071 TAGTAAATAC
*
78118081 TTATTTTCGTAATTAATATGTTTTCCATA
1 TTATTTTAGTAATTAATATGTTTTCCATA
* *
78118110 CTATTTTAGTAATTAATTAT-TTTT-TATA
1 TTATTTTAGTAATTAA-TATGTTTTCCATA
78118138 TTATTT
1 TTATTT
78118144 ATGTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 8 0.28
29 18 0.62
30 3 0.10
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (29 bp):
TTATTTTAGTAATTAATATGTTTTCCATA
Found at i:78121775 original size:49 final size:49
Alignment explanation
Indices: 78121603--78122128 Score: 883
Period size: 49 Copynumber: 10.9 Consensus size: 49
78121593 CCCTTCGGGA
* * * * *
78121603 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78121650 CCTGTCAC----ATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78121695 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78121742 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78121791 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78121840 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78121887 CTTATCACATATATATACACTTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78121936 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78121985 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78122034 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78122083 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
78122129 CGCCATACTA
Statistics
Matches: 455, Mismatches: 17, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
45 36 0.08
47 96 0.21
49 323 0.71
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78121873 original size:145 final size:145
Alignment explanation
Indices: 78121603--78122128 Score: 893
Period size: 145 Copynumber: 3.7 Consensus size: 145
78121593 CCCTTCGGGA
* * * * * * *
78121603 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC----ATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
78121662 ACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
78121727 CATCGGTCATTAGGC
131 CATCGGCCATTAGGC
78121742 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
78121807 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
78121872 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
78121887 CTTATCACATATATATACACTTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
78121952 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
78122017 CACATCGGCCATTAGGC
129 CACATCGGCCATTAGGC
78122034 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
78122099 ACACTTTCACATTCATCACATCGGCCATTA
66 ACACTTTCACATTCATCACATCGGCCATTA
78122129 CGCCATACTA
Statistics
Matches: 366, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
139 10 0.03
140 1 0.00
141 37 0.10
145 186 0.51
147 132 0.36
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:78129443 original size:21 final size:22
Alignment explanation
Indices: 78129417--78129458 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
78129407 CACTTAACAC
78129417 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
78129438 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCGTGTGA
78129459 CCATTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.21, C:0.29, G:0.40, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:78130220 original size:18 final size:18
Alignment explanation
Indices: 78130197--78130314 Score: 69
Period size: 18 Copynumber: 6.6 Consensus size: 18
78130187 TTTATCAGTT
78130197 TCATTCAGTAACATTCAA
1 TCATTCAGTAACATTCAA
* *
78130215 TCATTCAATAACAATT-AG
1 TCATTCAGTAAC-ATTCAA
* * * *
78130233 TCTTTCAATAATATTCAG
1 TCATTCAGTAACATTCAA
* ** *
78130251 TCACTCTTTAACAGTCAA
1 TCATTCAGTAACATTCAA
* *
78130269 TTATTCAGTAACGA-TAAA
1 TCATTCAGTAAC-ATTCAA
* *
78130287 TTATTCAGTAACAGTCAA
1 TCATTCAGTAACATTCAA
*
78130305 TTATTCAGTA
1 TCATTCAGTA
78130315 GCAGTCAGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
17 4 0.05
18 71 0.90
19 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (18 bp):
TCATTCAGTAACATTCAA
Found at i:78130319 original size:18 final size:18
Alignment explanation
Indices: 78130259--78130367 Score: 132
Period size: 18 Copynumber: 6.1 Consensus size: 18
78130249 AGTCACTCTT
78130259 TAACAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
*
78130277 TAAC-GATAAATTATTCAG
1 TAACAG-TCAATTATTCAG
78130295 TAACAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
* * *
78130313 TAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAG
*
78130331 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
* *
78130349 TAGCAGT-AGTTATTCAG
1 TAACAGTCAATTATTCAG
78130366 TA
1 TA
78130368 CCTTTATTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.16
18 67 0.83
19 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:78131731 original size:18 final size:18
Alignment explanation
Indices: 78131693--78131731 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
78131683 GCCTATTCTG
*
78131693 TTTCTTTTCTTTGTTTCA
1 TTTCTTTTCTTTCTTTCA
78131711 TTTCTTTTTCTTTCTTT-A
1 TTTC-TTTTCTTTCTTTCA
78131729 TTT
1 TTT
78131732 AATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTTCA
Found at i:78132146 original size:149 final size:148
Alignment explanation
Indices: 78131904--78132176 Score: 315
Period size: 149 Copynumber: 1.8 Consensus size: 148
78131894 TATAAAAATC
* *
78131904 TATTTACTTAAATAAAAATCAATTAAATAAAATATATTACAATTGTAGAAATATATGTATTACAC
1 TATTTACTTAAATAAAAATCAAATAAATAAAATATATTACAAATGTAGAAATATATGTATTACAC
* * * ***
78131969 TTGTATATTTTATTTACCATACATTTGTCTTTATTTAATTTATTTCATAATAT-AATATCAATTT
66 -TATATATTTTATTTACCACACAATTGTCACAATTTAATTTATTT-ATAATATAAATATCAATTT
78132033 AATAATAAAAATAACATTAA
129 AATAATAAAAATAACATTAA
* * *
78132053 TATTTACTTAAATAATAAGT-AAATACAT-ACATATATTACAAATGTATGTATAATAT-T-TATT
1 TATTTACTTAAATAA-AAATCAAATAAATAAAATATATTACAAATGTA-G-A-AATATATGTATT
* *
78132114 ACAC-ATATATTTTATTTTTATCACACAATTGTCACAATTTAATTTATTTATCATATAAATATC
62 ACACTATATATTTTA--TTTACCACACAATTGTCACAATTTAATTTATTTATAATATAAATATC
78132177 TTATGATATA
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
147 9 0.09
148 22 0.21
149 63 0.61
150 5 0.05
151 5 0.05
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (148 bp):
TATTTACTTAAATAAAAATCAAATAAATAAAATATATTACAAATGTAGAAATATATGTATTACAC
TATATATTTTATTTACCACACAATTGTCACAATTTAATTTATTTATAATATAAATATCAATTTAA
TAATAAAAATAACATTAA
Found at i:78135496 original size:40 final size:40
Alignment explanation
Indices: 78135436--78135619 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
78135426 TATTCGAATG
*
78135436 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACC
* ** * *
78135476 ATATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACC
* * * *
78135516 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACC
78135556 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACC
78135596 ATATCCGGGCTAAGA-CTCGAAGGC
1 ATATCCGGGCTAAGATC-CGAAGGC
78135620 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 119 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACC
Found at i:78135569 original size:80 final size:80
Alignment explanation
Indices: 78135436--78135619 Score: 237
Period size: 80 Copynumber: 2.3 Consensus size: 80
78135426 TATTCGAATG
* * *
78135436 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACCATATCCGGACTAAGATC-CGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACCATATCCGGACTAAG-TCTCGAAGGC
* *
78135500 ATTCGTGCGAGTTG-CT
65 ATTCATGCGAG-TGACC
* * *
78135516 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACCATATCCGGACTAAGTCTCGAAGGCA
* *
78135581 TTTATGCTAGTGACC
66 TTCATGCGAGTGACC
*
78135596 ATATCCGGGCTAAGACTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
78135620 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 4 0.04
80 87 0.96
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACCATATCCGGACTAAGTCTCGAAGGCA
TTCATGCGAGTGACC
Found at i:78146491 original size:22 final size:24
Alignment explanation
Indices: 78146457--78146506 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
78146447 TTTTGAAAAC
*
78146457 TTTTAATTATTATTTTTAATT-TT
1 TTTTAATTATTATCTTTAATTATT
* *
78146480 TTTTACTT-TTATCTTTATTTATT
1 TTTTAATTATTATCTTTAATTATT
78146503 TTTT
1 TTTT
78146507 TAAATTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTAATTATTATCTTTAATTATT
Found at i:78146525 original size:35 final size:35
Alignment explanation
Indices: 78146458--78146526 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
78146448 TTTGAAAACT
*
78146458 TTTAATTATTATTTTTAATTTTTTTTACTTTTATC
1 TTTAATTATTATTTTTAATTCTTTTTACTTTTATC
*
78146493 TTTATTTATT-TTTTTAAATTACTTTTTA-TTTTAT
1 TTTAATTATTATTTTT-AATT-CTTTTTACTTTTAT
78146527 TTCTCTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 5 0.17
35 19 0.63
36 6 0.20
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (35 bp):
TTTAATTATTATTTTTAATTCTTTTTACTTTTATC
Found at i:78153554 original size:89 final size:89
Alignment explanation
Indices: 78153403--78153586 Score: 314
Period size: 89 Copynumber: 2.1 Consensus size: 89
78153393 ATCATACTGC
*
78153403 ATGTAATGTCCATGCTACACATCCATACTTGATCTATGTCATTTGGCTGTGTTAATATACGTGAT
1 ATGTAATGTCCATGCTACACATCCATACTTGATCTATGTCACTTGGCTGTGTTAATATACGTGAT
*
78153468 CAAGGATGGATTTAGTTACGATAT
66 CAAGGATAGATTTAGTTACGATAT
* *
78153492 ATGTAATGTCCATGCTACATATCCATACTTGATCTATGTCACTTGGTTGTGTTAATATACGTGAT
1 ATGTAATGTCCATGCTACACATCCATACTTGATCTATGTCACTTGGCTGTGTTAATATACGTGAT
* *
78153557 CAGGGATAGATTTAGTTATGATAT
66 CAAGGATAGATTTAGTTACGATAT
78153581 ATGTAA
1 ATGTAA
78153587 CGAAAATTGC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (89 bp):
ATGTAATGTCCATGCTACACATCCATACTTGATCTATGTCACTTGGCTGTGTTAATATACGTGAT
CAAGGATAGATTTAGTTACGATAT
Found at i:78161182 original size:27 final size:27
Alignment explanation
Indices: 78161152--78161241 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
78161142 ACAACGAAAA
* *
78161152 TAGTTCATACAGAGTATGCCACAAAGG
1 TAGTTCTTTCAGAGTATGCCACAAAGG
* *
78161179 TAGTTCTTTCAGAGTACGCCACAAAAG
1 TAGTTCTTTCAGAGTATGCCACAAAGG
*
78161206 CAGTTCTTTCAGAGTATGCCACAAAGG
1 TAGTTCTTTCAGAGTATGCCACAAAGG
*
78161233 TAGCTCTTT
1 TAGTTCTTT
78161242 AACTGTCGTG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (27 bp):
TAGTTCTTTCAGAGTATGCCACAAAGG
Found at i:78162515 original size:48 final size:48
Alignment explanation
Indices: 78162435--78162813 Score: 341
Period size: 48 Copynumber: 7.9 Consensus size: 48
78162425 ACATTTGGGT
* * * *
78162435 GATATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGGTATT
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
* * * * * * *
78162483 AATATGTGTGTTAGTGTAAGACCATGTTTGGGACATGGCGTTGGCCA-C
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATC
* * * *
78162531 GATATGAGACCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATT
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
** * * * * *
78162579 GATATTTGTGCTAGTGGAAGACTATGTCTGGGACATGGCGTCAGCCA-C
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATC
* *
78162627 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
* * * * *
78162675 GATATGCGTGCTAGTTTAAGACCATGTTTGGGACATGGCATCGACCA-C
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATC
* * * ** *
78162723 AACATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCAACCTC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
* * * * * *
78162771 AACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
78162814 ACAATTCACC
Statistics
Matches: 262, Mismatches: 63, Indels: 12
0.78 0.19 0.04
Matches are distributed among these distances:
47 5 0.02
48 252 0.96
49 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
Found at i:78162600 original size:96 final size:96
Alignment explanation
Indices: 78162435--78162809 Score: 471
Period size: 96 Copynumber: 3.9 Consensus size: 96
78162425 ACATTTGGGT
* * *
78162435 GATATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGGTATTAATATGTGTGTTAGTGT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTGT
*
78162500 AAGACCATGTTTGGGACATGGCGTTGGCCAC
66 AAGACCATGTTTGGGACATGGCGTCGGCCAC
* * *
78162531 GATATGAGACCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATTTGTGCTAGTGG
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTGT
* * *
78162596 AAGACTATGTCTGGGACATGGCGTCAGCCAC
66 AAGACCATGTTTGGGACATGGCGTCGGCCAC
* ** * *
78162627 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGCGTGCTAGTTT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTGT
* *
78162692 AAGACCATGTTTGGGACATGGCATCGACCAC
66 AAGACCATGTTTGGGACATGGCGTCGGCCAC
* * * * **** ** * * *
78162723 AACATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCAACCTCAACATGTGAGCCAGTGT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTGT
*
78162788 AAGACCATGTTTGGAACATGGC
66 AAGACCATGTTTGGGACATGGC
78162810 ATCGACAATT
Statistics
Matches: 243, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 243 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTGTGCTAGTGT
AAGACCATGTTTGGGACATGGCGTCGGCCAC
Found at i:78171394 original size:29 final size:29
Alignment explanation
Indices: 78171355--78171433 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
78171345 CTTAATAATC
*
78171355 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
78171385 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
78171414 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
78171434 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:78173513 original size:48 final size:48
Alignment explanation
Indices: 78173442--78173819 Score: 420
Period size: 48 Copynumber: 7.9 Consensus size: 48
78173432 GACATTTGGG
* **
78173442 TGATATGAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATTAGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * *
78173490 TGATATGTGTGCTAGTGCAAGACCATGTCTGGGACATGGCGTCGGCCA-
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT
* * *
78173538 TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGACATCGGCCT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * *
78173586 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTTGCCA-
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCAT
* * * *
78173634 CGATATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGTAT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* ** *
78173682 TGATATGTGTCCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCA-
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT
** * * * *
78173730 CAACATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTAT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * *
78173778 TGAGACGAGAGCTATTGTAAGAGCATGTCTGGGACATGGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
78173820 TAGCCTCAAC
Statistics
Matches: 269, Mismatches: 55, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
47 5 0.02
48 258 0.96
49 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:78173608 original size:96 final size:96
Alignment explanation
Indices: 78173443--78173868 Score: 528
Period size: 96 Copynumber: 4.4 Consensus size: 96
78173433 ACATTTGGGT
* * ** *
78173443 GATATGAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATTAGCATTGATATGTGTGCTAGTGC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGT
* *
78173508 AAGACCATGTCTGGGACATGGCGTCGGCCAT
66 AAGACCATGTCTGGGACATGGCATCGGCCAC
* * * *
78173539 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGACATCGGCCTTGATATGTGTGCTAGTGT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGT
**
78173604 AAGACCATGTCTGGGACATGGCATTTGCCAC
66 AAGACCATGTCTGGGACATGGCATCGGCCAC
* * *
78173635 GATATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGTATTGATATGTGTCCTAGTGT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGT
*
78173700 AAGACCATGTCTGGGACATGACATCGGCCAC
66 AAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * * * * *
78173731 AACATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATTGAGACGAGAGCTATTGT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGT
* ** *
78173796 AAGAGCATGTCTGGGACATGGCATTAGCCTC
66 AAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * *
78173827 AACATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
78173869 AGCAATTCAC
Statistics
Matches: 291, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 291 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGT
AAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:78173834 original size:144 final size:143
Alignment explanation
Indices: 78173446--78173868 Score: 454
Period size: 144 Copynumber: 2.9 Consensus size: 143
78173436 TTTGGGTGAT
* * * * *
78173446 ATGAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATTAGCATTGATATGTGTGCTAGTGCAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGTGTAAG
* * *
78173511 ACCATGTCTGGGACATGGCGTCGGCCATGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATG
66 ACCATGTCTGGGACATGGCATCGGCC-TGATATGTGACCTAGTGTAAGACCATGTCTGGAACATG
*** *
78173576 ACATCGGCCTTGAT
130 ACATCGGCCACAAC
* * * * *
78173590 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTTGCCA-CGATATGAGAGCCAGTGTAA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TTGGCATTGATATGAGAGCTAGTGTAA
* ** * *
78173654 GACCATATCTGGGACATGGCATCGGTATTGATATGTGTCCTAGTGTAAGACCATGTCTGGGACAT
65 GACCATGTCTGGGACATGGCATCGG-CCTGATATGTGACCTAGTGTAAGACCATGTCTGGAACAT
78173719 GACATCGGCCACAAC
129 GACATCGGCCACAAC
* * * * * * *
78173734 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATTGAGACGAGAGCTATTGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGTGTAAG
* ** * * * *
78173799 AGCATGTCTGGGACATGGCATTAGCCTCAACATGTGAGCC-AATGTAAGACCATGTTTGGAACAT
66 ACCATGTCTGGGACATGGCATCGGCCT-GATATGTGA-CCTAGTGTAAGACCATGTCTGGAACAT
*
78173863 GGCATC
129 GACATC
78173869 AGCAATTCAC
Statistics
Matches: 227, Mismatches: 47, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
143 4 0.02
144 217 0.96
145 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (143 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGTGTAAG
ACCATGTCTGGGACATGGCATCGGCCTGATATGTGACCTAGTGTAAGACCATGTCTGGAACATGA
CATCGGCCACAAC
Found at i:78173845 original size:48 final size:48
Alignment explanation
Indices: 78173442--78173868 Score: 406
Period size: 48 Copynumber: 8.9 Consensus size: 48
78173432 GACATTTGGG
* * ** *
78173442 TGATATGAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATTAGCAT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * * * *
78173490 TGATATGTGTGCTAGTGCAAGACCATGTCTGGGACATGGCGTCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * *
78173538 TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGACATCGGCCT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * ** *
78173586 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTTGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * **
78173634 CGATATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGTAT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * *
78173682 TGATATGTG-TCCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCA
1 TGATATGAGAGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
** * * **
78173730 CAACATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTAT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * * * **
78173778 TGAGACGAGAGCTATTGTAAGAGCATGTCTGGGACATGGCATTAGCCT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
** * * * * *
78173826 CAACATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATC
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
78173869 AGCAATTCAC
Statistics
Matches: 303, Mismatches: 74, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
47 2 0.01
48 299 0.99
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
Found at i:78185858 original size:49 final size:49
Alignment explanation
Indices: 78185802--78186027 Score: 171
Period size: 49 Copynumber: 4.6 Consensus size: 49
78185792 TCAAGTTGAT
* * * * *
78185802 GCCATGTCCCAAACATGGTATTACACTTACTATCAAAATTGAGGCTGA-C
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGAT-ATC
* *
78185851 GCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGATATT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGATATC
* * * *
78185900 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATTCGTGCCA-AT-
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-A-AATCGAG-GATATC
* * * * * *
78185950 GTCATGTCCTAGACATGGTCTTACACTGAC-ACCTCTATA-CG-TGCTGAT-
1 GCCATGTCCCAGACATGGTCTTACACTGACTA--TCAAAATCGAGGAT-ATC
78185998 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
78186028 ACATCTTGTA
Statistics
Matches: 144, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
48 34 0.24
49 71 0.49
50 28 0.19
51 10 0.07
52 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGATATC
Found at i:78186012 original size:48 final size:48
Alignment explanation
Indices: 78185845--78186068 Score: 178
Period size: 48 Copynumber: 4.7 Consensus size: 48
78185835 CAAAATTGAG
* * * *
78185845 GCTGACGCCATGTCCCAGACATGGTCTTACACTGACTA--TCGAAATCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATA-CG-T
* * * *
78185894 GAT-ATTGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATTCGT
1 GCTGA-TGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTC-TATACGT
** * *
78185944 GCCAATGTCATGTCCTAGACATGGTCTTACACTGACACCTCTATACGT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT
*
78185992 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-T--GT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT
* *
78186037 AGCCGATG-CATGTCCCAAACAT-GTCTTACACT
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACT
78186069 AGCTTACATC
Statistics
Matches: 144, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 6 0.04
47 1 0.01
48 45 0.31
49 32 0.22
50 29 0.20
51 5 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT
Found at i:78186088 original size:46 final size:47
Alignment explanation
Indices: 78185902--78186211 Score: 214
Period size: 46 Copynumber: 6.6 Consensus size: 47
78185892 AGGATATTGC
* * *
78185902 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG-TGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACAT-CTCGAGGCCGATG
* * * ** *
78185951 TCATGTCCTAGACATGGTCTTACACT-G-AC-ACCTCTATACGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTACATCTCGA-G-GCCGATG
* *
78185999 CCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTTGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTACATCTCG-AGGCCGATG
*
78186045 CATGTCCCAAACATGTCTTACACTAGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAGGCCGATG
* * * * *
78186091 CATGTCCCAGACATGTCTTACATTAGCTCT-CCTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAGGCCGATG
* * * *
78186137 CCATGTCCCAAACATGGTCTTACACTGGCTCTA-ATAAT-GTGGCCGACT-
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-CTCGAGGCCGA-TG
78186185 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
78186212 ACACAAATAA
Statistics
Matches: 211, Mismatches: 35, Indels: 32
0.76 0.13 0.12
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 73 0.35
47 27 0.13
48 57 0.27
49 4 0.02
50 24 0.11
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAGGCCGATG
Found at i:78186181 original size:94 final size:92
Alignment explanation
Indices: 78186040--78186211 Score: 242
Period size: 94 Copynumber: 1.8 Consensus size: 92
78186030 ATCTTGTAGC
*
78186040 CGATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTCGAGGCCGA-TGCATGTCCCAGACA
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTTACATATCGAGGCCGACT-CATGTCCCAGACA
*
78186104 TGTCTTACATTAGCTCTCCTCTCAATGT
65 TGTCTTACACTAGCTCTCCTCTCAATGT
* *
78186132 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTA-ATAAT-GTGGCCGACTCATGTCCCAG
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGACTCATGTCCCAG
78186195 ACATGTCTTACACTAGC
62 ACATGTCTTACACTAGC
78186212 ACACAAATAA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 48 0.68
95 4 0.06
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCTTACATATCGAGGCCGACTCATGTCCCAGACAT
GTCTTACACTAGCTCTCCTCTCAATGT
Found at i:78188591 original size:46 final size:46
Alignment explanation
Indices: 78188541--78188799 Score: 369
Period size: 46 Copynumber: 5.6 Consensus size: 46
78188531 TGTTATAGTG
* *
78188541 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATGTCATGTTGCCATGGTA
* ** * *
78188587 TCTTTCAACCATGGTTTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
**
78188633 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* *
78188679 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* *
78188725 TCTTTCAACCATGGTCTTACACATTTCATATCA-GATTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATG-TTGCCATGGTA
78188771 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACACATTTCAT
78188800 ATCAGAGAGT
Statistics
Matches: 198, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.03
46 193 0.97
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
Found at i:78190905 original size:11 final size:11
Alignment explanation
Indices: 78190889--78190936 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
78190879 CTTTATATAC
78190889 TAATAAAATAA
1 TAATAAAATAA
78190900 TAATAAAATATA
1 TAATAAAATA-A
* *
78190912 TTATTAAAATAT
1 -TAATAAAATAA
78190924 TAATAAAATAA
1 TAATAAAATAA
78190935 TA
1 TA
78190937 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:78190919 original size:24 final size:24
Alignment explanation
Indices: 78190883--78190938 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
78190873 TTCTTTCTTT
*
78190883 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
78190907 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
78190931 ATAATATT
1 AT-ATATT
78190939 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:78203007 original size:47 final size:46
Alignment explanation
Indices: 78202844--78203248 Score: 272
Period size: 48 Copynumber: 8.6 Consensus size: 46
78202834 ATATATTGCT
* * * *
78202844 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATACGTATGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-CATCATCT--GTAGGCC
* *
78202894 GATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TCT-TA-GTC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CATCATCTGTAGGCC
* * * **
78202938 GATGCGTGTCCCAGACACGTCTTACACTGGTTATC-TCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCATCATCTGT--AGGCC
* * *
78202985 GATGCATGTCCCAAACATGTCTTACAC-AGGCACTCATCTCT-GTGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCA-TCATCTGTAG-GCC
* * *
78203031 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCATCATCTGTA-GGCC
* * * * *
78203079 GATGCATGTCCCAGACATGACTTACACTAGCCCTCGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCATCATCTGTAGGCC
* * * * * *
78203125 GATGCCATGTCCCAAACATGGTCTTACACTAACCCTCGTCTGGATGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCATCATCTGTAGGCC
* * * *
78203173 GATGCCATATCCCAGACATGGTCTTACACTGGCTC-TCATAATGT-GGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-CATCAT-CTGTAGGCC
*
78203221 GAAGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
78203249 GGCGCACAAA
Statistics
Matches: 289, Mismatches: 48, Indels: 40
0.77 0.13 0.11
Matches are distributed among these distances:
43 5 0.02
44 29 0.10
45 3 0.01
46 41 0.14
47 84 0.29
48 101 0.35
49 22 0.08
50 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCATCATCTGTAGGCC
Found at i:78203088 original size:94 final size:94
Alignment explanation
Indices: 78202844--78203155 Score: 329
Period size: 94 Copynumber: 3.3 Consensus size: 94
78202834 ATATATTGCT
* *
78202844 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGTAT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATC--ATA-GTATGGCTGATGCATGTCCCAG
* *
78202908 ACATGTCTTACACTAGCA--CAACTCT-TAGTC
63 ACATGTCTTACACTAGCACTCATCTCTGT-GCC
* * * * * * *
78202938 GATG-CGTGTCCCAGACA-CGTCTTACACTGGTTATC-TCTGTCGA-GGCCGATGCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-AGT--ATGGCTGATGCATGTCCCAG
78202999 ACATGTCTTACAC-AGGCACTCATCTCTGTGCC
63 ACATGTCTTACACTA-GCACTCATCTCTGTGCC
78203031 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACA
* * * *
78203096 TGACTTACACTAGCCCTCGTCT-GGATGCC
66 TGTCTTACACTAGCACTCATCTCTG-TGCC
*
78203125 GATGCCATGTCCCAAACATGGTCTTACACTA
1 GATGCCATGTCCCAGACATGGTCTTACACTA
78203156 ACCCTCGTCT
Statistics
Matches: 183, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
89 3 0.02
90 1 0.01
91 32 0.17
92 15 0.08
93 26 0.14
94 87 0.48
95 18 0.10
96 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTGCC
Found at i:78203177 original size:94 final size:95
Alignment explanation
Indices: 78202981--78203211 Score: 256
Period size: 94 Copynumber: 2.4 Consensus size: 95
78202971 TCTCTGTCGA
* *
78202981 GGCCGATGCATGTCCCAAACATGTCTTACAC-AGGCACTCATCTCTGTGCCGATGCCATGTCCCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGGCACTCATCTCGGTGCCGATGCCATGTCCCA
* * * *
78203045 GACATGGTCTTACACTAGCTATCATAGTAT
66 AACATGGTCTTACACTAACCATCATAGGAT
* * * *
78203075 GGCTGATGCATGTCCCAGACATGACTTACACTA-GCCCTCGTCT-GGATGCCGATGCCATGTCCC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGGCACTCATCTCGG-TGCCGATGCCATGTCCC
* * *
78203138 AAACATGGTCTTACACTAACCCTCGTCTGGAT
65 AAACATGGTCTTACACTAACCATCAT-AGGAT
* *
78203170 -GCCGATGCCATATCCCAGACATGGTCTTACACT-GGCTCTCAT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGGCACTCAT
78203212 AATGTGGCTG
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
93 1 0.01
94 80 0.71
95 17 0.15
96 15 0.13
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (95 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGGCACTCATCTCGGTGCCGATGCCATGTCCCA
AACATGGTCTTACACTAACCATCATAGGAT
Found at i:78203199 original size:142 final size:140
Alignment explanation
Indices: 78202982--78203248 Score: 385
Period size: 142 Copynumber: 1.9 Consensus size: 140
78202972 CTCTGTCGAG
* * *
78202982 GCCGATGCATGTCCCAAACATGTCTTACACAGGCACTCATCTCTGTGCCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAAACATGTCTTACACAGACACTCATCTCGGTGCCGATGCCATATCCCAGA
* *
78203047 CATGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACATGACTTACACTAGCCC
66 CATGGTCTTACACTAGCTATCATAATATGGCTGAAGCATGTCCCAGACATGACTTACACTAGCCC
78203112 TCGTCTGGAT
131 TCGTCTGGAT
* *
78203122 GCCGATGCCATGTCCCAAACATGGTCTTACACTA-ACCCTCGTCT-GGATGCCGATGCCATATCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACAC-AGACACTCATCTCGG-TGCCGATGCCATATCC
* * * *
78203185 CAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGACATGTCTTACACT
62 CAGACATGGTCTTACACTAGCTATCATAATATGGCTGAAGCATGTCCCAGACATGACTTACACT
78203249 GGCGCACAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
140 7 0.06
141 15 0.13
142 89 0.79
143 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (140 bp):
GCCGATGCATGTCCCAAACATGTCTTACACAGACACTCATCTCGGTGCCGATGCCATATCCCAGA
CATGGTCTTACACTAGCTATCATAATATGGCTGAAGCATGTCCCAGACATGACTTACACTAGCCC
TCGTCTGGAT
Found at i:78204594 original size:23 final size:23
Alignment explanation
Indices: 78204568--78204614 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
78204558 ACTTTGGGAA
*
78204568 ACATAGAAAATTTTTAAAGGTAT
1 ACATAGAAAATTTTCAAAGGTAT
*
78204591 ACATAGAAAATTTTCAAATGTAT
1 ACATAGAAAATTTTCAAAGGTAT
78204614 A
1 A
78204615 AGGGTCACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (23 bp):
ACATAGAAAATTTTCAAAGGTAT
Found at i:78206344 original size:27 final size:27
Alignment explanation
Indices: 78206313--78206490 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78206303 TAAATTGTAC
78206313 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78206340 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78206366 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78206394 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78206422 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78206449 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78206476 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78206491 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78206427 original size:82 final size:81
Alignment explanation
Indices: 78206314--78206469 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78206304 AAATTGTACA
* *
78206314 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78206378 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78206395 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78206460 TGCGAGTTGA
65 TGCGAATTGA
78206470 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78206481 original size:82 final size:81
Alignment explanation
Indices: 78206310--78206490 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
78206300 GATTAAATTG
* *
78206310 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78206375 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78206391 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
78206455 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
78206473 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78206491 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:78214355 original size:27 final size:27
Alignment explanation
Indices: 78214324--78214500 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
78214314 TAAATTGTAC
*
78214324 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
78214351 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
78214377 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
78214405 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
78214432 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
78214459 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
78214486 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78214501 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:78214385 original size:54 final size:55
Alignment explanation
Indices: 78214324--78214500 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
78214314 TAAATTGTAC
* **
78214324 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
78214379 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
78214432 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
78214486 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78214501 GACTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:78214464 original size:81 final size:81
Alignment explanation
Indices: 78214325--78214479 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
78214315 AAATTGTACA
* * *
78214325 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
78214390 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
78214406 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
*
78214470 TGCGAGTTGA
65 TGCGAATTGA
78214480 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78214491 original size:81 final size:81
Alignment explanation
Indices: 78214321--78214500 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
78214311 GATTAAATTG
* * *
78214321 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78214386 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78214402 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
78214466 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
78214483 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78214501 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:78222370 original size:27 final size:27
Alignment explanation
Indices: 78222339--78222515 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
78222329 TAAATTGTAC
*
78222339 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
78222366 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
78222392 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
78222420 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
78222447 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
78222474 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
78222501 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78222516 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:78222400 original size:54 final size:55
Alignment explanation
Indices: 78222339--78222515 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
78222329 TAAATTGTAC
* **
78222339 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
78222394 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
78222447 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
78222501 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78222516 GACTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:78222479 original size:81 final size:81
Alignment explanation
Indices: 78222340--78222494 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
78222330 AAATTGTACA
* * *
78222340 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
78222405 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
78222421 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
*
78222485 TGCGAGTTGA
65 TGCGAATTGA
78222495 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78222506 original size:81 final size:81
Alignment explanation
Indices: 78222336--78222515 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
78222326 GATTAAATTG
* * *
78222336 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78222401 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78222417 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
78222481 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
78222498 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78222516 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:78225207 original size:43 final size:43
Alignment explanation
Indices: 78225159--78225328 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 43
78225149 AGCTCGTACA
* *
78225159 ATGCCAATATCCCAGACGAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACGAGGTCTTACACGAAATCAAATATCG
* * * *
78225202 ATGCCACTGTCCCAGACAAGGTCTTA-ACGAAATCATATAT-G
1 ATGCCAATATCCCAGACGAGGTCTTACACGAAATCAAATATCG
* * * *
78225243 ATGTCAATGTCTCAGAC-ATGGTCTTACATGTAAAT-ATCAA-ATCG
1 ATGCCAATATCCCAGACGA-GGTCTTACACG-AAATCA--AATATCG
* * * * *
78225287 ATACCAACATCCCAGATGTGGTCTTACACGAAATCACATATC
1 ATGCCAATATCCCAGACGAGGTCTTACACGAAATCAAATATC
78225329 CGAATCCTAT
Statistics
Matches: 98, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
40 1 0.01
41 22 0.22
42 15 0.15
43 36 0.37
44 24 0.24
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACGAGGTCTTACACGAAATCAAATATCG
Found at i:78225266 original size:41 final size:42
Alignment explanation
Indices: 78225159--78225268 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 42
78225149 AGCTCGTACA
* * * *
78225159 ATGCCAATATCCCAGACGAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTA-ACGAAATCAAATATCG
* *
78225202 ATGCCACTGTCCCAGACAAGGTCTTAACGAAATCATATAT-G
1 ATGCCAATGTCCCAGACAAGGTCTTAACGAAATCAAATATCG
* * *
78225243 ATGTCAATGTCTCAGACATGGTCTTA
1 ATGCCAATGTCCCAGACAAGGTCTTA
78225269 CATGTAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 23 0.40
42 11 0.19
43 23 0.40
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAAGGTCTTAACGAAATCAAATATCG
Found at i:78230454 original size:12 final size:12
Alignment explanation
Indices: 78230437--78230462 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78230427 GGTTTGGCGT
78230437 GGCCTAGCACAC
1 GGCCTAGCACAC
78230449 GGCCTAGCACAC
1 GGCCTAGCACAC
78230461 GG
1 GG
78230463 GTGTGTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:78232623 original size:24 final size:24
Alignment explanation
Indices: 78232587--78232649 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
78232577 GAGTCGATAT
* * *
78232587 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAAGTTGAA
78232611 TGGCACTATGTGTGCGAAGTTGAA
1 TGGCACTATGTGTGCGAAGTTGAA
*
78232635 TGGCACTATATGTGC
1 TGGCACTATGTGTGC
78232650 TGGCTTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAAGTTGAA
Found at i:78239100 original size:24 final size:23
Alignment explanation
Indices: 78239064--78239125 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
78239054 GAGTCGATAT
* * *
78239064 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAAGTT-AA
*
78239088 TGGCACTATGTGTGTGAAGTTAA
1 TGGCACTATGTGTGCGAAGTTAA
78239111 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
78239126 TGGCTTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (23 bp):
TGGCACTATGTGTGCGAAGTTAA
Found at i:78243788 original size:194 final size:194
Alignment explanation
Indices: 78243443--78243823 Score: 559
Period size: 194 Copynumber: 2.0 Consensus size: 194
78243433 GAAAAATCAT
* * * *
78243443 AATCATGTATCATATGAAGACTGGATTCAAACACATCGCCACATCTAGGATAATGGCTTTCATTA
1 AATCATGTATCATATGAAGACTCGATTCAAACACATCACCACATCTAGGAAAATGACTTTCATTA
** * *
78243508 GTCATATGTCTTATTGTACGTTCATTATTAGTAAAAAGCCTTTCCTACTAGAAAAGCCATAAGAA
66 GTCATATGTCCCATTGTACGCTCATTATTAGTAAAAAGCCTCTCCTACTAGAAAAGCCATAAGAA
** * *
78243573 AACCTGAACCCTTTGCGGTACTTTAGCCTTTCATATCAATTTCCACACATTGGAAAACTCTCAC
131 AACCCAAACCCTTTACGGTACTTTAGCCTTCCATATCAATTTCCACACATTGGAAAACTCTCAC
* * *
78243637 AATCATGTATCGTATGAAGATTCGATTCGAACACATCACCACATCTAGGAAAATGACTTTCATTA
1 AATCATGTATCATATGAAGACTCGATTCAAACACATCACCACATCTAGGAAAATGACTTTCATTA
* * *
78243702 GTCATATGTCCCATTGTACGCTC-TCTATT-GATGAGAAGCCTCTCCTACTAGAAAAGCCATTAG
66 GTCATATGTCCCATTGTACGCTCAT-TATTAG-TAAAAAGCCTCTCCTACTAGAAAAGCCATAAG
*
78243765 AAAACCCAAACTCTTTACGGTACTTTAGCCTTCCATATCAATTTCCACACATTGGAAAA
129 AAAACCCAAACCCTTTACGGTACTTTAGCCTTCCATATCAATTTCCACACATTGGAAAA
78243824 GTCCCCAAAA
Statistics
Matches: 166, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
193 2 0.01
194 164 0.99
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (194 bp):
AATCATGTATCATATGAAGACTCGATTCAAACACATCACCACATCTAGGAAAATGACTTTCATTA
GTCATATGTCCCATTGTACGCTCATTATTAGTAAAAAGCCTCTCCTACTAGAAAAGCCATAAGAA
AACCCAAACCCTTTACGGTACTTTAGCCTTCCATATCAATTTCCACACATTGGAAAACTCTCAC
Found at i:78246150 original size:17 final size:18
Alignment explanation
Indices: 78246115--78246150 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
78246105 TTCAAAATTA
78246115 TGGGCCCATATGCCCGTG
1 TGGGCCCATATGCCCGTG
78246133 TGGGCCCATATG-CCGTG
1 TGGGCCCATATGCCCGTG
78246150 T
1 T
78246151 AGCCCACACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.11, C:0.31, G:0.33, T:0.25
Consensus pattern (18 bp):
TGGGCCCATATGCCCGTG
Found at i:78258975 original size:16 final size:17
Alignment explanation
Indices: 78258954--78258985 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
78258944 CCATGTTATC
78258954 AAAAATAAAAA-ATTTA
1 AAAAATAAAAATATTTA
78258970 AAAAATAAAAATATTT
1 AAAAATAAAAATATTT
78258986 TAAATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATAAAAATATTTA
Found at i:78259126 original size:11 final size:10
Alignment explanation
Indices: 78259087--78259160 Score: 55
Period size: 11 Copynumber: 7.4 Consensus size: 10
78259077 TTTCGAATGT
78259087 AATTTTT-AA
1 AATTTTTAAA
78259096 AATTTTTAAA
1 AATTTTTAAA
**
78259106 AA-AATT-AA
1 AATTTTTAAA
78259114 AATTTTTACAA
1 AATTTTTA-AA
*
78259125 AATATTATAAA
1 AAT-TTTTAAA
*
78259136 AATTTTAAATA
1 AATTTTTAA-A
*
78259147 AATTTTAAAA
1 AATTTTTAAA
78259157 AATT
1 AATT
78259161 CAAAAAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 4 0.08
9 11 0.21
10 13 0.25
11 20 0.38
12 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:78259126 original size:19 final size:18
Alignment explanation
Indices: 78259092--78259150 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
78259082 AATGTAATTT
78259092 TTAAAATTTTTAAAAAAA
1 TTAAAATTTTTAAAAAAA
*
78259110 TTAAAATTTTTACAAAATAT
1 TTAAAATTTTTA-AAAA-AA
* *
78259130 TATAAAAATTTTAAATAAA
1 T-TAAAATTTTTAAAAAAA
78259149 TT
1 TT
78259151 TTAAAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 13 0.38
19 6 0.18
20 5 0.15
21 10 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAATTTTTAAAAAAA
Found at i:78259667 original size:2 final size:2
Alignment explanation
Indices: 78259654--78259683 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
78259644 CTAAAAAGGA
*
78259654 AT AT AC 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
78259684 TAAGATTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:78267834 original size:13 final size:13
Alignment explanation
Indices: 78267816--78267850 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
78267806 ATATTGATTT
78267816 TGGGACACGGCTA
1 TGGGACACGGCTA
*
78267829 TGGGACATGGCTA
1 TGGGACACGGCTA
78267842 TGGGACACG
1 TGGGACACG
78267851 CCCGTGTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.40, T:0.17
Consensus pattern (13 bp):
TGGGACACGGCTA
Found at i:78273080 original size:17 final size:17
Alignment explanation
Indices: 78273046--78273087 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
78273036 CCAAAATATT
78273046 AATT-AATTAATTTATC
1 AATTAAATTAATTTATC
* *
78273062 AATTAAATTATTTTCTC
1 AATTAAATTAATTTATC
*
78273079 AATCAAATT
1 AATTAAATT
78273088 CTAATTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTAAATTAATTTATC
Found at i:78273197 original size:19 final size:19
Alignment explanation
Indices: 78273173--78273212 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
78273163 CAAATTCATG
78273173 ATGACTAATTAA-TTCAATT
1 ATGACT-ATTAACTTCAATT
*
78273192 ATGACTTTTAACTTCAATT
1 ATGACTATTAACTTCAATT
78273211 AT
1 AT
78273213 TTAATAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (19 bp):
ATGACTATTAACTTCAATT
Found at i:78273414 original size:65 final size:65
Alignment explanation
Indices: 78273338--78273464 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
78273328 TTACTTCATC
* *
78273338 GTTTTCATTATTTTATAACATTGGTTCTACATGCAATTCGTTTCTGGTTATCTTGAGCTAGCATT
1 GTTTTCATTATTTTATAACATTGATTCTACATGCAATTCGTTTATGGTTATCTTGAGCTAGCATT
78273403 GTTTTCATTATTTTATAACATTGATTCTACATGCAATTCGTTTATGGTTATCTTGAGCTAGC
1 GTTTTCATTATTTTATAACATTGATTCTACATGCAATTCGTTTATGGTTATCTTGAGCTAGC
78273465 GGAGGGACCG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (65 bp):
GTTTTCATTATTTTATAACATTGATTCTACATGCAATTCGTTTATGGTTATCTTGAGCTAGCATT
Found at i:78280484 original size:21 final size:22
Alignment explanation
Indices: 78280455--78280501 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
78280445 CAGAAGGAGT
*
78280455 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
78280477 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
78280498 GAGT
1 GAGT
78280502 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:78284067 original size:18 final size:18
Alignment explanation
Indices: 78284044--78284326 Score: 124
Period size: 18 Copynumber: 15.3 Consensus size: 18
78284034 GAACAATTAT
*
78284044 TTATTCAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* *
78284062 TTATTC-GATAACAATCAA
1 TTATTCAG-TAATAATCAG
* *
78284080 TTATTCAATAATAACCAG
1 TTATTCAGTAATAATCAG
*
78284098 TTATTCAGTATCGATCAATTAATCG
1 TTATTCAGTA---AT-AA-TCA--G
* * * *
78284123 ATTATCCAGTAACAGTCAA
1 -TTATTCAGTAATAATCAG
78284142 TTATTCAGTAA-AATCAG
1 TTATTCAGTAATAATCAG
* * *
78284159 ATATTCAGTAACAATTAAG
1 TTATTCAGTAATAA-TCAG
* *
78284178 TTATTCAGTAACAGTC-G
1 TTATTCAGTAATAATCAG
** *
78284195 TTCATTCAGCGACAATCAG
1 TT-ATTCAGTAATAATCAG
* *
78284214 TTATTCAGTAATGATCAA
1 TTATTCAGTAATAATCAG
* *
78284232 TTATTCAATAATATTCAG
1 TTATTCAGTAATAATCAG
* * *
78284250 TTATTTAGTAACAGTCTA-
1 TTATTCAGTAATAATC-AG
* * * * *
78284268 ATATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
* * * *
78284286 TTATCCGGTAATAGTCAA
1 TTATTCAGTAATAATCAG
78284304 TTATTCAGTAATAATCAG
1 TTATTCAGTAATAATCAG
78284322 TTATT
1 TTATT
78284327 TTATACCTTT
Statistics
Matches: 200, Mismatches: 49, Indels: 32
0.71 0.17 0.11
Matches are distributed among these distances:
17 19 0.09
18 143 0.71
19 19 0.09
21 4 0.02
22 3 0.01
23 2 0.01
25 1 0.00
26 9 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:78284118 original size:36 final size:36
Alignment explanation
Indices: 78284035--78284103 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
78284025 TAACACTCAG
* * * **
78284035 AACAATTATTTATTCAGTAATAGTCAGTTATTCGAT
1 AACAATCAATTATTCAATAATAACCAGTTATTCGAT
78284071 AACAATCAATTATTCAATAATAACCAGTTATTC
1 AACAATCAATTATTCAATAATAACCAGTTATTC
78284104 AGTATCGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (36 bp):
AACAATCAATTATTCAATAATAACCAGTTATTCGAT
Found at i:78284184 original size:19 final size:19
Alignment explanation
Indices: 78284124--78284190 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
78284114 AATTAATCGA
* * *
78284124 TTATCCAGTAACAGTCAA-
1 TTATTCAGTAACAATTAAG
*
78284142 TTATTCAGTAA-AA-TCAG
1 TTATTCAGTAACAATTAAG
*
78284159 ATATTCAGTAACAATTAAG
1 TTATTCAGTAACAATTAAG
78284178 TTATTCAGTAACA
1 TTATTCAGTAACA
78284191 GTCGTTCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 1 0.03
17 11 0.28
18 12 0.31
19 15 0.38
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
TTATTCAGTAACAATTAAG
Found at i:78284297 original size:72 final size:70
Alignment explanation
Indices: 78284124--78284327 Score: 214
Period size: 72 Copynumber: 2.8 Consensus size: 70
78284114 AATTAATCGA
* * * *
78284124 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAATATCA-ATTATTCAGTAA-TATTCAGTTATTTAGTA
78284188 ACAGTCG
64 ACAGTCG
* ** * * *
78284195 TTCATTCAGCGACAATCAGTTATTCAGTAATGATCAATTATTCAATAATATTCAGTTATTTAGTA
1 TT-ATCCAGTAACAGTCAATTATTCAGTAAT-ATCAATTATTCAGTAATATTCAGTTATTTAGTA
78284260 ACAGTC-
64 ACAGTCG
* * *
78284266 TAATATCCAGTAACAGTCAATTATCCGGTAATAGTCAATTATTCAGTAATAATCAGTTATTT
1 T--TATCCAGTAACAGTCAATTATTCAGTAATA-TCAATTATTCAGTAATATTCAGTTATTT
78284328 TATACCTTTA
Statistics
Matches: 108, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
71 4 0.04
72 90 0.83
73 14 0.13
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (70 bp):
TTATCCAGTAACAGTCAATTATTCAGTAATATCAATTATTCAGTAATATTCAGTTATTTAGTAAC
AGTCG
Found at i:78284588 original size:45 final size:45
Alignment explanation
Indices: 78284493--78284594 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
78284483 AATTCGGAAT
* * *
78284493 AGTAACAATAACAGTATTCAACACACAAAGTGCTGAATTGATAAC
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAAC
* * *
78284538 GGTAACAGTAACAGTATTCAACACACAAAGTGCCGAGTCGGTAAC
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAAC
*
78284583 AGTAACGGTAAC
1 AGTAACAGTAAC
78284595 GTAGCAGTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (45 bp):
AGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAAC
Found at i:78286516 original size:14 final size:15
Alignment explanation
Indices: 78286483--78286521 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
78286473 ATTTATTTCA
78286483 TAATAAATATCAATT
1 TAATAAATATCAATT
78286498 TAATAAA-AT-AATAT
1 TAATAAATATCAAT-T
78286512 TAATAAATAT
1 TAATAAATAT
78286522 TAAATGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATAAATATCAATT
Found at i:78287132 original size:107 final size:107
Alignment explanation
Indices: 78286928--78287133 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 107
78286918 CAAAGTCTTG
*
78286928 ACCAGTTCACGAGGCTGCTCGCACAAGCTGACGAGAATCCACAACGAATGCAGGATCTCAGCCAT
1 ACCAGTTCACGAGGCTGCTCACACAAGCTGACGAGAATCCACAACGAATGCAGGATCTCAGCCAT
* * * *
78286993 CTTAATGACCTGTTTCATCAAAACAGAGTATTCAGTCATTTC
66 CATAATGACCTGTATCAACAAAACAGAATATTCAGTCATTTC
* ** * *
78287035 ACCAGTTCACGATGCTGCTCACACAAGCTTTCGAGAATCCGCAAC-ATATTCAGGATCTCAGCCA
1 ACCAGTTCACGAGGCTGCTCACACAAGCTGACGAGAATCCACAACGA-ATGCAGGATCTCAGCCA
* *** * *
78287099 TCATGATGGTGTGTATCAACAGAGCAGAATATTCA
65 TCATAATGACCTGTATCAACAAAACAGAATATTCA
78287134 TTTAGTATTC
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
106 1 0.01
107 81 0.99
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (107 bp):
ACCAGTTCACGAGGCTGCTCACACAAGCTGACGAGAATCCACAACGAATGCAGGATCTCAGCCAT
CATAATGACCTGTATCAACAAAACAGAATATTCAGTCATTTC
Found at i:78290095 original size:46 final size:46
Alignment explanation
Indices: 78290045--78290217 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
78290035 TGGTTGAGCA
* *
78290045 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
78290091 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
78290138 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
78290184 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
78290218 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:78290201 original size:93 final size:93
Alignment explanation
Indices: 78290042--78290212 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
78290032 GGATGGTTGA
* * *
78290042 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
78290107 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
78290135 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
78290200 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
78290213 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:78290479 original size:19 final size:20
Alignment explanation
Indices: 78290442--78290479 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
78290432 ATAAGGTGGT
78290442 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
78290462 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
78290480 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:78296665 original size:26 final size:26
Alignment explanation
Indices: 78296627--78296682 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
78296617 TTAATTTCAT
*
78296627 TTAATTAACAGAATCCAACAATAAAA
1 TTAATTAACAGAATCCAAAAATAAAA
*
78296653 TTAATTAATAGAATCCAAAAATAAAA
1 TTAATTAACAGAATCCAAAAATAAAA
78296679 TTAA
1 TTAA
78296683 CTCTTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.27
Consensus pattern (26 bp):
TTAATTAACAGAATCCAAAAATAAAA
Found at i:78310825 original size:48 final size:47
Alignment explanation
Indices: 78310754--78310981 Score: 249
Period size: 48 Copynumber: 4.8 Consensus size: 47
78310744 TGATATGTGT
* *
78310754 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-TATGAGA
* * * * *
78310802 GCTAGTGTAAGACCATATCTGGGACATGGCATCGGCGTTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCATATGAGA
* * * * * *
78310850 GCTAGTGTAAGACCATGTCTAGGAAATGGCATCGGCATTGAGAAGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCATATGAGA
* * * *
78310898 GCTAGTATAAGACCATGTCTGGGACATGGCATTGGCCTCGACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-ATATGAGA
* *
78310946 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
78310982 TATTTACCCT
Statistics
Matches: 150, Mismatches: 28, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 148 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATATGAGA
Found at i:78310909 original size:96 final size:92
Alignment explanation
Indices: 78310744--78310981 Score: 296
Period size: 96 Copynumber: 2.5 Consensus size: 92
78310734 AACATTTGGG
* * * *
78310744 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCTAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCT-GGAAATGGCATCG---GCATTAAGAGAGCTAGTA
*
78310809 TAAGACCATATCTGGGACATGGCATCGGCGT
62 TAAGACCATATCTGGGACATGGCATCGGCCT
78310840 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGAAATGGCATCGGCATTGAGAAGAGAGCTAGTA
1 TGATATGTGTGCTAGTGTAAGACCATGTCT-GGAAATGGCATCGGCATT---AAGAGAGCTAGTA
* *
78310905 TAAGACCATGTCTGGGACATGGCATTGGCCT
62 TAAGACCATATCTGGGACATGGCATCGGCCT
* * * *
78310936 CGACATGTGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGAA-ATGGCATCGGC
78310982 TATTTACCCT
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
93 4 0.03
95 4 0.03
96 118 0.94
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGAAATGGCATCGGCATTAAGAGAGCTAGTATAAG
ACCATATCTGGGACATGGCATCGGCCT
Found at i:78314894 original size:24 final size:23
Alignment explanation
Indices: 78314850--78314895 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
78314840 ATTGATATTC
*
78314850 TATATAAAAAACATATTAAATTT
1 TATATAAAAAACATATAAAATTT
78314873 TATATGAAAAAA-ATTATAAAATT
1 TATAT-AAAAAACA-TATAAAATT
78314896 ACTTAGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATAAAAAACATATAAAATTT
Found at i:78315119 original size:18 final size:18
Alignment explanation
Indices: 78315091--78315126 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
78315081 ATTTTATGAA
78315091 AAAATATCGATACTCAAAT
1 AAAATATCGATAC-CAAAT
78315110 AAAA-ATCGATACCAAAT
1 AAAATATCGATACCAAAT
78315127 TAGCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.22
Consensus pattern (18 bp):
AAAATATCGATACCAAAT
Found at i:78316075 original size:49 final size:52
Alignment explanation
Indices: 78316021--78316128 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 52
78316011 AACTGAGAAT
* *
78316021 ACACCTGGGCACTAAGTGCCAAACCCGTAGGC-TAACATCC-CTC-CAAAAC
1 ACACCTGGGCACCAAGTGCCAAACCCGTAGGCTTAACATCCTCCCTCAAAAC
* * * *
78316070 ACACCTCGGCACCAAGTGTCAAGCCCGTAGGCTTTACATCCTCCCTCAAAAC
1 ACACCTGGGCACCAAGTGCCAAACCCGTAGGCTTAACATCCTCCCTCAAAAC
78316122 ACACCTG
1 ACACCTG
78316129 AAACACTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 28 0.57
50 7 0.14
51 2 0.04
52 12 0.24
ACGTcount: A:0.30, C:0.38, G:0.16, T:0.17
Consensus pattern (52 bp):
ACACCTGGGCACCAAGTGCCAAACCCGTAGGCTTAACATCCTCCCTCAAAAC
Found at i:78320571 original size:29 final size:29
Alignment explanation
Indices: 78320515--78320572 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
78320505 ACTATTACCC
* *
78320515 TCATTCTAAATTTATCCCTAAATTTCAAG
1 TCATTCTAAATTAATCCCTAAATATCAAG
*
78320544 TCATTCT-AATTAATCCGTAAACTATCAAG
1 TCATTCTAAATTAATCCCTAAA-TATCAAG
78320573 ATTATATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (29 bp):
TCATTCTAAATTAATCCCTAAATATCAAG
Found at i:78323263 original size:20 final size:20
Alignment explanation
Indices: 78323240--78323286 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
78323230 TTTTTAATAA
*
78323240 TTTATAAATAATTTTA-CATT
1 TTTATAAA-AATTTAATCATT
* *
78323260 TTTATTAAAATTTAATGATT
1 TTTATAAAAATTTAATCATT
78323280 TTTATAA
1 TTTATAA
78323287 CTTTTATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTATAAAAATTTAATCATT
Found at i:78327738 original size:16 final size:16
Alignment explanation
Indices: 78327713--78327750 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
78327703 TATTAATTAG
78327713 AATT-TATTAAATAAA
1 AATTATATTAAATAAA
*
78327728 AATTATATTAACTAAA
1 AATTATATTAAATAAA
78327744 ATATTAT
1 A-ATTAT
78327751 TCCAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATTAAATAAA
Found at i:78329244 original size:111 final size:111
Alignment explanation
Indices: 78329050--78329502 Score: 888
Period size: 111 Copynumber: 4.1 Consensus size: 111
78329040 CCAATGGGAT
78329050 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
1 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
78329115 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
66 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
78329161 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
1 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
78329226 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
66 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
78329272 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
1 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
*
78329337 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCACAAATTATTAAAA
66 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
78329383 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
1 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
*
78329448 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCACAAATTATTAAAA
66 ACAGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
78329494 GCAACAAAA
1 GCAACAAAA
78329503 GTTAAAGGCT
Statistics
Matches: 341, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 341 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (111 bp):
GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTGATACTC
ACAGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
Found at i:78335504 original size:40 final size:40
Alignment explanation
Indices: 78335460--78335539 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
78335450 ACCAATCATC
78335460 GAATCGTTACTTGGAGCTCGTTAGTGAAATGTAAAAAATA
1 GAATCGTTACTTGGAGCTCGTTAGTGAAATGTAAAAAATA
78335500 GAATCGTTACTTGGAGCTCGTTAGTGAAATGTAAAAAATA
1 GAATCGTTACTTGGAGCTCGTTAGTGAAATGTAAAAAATA
78335540 AACTTAATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (40 bp):
GAATCGTTACTTGGAGCTCGTTAGTGAAATGTAAAAAATA
Found at i:78336237 original size:22 final size:22
Alignment explanation
Indices: 78336209--78336253 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
78336199 AACGCCACTA
*
78336209 TAGATCGAGCATTAGCGGCGTT
1 TAGATCGAGCATTAGCAGCGTT
78336231 TAGATCGAGCATTAGCAGCGTT
1 TAGATCGAGCATTAGCAGCGTT
78336253 T
1 T
78336254 CATGAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (22 bp):
TAGATCGAGCATTAGCAGCGTT
Found at i:78336447 original size:40 final size:40
Alignment explanation
Indices: 78336389--78336467 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
78336379 CGCTGCTATC
*
78336389 GCCGCTATAGATCAAGCATTAGCGGTGCCTTTTAAAAAAT
1 GCCGCTATAGATCAAGCATTAGCGGCGCCTTTTAAAAAAT
* **
78336429 GCCGCTATAGATCTAGCATTAGCGGCGTTTTTTAAAAAA
1 GCCGCTATAGATCAAGCATTAGCGGCGCCTTTTAAAAAA
78336468 CACAGCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (40 bp):
GCCGCTATAGATCAAGCATTAGCGGCGCCTTTTAAAAAAT
Found at i:78340886 original size:12 final size:12
Alignment explanation
Indices: 78340869--78340894 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78340859 AAGATCGAGG
78340869 GATGAATCTGAT
1 GATGAATCTGAT
78340881 GATGAATCTGAT
1 GATGAATCTGAT
78340893 GA
1 GA
78340895 AGAGGGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:78346500 original size:30 final size:31
Alignment explanation
Indices: 78346444--78346502 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
78346434 CACCCTTAAA
* * *
78346444 ATATTTGTACTATTAGTCCTTCAAATTTTTT
1 ATATTTGCACTATTAATCCCTCAAATTTTTT
78346475 ATATTTGCACT-TTAATCCCTCAAATTTT
1 ATATTTGCACTATTAATCCCTCAAATTTT
78346503 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (31 bp):
ATATTTGCACTATTAATCCCTCAAATTTTTT
Found at i:78346510 original size:30 final size:31
Alignment explanation
Indices: 78346444--78346510 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
78346434 CACCCTTAAA
* * * *
78346444 ATATTTGTACTATTAGTCCTTCAAATTTTTT
1 ATATTTGCACTATTAATCCCTCAAATTTTTG
78346475 ATATTTGCACT-TTAATCCCTCAAA-TTTTG
1 ATATTTGCACTATTAATCCCTCAAATTTTTG
78346504 AGTATTT
1 A-TATTT
78346511 ACTATTGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 5 0.16
30 16 0.52
31 10 0.32
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (31 bp):
ATATTTGCACTATTAATCCCTCAAATTTTTG
Found at i:78349294 original size:40 final size:40
Alignment explanation
Indices: 78349239--78349456 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
78349229 CGGATGATAA
* *
78349239 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
78349279 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78349319 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAGTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78349359 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78349399 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
78349439 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78349457 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 150 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78356866 original size:24 final size:26
Alignment explanation
Indices: 78356815--78356870 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
78356805 TCGGCTTGTA
*
78356815 GTTTTATAAATGTGATATGAGTGTTTT
1 GTTTTATAAATGT-ATATAAGTGTTTT
78356842 GTTTTATAAATGT-T-TAAGTGTTTT
1 GTTTTATAAATGTATATAAGTGTTTT
78356866 GTTTT
1 GTTTT
78356871 GTTTTGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 14 0.50
25 1 0.04
27 13 0.46
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (26 bp):
GTTTTATAAATGTATATAAGTGTTTT
Found at i:78356870 original size:5 final size:5
Alignment explanation
Indices: 78356860--78356887 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
78356850 AATGTTTAAG
78356860 TGTTT TGTTT TGTTT TGTTT TGTTT TGT
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGT
78356888 AAGTGAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (5 bp):
TGTTT
Found at i:78357117 original size:18 final size:19
Alignment explanation
Indices: 78357086--78357122 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
78357076 TTCCATTAGG
78357086 TTAATTTAGGTTAATTAAT
1 TTAATTTAGGTTAATTAAT
*
78357105 TTAA-TTAGTTTAATTAAT
1 TTAATTTAGGTTAATTAAT
78357123 ATTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTAATTTAGGTTAATTAAT
Found at i:78369257 original size:6 final size:6
Alignment explanation
Indices: 78369246--78369283 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
78369236 ATAGAAATAC
* *
78369246 AAAAGA AAAAGA AAAAGA AAAAGA TAAAGA TAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
78369284 GTGATTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:78371060 original size:17 final size:17
Alignment explanation
Indices: 78371012--78371063 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
78371002 CCAAAATATT
*
78371012 ATTTATTTAATT-AATCA
1 ATTTA-TTAATTAAATTA
*
78371029 ATTTAATTAACTAAATTA
1 ATTT-ATTAATTAAATTA
78371047 ATTTATTAATTAAATTA
1 ATTTATTAATTAAATTA
78371064 TTTTCTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 21 0.70
18 9 0.30
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTATTAATTAAATTA
Found at i:78371072 original size:17 final size:17
Alignment explanation
Indices: 78371028--78371074 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
78371018 TTAATTAATC
78371028 AATTTAATTAACTAAATT
1 AATTT-ATTAACTAAATT
*
78371046 AATTTATTAATTAAATT
1 AATTTATTAACTAAATT
* *
78371063 ATTTTCTTAACT
1 AATTTATTAACT
78371075 CAGTTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTTATTAACTAAATT
Found at i:78395957 original size:17 final size:18
Alignment explanation
Indices: 78395935--78395971 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
78395925 TTTACAACAG
*
78395935 TTATTTTATTC-TTATAA
1 TTATTTTATCCTTTATAA
78395952 TTATTTTATCCTTTATAA
1 TTATTTTATCCTTTATAA
78395970 TT
1 TT
78395972 TTAAGGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTTATCCTTTATAA
Found at i:78396032 original size:24 final size:26
Alignment explanation
Indices: 78395987--78396038 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
78395977 GTCATTAATT
*
78395987 TTAAAGTTGTTTTAAAATAATTTTAA
1 TTAAAGTTGTTTTAAAATAATTATAA
*
78396013 TTAAA-TTTTTTTAAAA-AATTATAA
1 TTAAAGTTGTTTTAAAATAATTATAA
78396037 TT
1 TT
78396039 TATTATCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 10 0.42
26 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
TTAAAGTTGTTTTAAAATAATTATAA
Found at i:78410411 original size:40 final size:40
Alignment explanation
Indices: 78410343--78410548 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
78410333 GGGATTTAGT
** * *
78410343 CGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
78410382 CGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
78410422 CGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * * *
78410462 CGGATATAG-CGACTCGTACAAATGCCTTCGGATCTCAGTC
1 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
78410502 CGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
78410542 CGGATAT
1 CGGATAT
78410549 CATTCGAATA
Statistics
Matches: 137, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 15 0.11
40 121 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:78414962 original size:47 final size:47
Alignment explanation
Indices: 78414903--78415343 Score: 684
Period size: 47 Copynumber: 9.4 Consensus size: 47
78414893 GATGTACAAG
* * * *
78414903 GTGTGTATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
78414950 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
78414997 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
78415044 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
78415091 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
78415138 GTGTATATATGTGATAAGACCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
78415185 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * * *
78415232 GTGTATATATGAGATAAGACCTAATGGTCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
78415279 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
78415326 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
78415344 TCCCGAAGGG
Statistics
Matches: 364, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 364 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:78416916 original size:19 final size:20
Alignment explanation
Indices: 78416876--78416919 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
78416866 TAGGGGGGAG
*
78416876 TGGGAAAGAGTAAAAGTTTT
1 TGGGAAAGAGTAAAAGTGTT
78416896 TGGGAAA-AGTAAAGAG-GTT
1 TGGGAAAGAGTAAA-AGTGTT
78416915 TGGGA
1 TGGGA
78416920 GTTTGGGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.25
Consensus pattern (20 bp):
TGGGAAAGAGTAAAAGTGTT
Found at i:78425223 original size:15 final size:16
Alignment explanation
Indices: 78425203--78425232 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78425193 ATGGCCAAAT
78425203 CACATTA-AAACATAG
1 CACATTACAAACATAG
78425218 CACATTACAAACATA
1 CACATTACAAACATA
78425233 CACCAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.20
Consensus pattern (16 bp):
CACATTACAAACATAG
Found at i:78435594 original size:15 final size:14
Alignment explanation
Indices: 78435564--78435590 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78435554 TGGAGAAGTT
78435564 TTTTTTTTGAATAC
1 TTTTTTTTGAATAC
78435578 TTTTTTTTGAATA
1 TTTTTTTTGAATA
78435591 ACTTCCGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTTTTGAATAC
Found at i:78440124 original size:56 final size:56
Alignment explanation
Indices: 78440013--78440135 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
78440003 GTCTTACTTA
* * *
78440013 CACACATATATCGAAGTCATAAATCGATGCCAACGTATTAAACATGGTCTTACTCG
1 CACACATATATCGAAATCACAAATCGATGCCAACGTATTAAACATGGTATTACTCG
* *
78440069 CACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTATTACTCG
1 CACACATATATCGAAATCACAAATCGATGCCAACGTATTAAACATGGTATTACTCG
* *
78440125 TATACATATAT
1 CACACATATAT
78440136 TGATTCCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (56 bp):
CACACATATATCGAAATCACAAATCGATGCCAACGTATTAAACATGGTATTACTCG
Found at i:78442275 original size:42 final size:41
Alignment explanation
Indices: 78442160--78442310 Score: 144
Period size: 43 Copynumber: 3.6 Consensus size: 41
78442150 GTCTGAGACA
* *
78442160 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATT--GATT
*
78442202 TACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGATT
* * *
78442245 TCGTGTAAGACCTTGTCTGCGACAGAGGCATCGATATTGAGTT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTGA-TT
* * *
78442288 ACATGTAAGACCATGTCCGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
78442311 GCCAACATTG
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
42 31 0.34
43 55 0.61
44 3 0.03
45 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGATT
Found at i:78450970 original size:13 final size:13
Alignment explanation
Indices: 78450952--78450976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78450942 ACAAACGATA
78450952 AAATTTTCACACG
1 AAATTTTCACACG
78450965 AAATTTTCACAC
1 AAATTTTCACAC
78450977 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:78465829 original size:46 final size:46
Alignment explanation
Indices: 78465779--78465954 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
78465769 TGGTTGAGCA
78465779 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
78465825 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
78465870 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
78465918 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78465955 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:78465935 original size:93 final size:93
Alignment explanation
Indices: 78465776--78465946 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
78465766 GGATGGTTGA
* *
78465776 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
78465841 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
78465869 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
78465934 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
78465947 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:78467899 original size:17 final size:19
Alignment explanation
Indices: 78467872--78467907 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
78467862 AAGCCAAGTT
78467872 GGGCTGTGTGGG-CCACAC
1 GGGCTGTGTGGGCCCACAC
78467890 GGGC-GTGTGGGCCCACAC
1 GGGCTGTGTGGGCCCACAC
78467908 AGGCAGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.31, G:0.44, T:0.14
Consensus pattern (19 bp):
GGGCTGTGTGGGCCCACAC
Found at i:78468332 original size:40 final size:40
Alignment explanation
Indices: 78468277--78468352 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
78468267 CGGTACCTTG
*
78468277 TGGTGTGTAGGGTTGGATGGGTTAATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCATACT
* * *
78468317 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCA
78468353 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCATACT
Found at i:78471122 original size:27 final size:27
Alignment explanation
Indices: 78471088--78471261 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
78471078 TAAATTGTAC
78471088 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78471115 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78471141 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78471169 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78471197 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78471224 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78471251 AGCACTGAGTG
1 AGCACTAAGTG
78471262 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78471202 original size:82 final size:81
Alignment explanation
Indices: 78471089--78471244 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78471079 AAATTGTACA
* *
78471089 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78471153 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78471170 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78471235 TGCGAGTTGA
65 TGCGAATTGA
78471245 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78474742 original size:14 final size:13
Alignment explanation
Indices: 78474718--78474770 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
78474708 AGGAAAGTCC
78474718 ATTAGGTTAATTTA
1 ATTA-GTTAATTTA
78474732 AGTTAGTTAATTTA
1 A-TTAGTTAATTTA
*
78474746 ATTAGTTTAATTAA
1 ATTAG-TTAATTTA
*
78474760 AATA-TTAATTT
1 ATTAGTTAATTT
78474771 GGATTCGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.18
13 4 0.12
14 21 0.62
15 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:78476485 original size:26 final size:26
Alignment explanation
Indices: 78476455--78476508 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
78476445 AATAAACAAG
78476455 ATTAAAAAATAATATATATAGATGAA
1 ATTAAAAAATAATATATATAGATGAA
78476481 ATTAAAAAATAATATATATAGATGAA
1 ATTAAAAAATAATATATATAGATGAA
78476507 AT
1 AT
78476509 GAAATGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (26 bp):
ATTAAAAAATAATATATATAGATGAA
Found at i:78477063 original size:151 final size:148
Alignment explanation
Indices: 78476797--78477075 Score: 436
Period size: 151 Copynumber: 1.9 Consensus size: 148
78476787 AAAGTTTTGA
* *
78476797 TTTTTTTTTAAAAAGGAGAAAGTTTAGATTTTTAAAATAAAAATTTGTTTTTAGTCATATTAAAG
1 TTTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATCTGTTTTTAGTCATATTAAAG
78476862 GAAAAGTTTAAATTCTTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGGT
66 GAAAAGTTTAAATTCTTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGGT
78476927 TTTTAAGAAAAATAGTTT
131 TTTTAAGAAAAATAGTTT
* * *
78476945 TTTTTTTTATAAAAAAGCGAATGTTTAGATTTTTAAAATAAAAATCTGTTTCTTAGTCATTTTAA
1 TTTTTTTT-TAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATCTGTTT-TTAGTCATATTAA
* *
78477010 A-GAAAAGGTTTAAAATTTTTAAAA-AAATGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTT
64 AGGAAAA-GTTT-AAATTCTTAAAACAAA-GTTTTAATCTTTTTCAACTATTTCGAAATAAAGTT
78477073 TTG
126 TTG
78477076 ATATGAATAA
Statistics
Matches: 119, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
148 8 0.07
149 43 0.36
150 20 0.17
151 48 0.40
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.44
Consensus pattern (148 bp):
TTTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATCTGTTTTTAGTCATATTAAAG
GAAAAGTTTAAATTCTTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGGT
TTTTAAGAAAAATAGTTT
Found at i:78477753 original size:3 final size:3
Alignment explanation
Indices: 78477745--78477770 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78477735 AAATATTTTA
78477745 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
78477771 AAGATCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:78480828 original size:27 final size:27
Alignment explanation
Indices: 78480798--78480970 Score: 220
Period size: 27 Copynumber: 6.4 Consensus size: 27
78480788 TGGATAAGTT
* *
78480798 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
78480825 GTAGAATTACCGAAATAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
78480852 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
78480879 GTAGAATTATCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
78480906 ATAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
78480933 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
78480960 GTAAAATTACC
1 GTAGAATTACC
78480971 ATTTTGCCCC
Statistics
Matches: 126, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:78480933 original size:81 final size:81
Alignment explanation
Indices: 78480798--78480971 Score: 260
Period size: 81 Copynumber: 2.1 Consensus size: 81
78480788 TGGATAAGTT
* *
78480798 GTAGAATTACCAAAATACCCCTGTAAGGTAGAATTACCGAAATAACCCTGTAGGGTAGAATTATT
1 GTAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTATC
78480863 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* *
78480879 GTAGAATTATCAAAATACCCCTGT-AGGATAGAAATACCGAAATACCCCTGTAGGGTAGAATTAT
1 GTAGAATTACCAAAATACCCCTGTAAGG-TAGAAATACCGAAATAACCCTGTAGGGTAGAATTAT
* * *
78480943 CGAGATACCCTTGTGGG
65 CGAAATACCCCTGTAGG
*
78480960 GTAAAATTACCA
1 GTAGAATTACCA
78480972 TTTTGCCCCT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 3 0.04
81 80 0.96
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTATC
GAAATACCCCTGTAGG
Found at i:78481015 original size:27 final size:26
Alignment explanation
Indices: 78480971--78481024 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
78480961 TAAAATTACC
78480971 ATTTTGCCCCTAGGGCGTTAAATGACT
1 ATTTTGCCCCTAGGGCG-TAAATGACT
* *
78480998 ATTTTGCCCCTCGTGCGTAAATGACT
1 ATTTTGCCCCTAGGGCGTAAATGACT
78481024 A
1 A
78481025 ACTTGTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGCGTAAATGACT
Done.