Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 158 of 163
Found at i:52859003 original size:16 final size:15
Alignment explanation
Indices: 52858982--52859033 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
52858972 TGGTTGGCTA
52858982 TAATGGAATAGAGACG
1 TAATGGAATAGAG-CG
*
52858998 TAATGGAATACATGCG
1 TAATGGAATAGA-GCG
52859014 TAATGGAATAGAGGCG
1 TAATGGAATAGA-GCG
52859030 TAAT
1 TAAT
52859034 AGGTAATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 31 0.97
17 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (15 bp):
TAATGGAATAGAGCG
Found at i:52859064 original size:45 final size:44
Alignment explanation
Indices: 52859013--52859102 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
52859003 GAATACATGC
52859013 GTAATGGAATAGAGGCGTAATAGGTAATCATT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAAT-GGTAATC-TTGTGTTTGGTTGAAT
*
52859058 GTAATGGAATAGAGGCGTAATGGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATGGTAATCTTGTGTTTGGTTGAAT
52859102 G
1 G
52859103 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
43 2 0.05
44 20 0.47
45 21 0.49
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATGGTAATCTTGTGTTTGGTTGAAT
Found at i:52859103 original size:39 final size:43
Alignment explanation
Indices: 52859013--52859119 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 43
52859003 GAATACATGC
52859013 GTAATGGAATAGAGGCGTAATAGGTAATCATTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATCATTTGTTTGGTT--AT
*
52859058 GTAATGGAATAGAGGCGTAAT-GGTATTC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATCATT-TGTTTGGTTAT
*
52859098 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
52859120 AAAAAGGAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 3 0.05
44 13 0.22
45 21 0.36
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (43 bp):
GTAATGGAATAGAGGCGTAATAGGTAATCATTTGTTTGGTTAT
Found at i:52859265 original size:17 final size:18
Alignment explanation
Indices: 52859221--52859281 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
52859211 GCTTATTAAT
*
52859221 ATAAATAATATATAATTCA
1 ATAAA-AATATATAATTTA
52859240 ATAAAAATATATAATTTA
1 ATAAAAATATATAATTTA
*
52859258 A-CAAAATATATGAATTTA
1 ATAAAAATATAT-AATTTA
*
52859276 CTAAAA
1 ATAAAA
52859282 TCATAATACA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.25
18 19 0.53
19 8 0.22
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAAAAATATATAATTTA
Found at i:52864658 original size:2 final size:2
Alignment explanation
Indices: 52864651--52864676 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52864641 TCAAATATTC
52864651 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52864677 GTAAGTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52874036 original size:9 final size:9
Alignment explanation
Indices: 52874022--52874056 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
52874012 TTTGGTTAAA
52874022 AATTAACCG
1 AATTAACCG
52874031 AATTAACCG
1 AATTAACCG
*
52874040 AATTACCCG
1 AATTAACCG
52874049 AATTAACC
1 AATTAACC
52874057 AAANNNNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:52879452 original size:15 final size:15
Alignment explanation
Indices: 52879432--52879485 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
52879422 TTTTTTTCTA
52879432 AAAAATAATTTATTT
1 AAAAATAATTTATTT
**
52879447 AAAAATGCTTTTATTT
1 AAAAAT-AATTTATTT
52879463 CAAAAAT-ATTTA-TT
1 -AAAAATAATTTATTT
52879477 AAAAATAAT
1 AAAAATAAT
52879486 ACTAAACACA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 6 0.18
14 4 0.12
15 10 0.30
16 7 0.21
17 6 0.18
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
AAAAATAATTTATTT
Found at i:52884100 original size:22 final size:22
Alignment explanation
Indices: 52884058--52884105 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
52884048 AAAATAATAT
*
52884058 TAATACTTTAAGTATTTAATTA
1 TAATACTTTAAGTATTAAATTA
* *
52884080 TAATATTTTATAGT-TTAAATTT
1 TAATACTTTA-AGTATTAAATTA
52884102 TAAT
1 TAAT
52884106 TCATAAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
TAATACTTTAAGTATTAAATTA
Found at i:52885705 original size:11 final size:11
Alignment explanation
Indices: 52885678--52885715 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
52885668 AAGATTTATT
52885678 ATTT-AATAAA
1 ATTTAAATAAA
52885688 A-TTAAATAAA
1 ATTTAAATAAA
52885698 ATTTAAATAAA
1 ATTTAAATAAA
*
52885709 AATTAAA
1 ATTTAAA
52885716 ACTGTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 2 0.08
10 8 0.32
11 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATTTAAATAAA
Found at i:52887254 original size:3 final size:3
Alignment explanation
Indices: 52887246--52887297 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
52887236 AATACAAAAC
52887246 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52887294 TAT T
1 TAT T
52887298 GTGTTAGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52887423 original size:13 final size:13
Alignment explanation
Indices: 52887405--52887431 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52887395 CATTAATTTT
52887405 TTTATTGCATCCG
1 TTTATTGCATCCG
52887418 TTTATTGCATCCG
1 TTTATTGCATCCG
52887431 T
1 T
52887432 CACATTGCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTATTGCATCCG
Found at i:52888332 original size:152 final size:152
Alignment explanation
Indices: 52888026--52888330 Score: 433
Period size: 147 Copynumber: 2.0 Consensus size: 152
52888016 AATGTATTAA
* * *
52888026 TTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTGGTGTGCTTTTTTATATAAATTT
1 TTTATATTATTTTAGTACATAATGTTTGAAATGTACTAATTTAGTGTGCTGTTTTATATAAATTT
** *
52888091 AGTAAAAAAAACCCATATTTTGGTTATTTGTTCGTATTTTTCTTATTTTCAAATTTTATTACTTT
66 AGTAAAAAAAACCCATATTTTGGCCATTTATTCGTA-TTTTCTTATTTTCAAATTTTATTACTTT
52888156 AAAAAAATATACTATTTTCGTAT
130 AAAAAAATATACTATTTTCGTAT
*
52888179 TTTATATT-TTTTAGTACATAATGTTTGAAATGTACTATTTTAGTGTG-TGTTTTATATAAATTT
1 TTTATATTATTTTAGTACATAATGTTTGAAATGTACTAATTTAGTGTGCTGTTTTATATAAATTT
*
52888242 AGT-AAAAAAACCCATTATTTTGGCCATTTATTCGTA-TTT-TT-TTTTCAGATTTTATTACTTT
66 AGTAAAAAAAACCCA-TATTTTGGCCATTTATTCGTATTTTCTTATTTTCAAATTTTATTACTTT
* ** * *
52888303 TAGTAAATATACTATTTTCATTT
130 AAAAAAATATACTATTTTCGTAT
52888326 TTTAT
1 TTTAT
52888331 TTCTTTTCAT
Statistics
Matches: 138, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
147 42 0.30
148 2 0.01
149 3 0.02
150 11 0.08
151 36 0.26
152 36 0.26
153 8 0.06
ACGTcount: A:0.30, C:0.08, G:0.09, T:0.53
Consensus pattern (152 bp):
TTTATATTATTTTAGTACATAATGTTTGAAATGTACTAATTTAGTGTGCTGTTTTATATAAATTT
AGTAAAAAAAACCCATATTTTGGCCATTTATTCGTATTTTCTTATTTTCAAATTTTATTACTTTA
AAAAAATATACTATTTTCGTAT
Found at i:52888337 original size:17 final size:17
Alignment explanation
Indices: 52888317--52888349 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52888307 AAATATACTA
*
52888317 TTTTCATTTTTTATTTC
1 TTTTCATATTTTATTTC
52888334 TTTTCATATTTTATTT
1 TTTTCATATTTTATTT
52888350 TTTCATAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:52888528 original size:12 final size:12
Alignment explanation
Indices: 52888511--52888541 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52888501 GAATGTACAC
52888511 AACATAAATAAT
1 AACATAAATAAT
52888523 AACATAAATAAT
1 AACATAAATAAT
*
52888535 AAAATAA
1 AACATAA
52888542 TAAGACATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AACATAAATAAT
Found at i:52888571 original size:30 final size:30
Alignment explanation
Indices: 52888536--52888598 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
52888526 ATAAATAATA
* * * *
52888536 AAATAATAAGACATAGTATGTACGTAACAT
1 AAATAAAAAAACATAGAATGTACATAACAT
52888566 AAATAAAAAAACATAGAATGTACATAACAT
1 AAATAAAAAAACATAGAATGTACATAACAT
52888596 AAA
1 AAA
52888599 AATTAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (30 bp):
AAATAAAAAAACATAGAATGTACATAACAT
Found at i:52889114 original size:19 final size:19
Alignment explanation
Indices: 52889087--52889124 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52889077 AAAATTGTTG
52889087 TATTATTTTAGTATTATTT
1 TATTATTTTAGTATTATTT
* *
52889106 TATTTTTTTTGTATTATTT
1 TATTATTTTAGTATTATTT
52889125 ATGTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TATTATTTTAGTATTATTT
Found at i:52890019 original size:152 final size:152
Alignment explanation
Indices: 52889845--52890133 Score: 399
Period size: 152 Copynumber: 1.9 Consensus size: 152
52889835 TTAACACAAT
* * * *
52889845 TTTTTAATGGATAATTGTAATTTAAATTAT-AATTA-TTTTTAAATTCT-TAATTATCGCAA-TT
1 TTTTTAATGAATAATTGCAATTTAAATT-TCAATTATTTTTTAAATT-TGTAATTACCACAATTT
* * * *
52889906 TTATTAATTTATAATTATTTTAAATGTAATTTTAATAATATGATGAAGAATAAATGTTATTTTT-
64 TTATTAAATTATAATTATTTTAAATGTAAATTTAATAA-ATGAT-AAAAATAAATATTATTTTTG
52889970 TATAGTTCAAAAGTTTAAATTAGCACA
127 T-TAGTTCAAAAGTTTAAATTAGCACA
* * *
52889997 TTTTTAATTAATAATTGCAATTTAAGTTTCAATTATTTTTTAAATTTGTAATTACCATAATTTTT
1 TTTTTAATGAATAATTGCAATTTAAATTTCAATTATTTTTTAAATTTGTAATTACCACAATTTTT
52890062 ATTAAATTATAATTATTTTAAATGTAAATTTAATAAATGATAAAAATAAATATTATTTTTGTTAG
66 ATTAAATTATAATTATTTTAAATGTAAATTTAATAAATGATAAAAATAAATATTATTTTTGTTAG
52890127 TTCAAAA
131 TTCAAAA
52890134 CTTTTTCTAA
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
151 1 0.01
152 57 0.47
153 25 0.21
154 38 0.31
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (152 bp):
TTTTTAATGAATAATTGCAATTTAAATTTCAATTATTTTTTAAATTTGTAATTACCACAATTTTT
ATTAAATTATAATTATTTTAAATGTAAATTTAATAAATGATAAAAATAAATATTATTTTTGTTAG
TTCAAAAGTTTAAATTAGCACA
Found at i:52893973 original size:43 final size:44
Alignment explanation
Indices: 52893887--52893974 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 44
52893877 TTCAAGCACA
52893887 TGATCCATTTACGATTTATTTATAAAAAAATTTTAATTCTCTGTC
1 TGATCCATTTACGATTTATTTAT-AAAAAATTTTAATTCTCTGTC
52893932 TGATCCATTTACGATTTATTTAT-AAAAATTTTAATTCTCTGTC
1 TGATCCATTTACGATTTATTTATAAAAAATTTTAATTCTCTGTC
52893975 AAGAATGGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 20 0.47
45 23 0.53
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.48
Consensus pattern (44 bp):
TGATCCATTTACGATTTATTTATAAAAAATTTTAATTCTCTGTC
Found at i:52895257 original size:13 final size:13
Alignment explanation
Indices: 52895241--52895266 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52895231 AGTTGTTGAC
52895241 GTGACATAAAATA
1 GTGACATAAAATA
52895254 GTGACATAAAATA
1 GTGACATAAAATA
52895267 ATTGGATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
GTGACATAAAATA
Found at i:52898310 original size:3 final size:3
Alignment explanation
Indices: 52898302--52898353 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
52898292 TTACTCTTAT
52898302 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52898350 TTA T
1 TTA T
52898354 ATATCTGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52899131 original size:3 final size:3
Alignment explanation
Indices: 52899123--52899174 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
52899113 TTACTCTTAT
52899123 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52899171 TTA T
1 TTA T
52899175 ATATCTGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52899384 original size:821 final size:822
Alignment explanation
Indices: 52897790--52899434 Score: 3283
Period size: 821 Copynumber: 2.0 Consensus size: 822
52897780 TTATTAATAT
52897790 AATTATTTTATTTTATTTTTAAACATATTCTTGTAATTTAAATACATAGTTTTCAATGTTTTAAT
1 AATTATTTTATTTTATTTTTAAACATATTCTTGTAATTTAAATACATAGTTTTCAATGTTTTAAT
52897855 TTGTGTATGTTTAAATGTAGAATTCTATAAGTTGAGTTTAATCAAGGTCTAAAAGAGAAAGGAAA
66 TTGTGTATGTTTAAATGTAGAATTCTATAAGTTGAGTTTAATCAAGGTCTAAAAGAGAAAGGAAA
52897920 CACGTGGCTTAAGCGGGCGATAGATGGTGATAGAGAATTGGAAATAATTATTTGCATTGAAAAAA
131 CACGTGGCTTAAGCGGGCGATAGATGGTGATAGAGAATTGGAAATAATTATTTGCATTGAAAAAA
52897985 AATCTAATAGATGCAATTCAAATAACTCATATCATATATAATATTATTAATAAATCGCGTGGTAA
196 AATCTAATAGATGCAATTCAAATAACTCATATCATATATAATATTATTAATAAATCGCGTGGTAA
52898050 TCACTCAATTTTAGTAAAATTTTATTTTGGTCATAGAAATTTTTTTAAATATACCACCACCGTTT
261 TCACTCAATTTTAGTAAAATTTTATTTTGGTCATAGAAATTTTTTTAAATATACCACCACCGTTT
52898115 ACCATTAATTTGACTAATGGCAGTATCATTATGCACTCATTTTAGTCAAAATCATGGTTAGCCGA
326 ACCATTAATTTGACTAATGGCAGTATCATTATGCACTCATTTTAGTCAAAATCATGGTTAGCCGA
52898180 ATCATGGTGAATGATTAAAATGGGAAAATATCTAATAACTGTGCTATATTTGAGAATTTTTCTGA
391 ATCATGGTGAATGATTAAAATGGGAAAATATCTAATAACTGTGCTATATTTGAGAATTTTTCTGA
52898245 TGATCAAAATGAAAATTAATTTAAAGTTAGATGATTAATTGTGGAATTTACTCTTATTTATTATT
456 TGATCAAAATGAAAATTAATTTAAAGTTAGATGATTAATTGTGGAATTTACTCTTATTTATTATT
52898310 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATCTGAAATTTTCGTGGCG
521 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATCTGAAATTTTCGTGGCG
52898375 TTACATATCCCTAATCGAATAGTTTTCCTAGGAGAAAGTTGCTATATTTTTTAGGAAAATAATAT
586 TTACATATCCCTAATCGAATAGTTTTCCTAGGAGAAAGTTGCTATATTTTTTAGGAAAATAATAT
52898440 TATCAAAACTTAAAAATCATTAATAACATTTTATTATTTTTCTAAGAAGAGAAAGAAGATATTAT
651 TATCAAAACTTAAAAATCATTAATAACATTTTATTATTTTTCTAAGAAGAGAAAGAAGATATTAT
52898505 TTATTAGGGTCTAATTCTACCCTCAATACGCACTATACGGATTTTTTAAGTTTAAATTTTTAATT
716 TTATTAGGGTCTAATTCTACCCTCAATACGCACTATACGGATTTTTTAAGTTTAAATTTTTAATT
52898570 TTAGTTTCAAGAATTTAACCATTCTACTTATTCGATTCAAAA
781 TTAGTTTCAAGAATTTAACCATTCTACTTATTCGATTCAAAA
52898612 AATTATTTTA-TTTATTTTTAAACATATTCTTGTAATTTAAATACATAGTTTTCAATGTTTTAAT
1 AATTATTTTATTTTATTTTTAAACATATTCTTGTAATTTAAATACATAGTTTTCAATGTTTTAAT
52898676 TTGTGTATGTTTAAATGTAGAATTCTATAAGTTGAGTTTAATCAAGGTCTAAAAGAGAAAGGAAA
66 TTGTGTATGTTTAAATGTAGAATTCTATAAGTTGAGTTTAATCAAGGTCTAAAAGAGAAAGGAAA
52898741 CACGTGGCTTAAGCGGGCGATAGATGGTGATAGAGAATTGGAAATAATTATTTGCATTGAAAAAA
131 CACGTGGCTTAAGCGGGCGATAGATGGTGATAGAGAATTGGAAATAATTATTTGCATTGAAAAAA
52898806 AATCTAATAGATGCAATTCAAATAACTCATATCATATATAATATTATTAATAAATCGCGTGGTAA
196 AATCTAATAGATGCAATTCAAATAACTCATATCATATATAATATTATTAATAAATCGCGTGGTAA
52898871 TCACTCAATTTTAGTAAAATTTTATTTTGGTCATAGAAATTTTTTTAAATATACCACCACCGTTT
261 TCACTCAATTTTAGTAAAATTTTATTTTGGTCATAGAAATTTTTTTAAATATACCACCACCGTTT
52898936 ACCATTAATTTGACTAATGGCAGTATCATTATGCACTCATTTTAGTCAAAATCATGGTTAGCCGA
326 ACCATTAATTTGACTAATGGCAGTATCATTATGCACTCATTTTAGTCAAAATCATGGTTAGCCGA
52899001 ATCATGGTGAATGATTAAAATGGGAAAATATCTAATAACTGTGCTATATTTGAGAATTTTTCTGA
391 ATCATGGTGAATGATTAAAATGGGAAAATATCTAATAACTGTGCTATATTTGAGAATTTTTCTGA
52899066 TGATCAAAATGAAAATTAATTTAAAGTTAGATGATTAATTGTGGAATTTACTCTTATTTATTATT
456 TGATCAAAATGAAAATTAATTTAAAGTTAGATGATTAATTGTGGAATTTACTCTTATTTATTATT
52899131 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATCTGAAATTTTCGTGGCG
521 ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATCTGAAATTTTCGTGGCG
52899196 TTACATATCCCTAATCGAATAGTTTTCCTAGGAGAAAGTTGCTATATTTTTTAGGAAAATAATAT
586 TTACATATCCCTAATCGAATAGTTTTCCTAGGAGAAAGTTGCTATATTTTTTAGGAAAATAATAT
52899261 TATCAAAACTTAAAAATCATTAATAACATTTTATTATTTTTCTAAGAAGAGAAAGAAGATATTAT
651 TATCAAAACTTAAAAATCATTAATAACATTTTATTATTTTTCTAAGAAGAGAAAGAAGATATTAT
52899326 TTATTAGGGTCTAATTCTACCCTCAATACGCACTATACGGATTTTTTAAGTTTAAATTTTTAATT
716 TTATTAGGGTCTAATTCTACCCTCAATACGCACTATACGGATTTTTTAAGTTTAAATTTTTAATT
52899391 TTAGTTTCAAGAATTTAACCATTCTACTTATTCGATTCAAAA
781 TTAGTTTCAAGAATTTAACCATTCTACTTATTCGATTCAAAA
52899433 AA
1 AA
52899435 ACAAATATAA
Statistics
Matches: 823, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
821 813 0.99
822 10 0.01
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (822 bp):
AATTATTTTATTTTATTTTTAAACATATTCTTGTAATTTAAATACATAGTTTTCAATGTTTTAAT
TTGTGTATGTTTAAATGTAGAATTCTATAAGTTGAGTTTAATCAAGGTCTAAAAGAGAAAGGAAA
CACGTGGCTTAAGCGGGCGATAGATGGTGATAGAGAATTGGAAATAATTATTTGCATTGAAAAAA
AATCTAATAGATGCAATTCAAATAACTCATATCATATATAATATTATTAATAAATCGCGTGGTAA
TCACTCAATTTTAGTAAAATTTTATTTTGGTCATAGAAATTTTTTTAAATATACCACCACCGTTT
ACCATTAATTTGACTAATGGCAGTATCATTATGCACTCATTTTAGTCAAAATCATGGTTAGCCGA
ATCATGGTGAATGATTAAAATGGGAAAATATCTAATAACTGTGCTATATTTGAGAATTTTTCTGA
TGATCAAAATGAAAATTAATTTAAAGTTAGATGATTAATTGTGGAATTTACTCTTATTTATTATT
ATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATCTGAAATTTTCGTGGCG
TTACATATCCCTAATCGAATAGTTTTCCTAGGAGAAAGTTGCTATATTTTTTAGGAAAATAATAT
TATCAAAACTTAAAAATCATTAATAACATTTTATTATTTTTCTAAGAAGAGAAAGAAGATATTAT
TTATTAGGGTCTAATTCTACCCTCAATACGCACTATACGGATTTTTTAAGTTTAAATTTTTAATT
TTAGTTTCAAGAATTTAACCATTCTACTTATTCGATTCAAAA
Found at i:52905447 original size:32 final size:31
Alignment explanation
Indices: 52905397--52905480 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 31
52905387 AAATTTCTCT
* * *
52905397 TAATGTAATA-ATATTATTATCTTTTTAATTA
1 TAATTTAATATATTTTATTAT-TTTTTAACTA
52905428 TAATTTAATATATTTTATTAATTTTTTAACTA
1 TAATTTAATATATTTTATT-ATTTTTTAACTA
* *
52905460 TTATTTGAAT-TTTTTTATTAT
1 TAATTT-AATATATTTTATTAT
52905481 ATATATAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 11 0.24
32 29 0.64
33 5 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (31 bp):
TAATTTAATATATTTTATTATTTTTTAACTA
Found at i:52906149 original size:131 final size:131
Alignment explanation
Indices: 52905991--52906246 Score: 503
Period size: 131 Copynumber: 2.0 Consensus size: 131
52905981 TATAAAACAT
*
52905991 TATATAAGTTAAAATTTGTTATAAGTCTATGTACTCTTCACAAATTTGCAATTTAGTCTTTATAC
1 TATAAAAGTTAAAATTTGTTATAAGTCTATGTACTCTTCACAAATTTGCAATTTAGTCTTTATAC
52906056 TTTTATTTTCAAGAATTTAGTCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTATTTTGTA
66 TTTTATTTTCAAGAATTTAGTCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTATTTTGTA
52906121 G
131 G
52906122 TATAAAAGTTAAAATTTGTTATAAGTCTATGTACTCTTCACAAATTTGCAATTTAGTCTTTATAC
1 TATAAAAGTTAAAATTTGTTATAAGTCTATGTACTCTTCACAAATTTGCAATTTAGTCTTTATAC
52906187 TTTTATTTTCAAGAATTTAGTCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTATT
66 TTTTATTTTCAAGAATTTAGTCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTATT
52906247 GACATCGTTA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 124 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (131 bp):
TATAAAAGTTAAAATTTGTTATAAGTCTATGTACTCTTCACAAATTTGCAATTTAGTCTTTATAC
TTTTATTTTCAAGAATTTAGTCCCTCTACTTTTCAAATTTGAAAATCAAGTCCAATTATTTTGTA
G
Found at i:52910702 original size:19 final size:21
Alignment explanation
Indices: 52910678--52910721 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
52910668 CAAATACGCC
52910678 AACATAAACTCG-AA-AGCTG
1 AACATAAACTCGTAAGAGCTG
*
52910697 AACATAAACTTGTAAGAGCTG
1 AACATAAACTCGTAAGAGCTG
52910718 AACA
1 AACA
52910722 GAAAGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (21 bp):
AACATAAACTCGTAAGAGCTG
Found at i:52918092 original size:12 final size:12
Alignment explanation
Indices: 52918073--52918139 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
52918063 TGATCATCAC
52918073 CACCACCACCA-
1 CACCACCACCAT
52918084 CAGCCACCACCAT
1 CA-CCACCACCAT
*
52918097 CACCACCAACA-
1 CACCACCACCAT
*
52918108 -ACCA-CTCCAT
1 CACCACCACCAT
* * *
52918118 CATCATCATCAT
1 CACCACCACCAT
52918130 CACCACCACC
1 CACCACCACC
52918140 GCCCTACTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
9 3 0.07
10 4 0.10
11 5 0.12
12 28 0.67
13 2 0.05
ACGTcount: A:0.34, C:0.54, G:0.01, T:0.10
Consensus pattern (12 bp):
CACCACCACCAT
Found at i:52923104 original size:107 final size:108
Alignment explanation
Indices: 52922936--52923147 Score: 399
Period size: 108 Copynumber: 2.0 Consensus size: 108
52922926 GACATTAACT
52922936 TTTAGGTCCTACATTTGGCACTTAATTAGTGCTTCAAAATGGAAAAACC-AAAAAAAAAAAAAAA
1 TTTAGGTCCTACATTTGGCACTTAATTAGTGCTTCAAAATGGAAAAACCAAAAAAAAAAAAAAAA
*
52923000 AACACCCAAAGAGTCAAATTTTACATATATATATATATATCTC
66 AACAACCAAAGAGTCAAATTTTACATATATATATATATATCTC
52923043 TTTAGGTCCTACATTTGGCACTTAATTAGTGCTTCAAAATGGAAAAACCAAAAAAAAAAAAAAAA
1 TTTAGGTCCTACATTTGGCACTTAATTAGTGCTTCAAAATGGAAAAACCAAAAAAAAAAAAAAAA
*
52923108 AACAACCAAAGAGTCTAATTTTACATATATATATATATAT
66 AACAACCAAAGAGTCAAATTTTACATATATATATATATAT
52923148 ATATCACTTC
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 49 0.48
108 53 0.52
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (108 bp):
TTTAGGTCCTACATTTGGCACTTAATTAGTGCTTCAAAATGGAAAAACCAAAAAAAAAAAAAAAA
AACAACCAAAGAGTCAAATTTTACATATATATATATATATCTC
Found at i:52937685 original size:83 final size:83
Alignment explanation
Indices: 52937594--52937781 Score: 376
Period size: 83 Copynumber: 2.3 Consensus size: 83
52937584 GGTAAAACCA
52937594 AAAAAATTCGGTTAACCGACCGGTTTCGAACCGAATTAACCGTTAACCGAAAAATCATAAAAAAA
1 AAAAAATTCGGTTAACCGACCGGTTTCGAACCGAATTAACCGTTAACCGAAAAATCATAAAAAAA
52937659 TTAACCGACCCCCGACCG
66 TTAACCGACCCCCGACCG
52937677 AAAAAATTCGGTTAACCGACCGGTTTCGAACCGAATTAACCGTTAACCGAAAAATCATAAAAAAA
1 AAAAAATTCGGTTAACCGACCGGTTTCGAACCGAATTAACCGTTAACCGAAAAATCATAAAAAAA
52937742 TTAACCGACCCCCGACCG
66 TTAACCGACCCCCGACCG
52937760 AAAAAATTCGGTTAACCGACCG
1 AAAAAATTCGGTTAACCGACCG
52937782 AATTCGGTTA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 105 1.00
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (83 bp):
AAAAAATTCGGTTAACCGACCGGTTTCGAACCGAATTAACCGTTAACCGAAAAATCATAAAAAAA
TTAACCGACCCCCGACCG
Found at i:52938306 original size:19 final size:21
Alignment explanation
Indices: 52938268--52938307 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
52938258 TCTATTTTTT
52938268 ATAAATTGAAAAACAAATTTG
1 ATAAATTGAAAAACAAATTTG
*
52938289 ATAAA-TGAAATA-AAATTTG
1 ATAAATTGAAAAACAAATTTG
52938308 TTTTCGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (21 bp):
ATAAATTGAAAAACAAATTTG
Found at i:52939022 original size:311 final size:312
Alignment explanation
Indices: 52938448--52939070 Score: 1239
Period size: 311 Copynumber: 2.0 Consensus size: 312
52938438 TTGCTAAAAA
52938448 AATAAATTTGTTTGCATTTGAATGAATTTAAATTAGTGCCAATTCATTTACTTGAATTTAAATTT
1 AATAAATTTGTTTGCATTTGAATGAATTTAAATTAGTGCCAATTCATTTACTTGAATTTAAATTT
52938513 TAAAAATATTTTTTTAATTTTTTTCAATTTTAAAAAACATTTTAAGTAAAAGCGTCGGAGACAAT
66 TAAAAATATTTTTTTAATTTTTTTCAATTTTAAAAAACATTTTAAGTAAAAGCGTCGGAGACAAT
52938578 ATCTTTTAAAAAAATTCACATATTTTTAATAAAAATTTTCAATATATTCTCATTTTTATCGTGAA
131 ATCTTTTAAAAAAATTCACATATTTTTAATAAAAATTTTCAATATATTCTCATTTTTATCGTGAA
52938643 GATGATTTAAACACAAACTTTGGGCTTTTTAACTCTTTAGTCTTTATTTGGGCCTAAGTAGCTCA
196 GATGATTTAAACACAAACTTTGGGCTTTTTAACTCTTTAGTCTTTATTTGGGCCTAAGTAGCTCA
52938708 TATCCCTTTGTTTAGCAACAGCAAATTTTCAGTTCTAAGGCTTTATCATATT
261 TATCCCTTTGTTTAGCAACAGCAAATTTTCAGTTCTAAGGCTTTATCATATT
52938760 AATAAATTTG-TTGCATTTGAATGAATTTAAATTAGTGCCAATTCATTTACTTGAATTTAAATTT
1 AATAAATTTGTTTGCATTTGAATGAATTTAAATTAGTGCCAATTCATTTACTTGAATTTAAATTT
52938824 TAAAAATATTTTTTTAATTTTTTTCAATTTTAAAAAACATTTTAAGTAAAAGCGTCGGAGACAAT
66 TAAAAATATTTTTTTAATTTTTTTCAATTTTAAAAAACATTTTAAGTAAAAGCGTCGGAGACAAT
52938889 ATCTTTTAAAAAAATTCACATATTTTTAATAAAAATTTTCAATATATTCTCATTTTTATCGTGAA
131 ATCTTTTAAAAAAATTCACATATTTTTAATAAAAATTTTCAATATATTCTCATTTTTATCGTGAA
52938954 GATGATTTAAACACAAACTTTGGGCTTTTTAACTCTTTAGTCTTTATTTGGGCCTAAGTAGCTCA
196 GATGATTTAAACACAAACTTTGGGCTTTTTAACTCTTTAGTCTTTATTTGGGCCTAAGTAGCTCA
52939019 TATCCCTTTGTTTAGCAACAGCAAATTTTCAGTTCTAAGGCTTTATCATATT
261 TATCCCTTTGTTTAGCAACAGCAAATTTTCAGTTCTAAGGCTTTATCATATT
52939071 TTTTAGGGTT
Statistics
Matches: 311, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
311 301 0.97
312 10 0.03
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (312 bp):
AATAAATTTGTTTGCATTTGAATGAATTTAAATTAGTGCCAATTCATTTACTTGAATTTAAATTT
TAAAAATATTTTTTTAATTTTTTTCAATTTTAAAAAACATTTTAAGTAAAAGCGTCGGAGACAAT
ATCTTTTAAAAAAATTCACATATTTTTAATAAAAATTTTCAATATATTCTCATTTTTATCGTGAA
GATGATTTAAACACAAACTTTGGGCTTTTTAACTCTTTAGTCTTTATTTGGGCCTAAGTAGCTCA
TATCCCTTTGTTTAGCAACAGCAAATTTTCAGTTCTAAGGCTTTATCATATT
Found at i:52944764 original size:16 final size:16
Alignment explanation
Indices: 52944724--52944766 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
52944714 TATAAAAAAT
*
52944724 TTAAATTTTAAATAAG
1 TTAAAATTTAAATAAG
* *
52944740 TAAAAAATTTAAATAGG
1 T-TAAAATTTAAATAAG
52944757 TTAAAATTTA
1 TTAAAATTTA
52944767 CATCCTCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (16 bp):
TTAAAATTTAAATAAG
Found at i:52945054 original size:8 final size:8
Alignment explanation
Indices: 52945041--52945080 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
52945031 TGGCACCTAA
52945041 AAAATTAT
1 AAAATTAT
52945049 AAAATTAT
1 AAAATTAT
*
52945057 AAAATAAT
1 AAAATTAT
*
52945065 -AAATAAT
1 AAAATTAT
52945072 AAAATTAT
1 AAAATTAT
52945080 A
1 A
52945081 TTTTGATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:52945450 original size:204 final size:205
Alignment explanation
Indices: 52945089--52945498 Score: 813
Period size: 204 Copynumber: 2.0 Consensus size: 205
52945079 TATTTTGATG
52945089 TCAAAATTTTATAATTAAATTTTAACCCTAAATTGTTTTTATTAACTTCTAACTATAATAATTAA
1 TCAAAATTTTATAATTAAATTTTAACCCTAAATTGTTTTTATTAACTTCTAACTATAATAATTAA
52945154 TCGAATTATTATCATTATGTTTAATCTCATAAAAAAAAAAGCGAATGTATAATTGAAGGGTAGGG
66 TCGAATTATTATCATTATGTTTAATCTCATAAAAAAAAAAGCGAATGTATAATTGAAGGGTAGGG
52945219 GCCGTGCACAAATTTTGATTTGGAACATAAATTAGGCGACGTGGGATGGTCCCTCACAGCAACTA
131 GCCGTGCACAAATTTTGATTTGGAACATAAATTAGGCGACGTGGGATGGTCCCTCACAGCAACTA
52945284 AGTGATCCAC
196 AGTGATCCAC
52945294 TCAAAATTTT-TAATTAAATTTTAACCCTAAATTGTTTTTATTAACTTCTAACTATAATAATTAA
1 TCAAAATTTTATAATTAAATTTTAACCCTAAATTGTTTTTATTAACTTCTAACTATAATAATTAA
52945358 TCGAATTATTATCATTATGTTTAATCTCATAAAAAAAAAAGCGAATGTATAATTGAAGGGTAGGG
66 TCGAATTATTATCATTATGTTTAATCTCATAAAAAAAAAAGCGAATGTATAATTGAAGGGTAGGG
52945423 GCCGTGCACAAATTTTGATTTGGAACATAAATTAGGCGACGTGGGATGGTCCCTCACAGCAACTA
131 GCCGTGCACAAATTTTGATTTGGAACATAAATTAGGCGACGTGGGATGGTCCCTCACAGCAACTA
52945488 AGTGATCCAC
196 AGTGATCCAC
52945498 T
1 T
52945499 GACATGCACA
Statistics
Matches: 205, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
204 195 0.95
205 10 0.05
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (205 bp):
TCAAAATTTTATAATTAAATTTTAACCCTAAATTGTTTTTATTAACTTCTAACTATAATAATTAA
TCGAATTATTATCATTATGTTTAATCTCATAAAAAAAAAAGCGAATGTATAATTGAAGGGTAGGG
GCCGTGCACAAATTTTGATTTGGAACATAAATTAGGCGACGTGGGATGGTCCCTCACAGCAACTA
AGTGATCCAC
Found at i:52948199 original size:39 final size:40
Alignment explanation
Indices: 52948113--52948201 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 40
52948103 AAAGAATGTC
* *
52948113 TTATTTTTATTTGCTCTTATATTGTATGTTATTGATTTGT
1 TTATCTTTATTTGCTCTTATATTGTATGTTATTGATTCGT
*
52948153 TTTTCTTTATTTG-TCTTA-ATTTCGT-TGTTATTG-TTCGT
1 TTATCTTTATTTGCTCTTATA-TT-GTATGTTATTGATTCGT
52948191 ATTATCTTTAT
1 -TTATCTTTAT
52948202 ACCATCGTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
38 5 0.12
39 24 0.57
40 13 0.31
ACGTcount: A:0.16, C:0.08, G:0.11, T:0.65
Consensus pattern (40 bp):
TTATCTTTATTTGCTCTTATATTGTATGTTATTGATTCGT
Found at i:52948523 original size:72 final size:72
Alignment explanation
Indices: 52948406--52948539 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
52948396 TCTTTTCAAA
* *
52948406 CTCAAGTATTAAACGATATCGGGAATCAAGAAGAGATCACGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTATTAAACGATATCAGGAATCAAGAAAAGATCACGTCCTAACTTACTGGGCATGATCCC
52948471 CTTTTTT
66 CTTTTTT
* * * **
52948478 CTCAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGAT
1 CTCAAGTATTAAACGATATCAGGAATCAAGAAAAGATCACGTCCTAACTTACTGGGCATGAT
52948540 TTCTTTTTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (72 bp):
CTCAAGTATTAAACGATATCAGGAATCAAGAAAAGATCACGTCCTAACTTACTGGGCATGATCCC
CTTTTTT
Found at i:52950886 original size:12 final size:12
Alignment explanation
Indices: 52950852--52950891 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
52950842 TACTTTTATG
*
52950852 TAAACATTAAAA
1 TAAATATTAAAA
*
52950864 T-AATTTTAAAA
1 TAAATATTAAAA
52950875 TAAATATTAAAA
1 TAAATATTAAAA
52950887 TAAAT
1 TAAAT
52950892 TTCAAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATATTAAAA
Found at i:52951553 original size:101 final size:101
Alignment explanation
Indices: 52951443--52951646 Score: 354
Period size: 101 Copynumber: 2.0 Consensus size: 101
52951433 AAAAAAATAT
**
52951443 TTCATAAATTAAATAACAATATCATCCCATACTATGCATATTGTTCAACAAATCCAAAATAAATA
1 TTCATAAATTAAATAACAATATCATCCCATACTATGCATATAATTCAACAAATCCAAAATAAATA
* *
52951508 ATAAAAATTTAATTTTAAAATATATTTTAAAGTTAC
66 ATAAAAATTTAAATTTAAAATACATTTTAAAGTTAC
* *
52951544 TTCATAAATTAAATAATAATATCATCCCATGCTATGCATATAATTCAACAAATCCAAAATAAATA
1 TTCATAAATTAAATAACAATATCATCCCATACTATGCATATAATTCAACAAATCCAAAATAAATA
52951609 ATAAAAATTTAAATTTAAAATACATTTTAAAGTTAC
66 ATAAAAATTTAAATTTAAAATACATTTTAAAGTTAC
52951645 TT
1 TT
52951647 TTTTAATACC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (101 bp):
TTCATAAATTAAATAACAATATCATCCCATACTATGCATATAATTCAACAAATCCAAAATAAATA
ATAAAAATTTAAATTTAAAATACATTTTAAAGTTAC
Found at i:52955887 original size:3 final size:3
Alignment explanation
Indices: 52955879--52955929 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
52955869 CTACTGCTTA
52955879 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
52955927 ATT
1 ATT
52955930 CTAATTCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:52956778 original size:910 final size:910
Alignment explanation
Indices: 52955019--52956828 Score: 3437
Period size: 910 Copynumber: 2.0 Consensus size: 910
52955009 TCAATTAACC
*
52955019 TCTAATTCAATTTCTACAATTTTTAGAGAATTTTCAAAGTCAAACTACTGCTGCTGTCTAAAACT
1 TCTAATTCAATTTCTACAATTTTTAGAGAATTTTCAAAGTCAAACTACTACTGCTGTCTAAAACT
52955084 ATTTTAGTGCAAAATGTTAATAACCAAGAGTATAACACCCTCCTTTCCTTTCTCTAAAATATTTC
66 ATTTTAGTGCAAAATGTTAATAACCAAGAGTATAACACCCTCCTTTCCTTTCTCTAAAATATTTC
52955149 CAATCACGTCCTCTTATTTCCCTTCACTAACATATCAAGAACATAAAACCTTATATAAGAAAACT
131 CAATCACGTCCTCTTATTTCCCTTCACTAACATATCAAGAACATAAAACCTTATATAAGAAAACT
52955214 CTACTTTAACATCATTTTCATGCTTTTTCAATAATATCAAACTTAAAAATATATTGAAATCTTGA
196 CTACTTTAACATCATTTTCATGCTTTTTCAATAATATCAAACTTAAAAATATATTGAAATCTTGA
52955279 TGTTCTTACCTTATCCTATTGATTTCAATCTTTAACTTTATTTTCTCTCTCCTCCAACTTCCATT
261 TGTTCTTACCTTATCCTATTGATTTCAATCTTTAACTTTATTTTCTCTCTCCTCCAACTTCCATT
52955344 CTCTTGTTCTCCATAGCCTCCTTATCACTTTTCTTTCTTGGTGATTATGAAAATTTCTTGAAATT
326 CTCTTGTTCTCCATAGCCTCCTTATCACTTTTCTTTCTTGGTGATTATGAAAATTTCTTGAAATT
52955409 CTTGGTGAAAATGGTGGATTTTTGGTGGAAGGACCAAATTGTAGAGACAACAAAGTTTTCTTCTT
391 CTTGGTGAAAATGGTGGATTTTTGGTGGAAGGACCAAATTGTAGAGACAACAAAGTTTTCTTCTT
52955474 CTCTCCCCCTCACATTAAAATATTAATAAAGTAATATTTTTTAATTAAATAATTATAAAATATTA
456 CTCTCCCCCTCACATTAAAATATTAATAAAGTAATATTTTTTAATTAAATAATTATAAAATATTA
52955539 TCAAAATATCTCCAACATCATCACTGCCTTCTAAAGTTCTCTCTCTTTCTAATTAACCATTTTGT
521 TCAAAATATCTCCAACATCATCACTGCCTTCTAAAGTTCTCTCTCTTTCTAATTAACCATTTTGT
52955604 CTTTTATGATCTTTTAAAATTTCATCATTGAATTATCACTTAATTTAATAAAATTATGATTTAGT
586 CTTTTATGATCTTTTAAAATTTCATCATTGAATTATCACTTAATTTAATAAAATTATGATTTAGT
52955669 CCCTCATAATTCTTCACCTATTTAATTTGGTCCCTGCATGCCAATTCCATGTCATAGAAAATTGG
651 CCCTCATAATTCTTCACCTATTTAATTTGGTCCCTGCATGCCAATTCCATGTCATAGAAAATTGG
52955734 ATTATTTTCAATTTTGGTCCTTCAACTTTTTTATTTTTACACTTTGATCCCCTAAATGTTGAATA
716 ATTATTTTCAATTTTGGTCCTTCAACTTTTTTATTTTTACACTTTGATCCCCTAAATGTTGAATA
52955799 TTTACACTTGAGCCAAAAACTTTTCACATATTTACAATTTAGTCCTTACTTTAAATCAATATACT
781 TTTACACTTGAGCCAAAAACTTTTCACATATTTACAATTTAGTCCTTACTTTAAATCAATATACT
52955864 AAAACCTACTGCTTAATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTAT
846 AAAACCTACTGCTTAATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTAT
* * * * * *
52955929 TCTAATTCAATTTCTACAATTTTTGGTGAATTTTTAAAGTTAGACTACTACTGTTGTAC-AAAAC
1 TCTAATTCAATTTCTACAATTTTTAGAGAATTTTCAAAGTCAAACTACTACTGCTGT-CTAAAAC
* ** *
52955993 TGTTTTAGTGCAAAATGTTAATAACCAAGTTTATAACACCCTCCTTTCCTTTCTCTACAATATTT
65 TATTTTAGTGCAAAATGTTAATAACCAAGAGTATAACACCCTCCTTTCCTTTCTCTAAAATATTT
** * *
52956058 -CACATCATTTCCTCTTATTTCTCTTCACTAACATATTAAGAACATAAAACCTTATATAAGAAAA
130 CCA-ATCACGTCCTCTTATTTCCCTTCACTAACATATCAAGAACATAAAACCTTATATAAGAAAA
52956122 CTCTACTTTAACATCATTTTCATGCTTTTTCAATAATATCAAACTTAAAAATATATTGAAATCTT
194 CTCTACTTTAACATCATTTTCATGCTTTTTCAATAATATCAAACTTAAAAATATATTGAAATCTT
52956187 GATGTTCTTACCTTATCCTATTGATTTCAATCTTTAACTTTATTTTCTCTCTCCTCCAACTTCCA
259 GATGTTCTTACCTTATCCTATTGATTTCAATCTTTAACTTTATTTTCTCTCTCCTCCAACTTCCA
52956252 TTCTCTTGTTCTCCATAGCCTCCTTATCACTTTTCTTTCTTGGTGAATTATGAAAA-TTCTTGAA
324 TTCTCTTGTTCTCCATAGCCTCCTTATCACTTTTCTTTCTTGGTG-ATTATGAAAATTTCTTGAA
52956316 ATTCTTGGTGAAAATGGTGGATTTTTGGTGGAAGGACCAAATTGTAGAGACAACAAAGTTTTCTT
388 ATTCTTGGTGAAAATGGTGGATTTTTGGTGGAAGGACCAAATTGTAGAGACAACAAAGTTTTCTT
52956381 CTTCTCTCCCCCTCACATTAAAATATTAATAAAGTAATATTTTTTAATTAAATAATTATAAAATA
453 CTTCTCTCCCCCTCACATTAAAATATTAATAAAGTAATATTTTTTAATTAAATAATTATAAAATA
52956446 TTATCAAAATATCTCCAACATCATCACTGCCTTCTAAAGTTCTCTCTCTTTCTAATTAACCATTT
518 TTATCAAAATATCTCCAACATCATCACTGCCTTCTAAAGTTCTCTCTCTTTCTAATTAACCATTT
52956511 TGTCTTTTATGATCTTTTAAAATTTCATCATTGAATTATCACTTAATTTAATAAAATTATGATTT
583 TGTCTTTTATGATCTTTTAAAATTTCATCATTGAATTATCACTTAATTTAATAAAATTATGATTT
52956576 AGTCCCTCATAATTCTTCACCTATTTAATTTGGTCCCTGCATGCCAATTCCATGTCATAGAAAAT
648 AGTCCCTCATAATTCTTCACCTATTTAATTTGGTCCCTGCATGCCAATTCCATGTCATAGAAAAT
52956641 TGGATTATTTTCAATTTTGGTCCTTCAACTTTTTTATTTTTACACTTTGATCCCCTAAATGTTGA
713 TGGATTATTTTCAATTTTGGTCCTTCAACTTTTTTATTTTTACACTTTGATCCCCTAAATGTTGA
52956706 ATATTTACACTTGAGCCAAAAACTTTTCACATATTTACAATTTAGTCCTTACTTTAAATCAATAT
778 ATATTTACACTTGAGCCAAAAACTTTTCACATATTTACAATTTAGTCCTTACTTTAAATCAATAT
52956771 ACTAAAACCTACTGCTTAATTATTATTATTATTATTATTATTATTATTATTATTATTA
843 ACTAAAACCTACTGCTTAATTATTATTATTATTATTATTATTATTATTATTATTATTA
52956829 CTCCTCAATA
Statistics
Matches: 882, Mismatches: 15, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
909 2 0.00
910 869 0.99
911 11 0.01
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (910 bp):
TCTAATTCAATTTCTACAATTTTTAGAGAATTTTCAAAGTCAAACTACTACTGCTGTCTAAAACT
ATTTTAGTGCAAAATGTTAATAACCAAGAGTATAACACCCTCCTTTCCTTTCTCTAAAATATTTC
CAATCACGTCCTCTTATTTCCCTTCACTAACATATCAAGAACATAAAACCTTATATAAGAAAACT
CTACTTTAACATCATTTTCATGCTTTTTCAATAATATCAAACTTAAAAATATATTGAAATCTTGA
TGTTCTTACCTTATCCTATTGATTTCAATCTTTAACTTTATTTTCTCTCTCCTCCAACTTCCATT
CTCTTGTTCTCCATAGCCTCCTTATCACTTTTCTTTCTTGGTGATTATGAAAATTTCTTGAAATT
CTTGGTGAAAATGGTGGATTTTTGGTGGAAGGACCAAATTGTAGAGACAACAAAGTTTTCTTCTT
CTCTCCCCCTCACATTAAAATATTAATAAAGTAATATTTTTTAATTAAATAATTATAAAATATTA
TCAAAATATCTCCAACATCATCACTGCCTTCTAAAGTTCTCTCTCTTTCTAATTAACCATTTTGT
CTTTTATGATCTTTTAAAATTTCATCATTGAATTATCACTTAATTTAATAAAATTATGATTTAGT
CCCTCATAATTCTTCACCTATTTAATTTGGTCCCTGCATGCCAATTCCATGTCATAGAAAATTGG
ATTATTTTCAATTTTGGTCCTTCAACTTTTTTATTTTTACACTTTGATCCCCTAAATGTTGAATA
TTTACACTTGAGCCAAAAACTTTTCACATATTTACAATTTAGTCCTTACTTTAAATCAATATACT
AAAACCTACTGCTTAATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTAT
Found at i:52956797 original size:3 final size:3
Alignment explanation
Indices: 52956789--52956828 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
52956779 CTACTGCTTA
52956789 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
52956829 CTCCTCAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:52958784 original size:108 final size:109
Alignment explanation
Indices: 52958661--52958877 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 109
52958651 CTAATTTATG
52958661 TAACAATATGTACTTTATAAAAATTTTTAAAAAAACTTATAAATTATTAAAAAATTCAAATAATA
1 TAACAATATGTACTTTATAAAAATTTTTAAAAAAACTTATAAATTATTAAAAAATTCAAATAATA
52958726 ATAATAAAACCCGTAAAAGTTTTGTTAAAAAATTTTCCACATCA
66 ATAATAAAACCCGTAAAAGTTTTGTTAAAAAATTTTCCACATCA
52958770 TAACAATATG-ACTTTATAAAAATTTTTAAAAAAACTTATAAATTATTAAAAAATTCAAATAATA
1 TAACAATATGTACTTTATAAAAATTTTTAAAAAAACTTATAAATTATTAAAAAATTCAAATAATA
52958834 ATAATAAAACCCGTAAAAGTTTTGTTAAAAAATTTTCCACATCA
66 ATAATAAAACCCGTAAAAGTTTTGTTAAAAAATTTTCCACATCA
52958878 CCAATAAAAT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 98 0.91
109 10 0.09
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (109 bp):
TAACAATATGTACTTTATAAAAATTTTTAAAAAAACTTATAAATTATTAAAAAATTCAAATAATA
ATAATAAAACCCGTAAAAGTTTTGTTAAAAAATTTTCCACATCA
Found at i:52970413 original size:16 final size:15
Alignment explanation
Indices: 52970392--52970444 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 15
52970382 GCACAATAAC
52970392 ATTTATATTAACTCTA
1 ATTTATATTAA-TCTA
*
52970408 ATTTATATTTAATTTA
1 ATTTATA-TTAATCTA
52970424 ATTGTATATTAATCTA
1 ATT-TATATTAATCTA
52970440 ATTTA
1 ATTTA
52970445 CAAAAAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 23 0.70
17 8 0.24
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTATATTAATCTA
Found at i:52971028 original size:25 final size:24
Alignment explanation
Indices: 52970975--52971030 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
52970965 TTATCTTTCA
*
52970975 AAATTGAGAAAAAAAATAGATATT
1 AAATTGAGAAAAAAAATAGATACT
* *
52970999 TAATTGTGAAAAAAAATTA-AGTACT
1 AAATTGAGAAAAAAAA-TAGA-TACT
52971024 AAATTGA
1 AAATTGA
52971031 ATATTGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (24 bp):
AAATTGAGAAAAAAAATAGATACT
Found at i:52977271 original size:17 final size:16
Alignment explanation
Indices: 52977251--52977285 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
52977241 TATTAGCTAT
52977251 TATAATTCGTTTTATAA
1 TATAATTCGTTTT-TAA
*
52977268 TATAATTGGTTTTTAA
1 TATAATTCGTTTTTAA
52977284 TA
1 TA
52977286 ACATGTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (16 bp):
TATAATTCGTTTTTAA
Found at i:52977379 original size:18 final size:18
Alignment explanation
Indices: 52977352--52977398 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
52977342 TTTTTTATGT
*
52977352 TATATTTTATAAAAATTA
1 TATATATTATAAAAATTA
*
52977370 TATATATTATTAAAATTA
1 TATATATTATAAAAATTA
*
52977388 CATTATATTAT
1 TA-TATATTAT
52977399 CTCTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATATTATAAAAATTA
Found at i:52977392 original size:23 final size:23
Alignment explanation
Indices: 52977366--52977427 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
52977356 TTTTATAAAA
*
52977366 ATTATATATATTATTAAAATTAC
1 ATTATATATATTATTAAAAATAC
* *
52977389 ATTATAT-TATCTCTAAAAAATAC
1 ATTATATATAT-TATTAAAAATAC
*
52977412 ATTATATTATAGTATT
1 ATTATA-TATATTATT
52977428 TATTATATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.10
23 22 0.73
24 3 0.10
25 2 0.07
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATATATATTATTAAAAATAC
Found at i:52990283 original size:14 final size:15
Alignment explanation
Indices: 52990264--52990302 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
52990254 GGTATAGTAA
52990264 GTAATTTATTTTT-T
1 GTAATTTATTTTTAT
52990278 GTAATTATATTTTTAT
1 GTAATT-TATTTTTAT
*
52990294 TTAATTTAT
1 GTAATTTAT
52990303 AACATTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
GTAATTTATTTTTAT
Found at i:52991585 original size:45 final size:45
Alignment explanation
Indices: 52991533--52992095 Score: 495
Period size: 45 Copynumber: 12.8 Consensus size: 45
52991523 TGCCACAGTG
* * * *
52991533 GTCTCTTTTTTCATCTTCTCAGCTGAGCCATTCACTGTTGAA-GC-
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTG-TCAAGGCT
* * *
52991577 GATCTCTTTCTTAACCTTCTCAGCTGAGTTATTTACTGTCAAGGCT
1 G-TCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* * * * *
52991623 GTTTCTTTCTTCACCTTCTC-GTTCGAGCTTTTTACTGTCAAGGCC
1 GTCTCTTTCTTCATCTTCTCAGCT-GAGCTATTTACTGTCAAGGCT
* *
52991668 GTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGT--A-GCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* ** *
52991710 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTCACTGTCCTGGCC
1 GTCTCTT-TCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* * * *
52991755 ATCTCTTTGTTCATCTTCTCAGCTGAGTTATTTATTGTCAAGGCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* *
52991800 GTCTCTTTGTTCATCTTCTCAGCTGAGATATTTACTGTCAAGGCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* * * *
52991845 GTCTCTTTCTTCATCTTTTCAGCTGAACCATTTTCTG-C-A-GCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
*
52991887 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTTAATG---A---T
1 GTCTCTT-TCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* * * * *
52991926 GTTTCTTTCATCATCTTCTCAGCTGAGTTATTTATTTTCAAGGCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* * * * *
52991971 GTCTCTTTGTTCATCTTCTCCGCTGAGCTCTTTA-T-TGAA-GTT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
* * *
52992013 GTCTCTCTT-TTCATCTCCTCAG-TGGAGCTATTTACTGTCATGGCC
1 GTCTCT-TTCTTCATCTTCTCAGCT-GAGCTATTTACTGTCAAGGCT
* * * *
52992058 ATCTCATTCTTCATCTTCTCGGCTGAGCTATTCACTGT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGT
52992096 TGAGGCCATC
Statistics
Matches: 423, Mismatches: 71, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.00
39 31 0.07
41 2 0.00
42 95 0.22
43 12 0.03
44 13 0.03
45 265 0.63
46 3 0.01
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (45 bp):
GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCT
Found at i:52991689 original size:90 final size:90
Alignment explanation
Indices: 52991533--52992110 Score: 489
Period size: 87 Copynumber: 6.6 Consensus size: 90
52991523 TGCCACAGTG
* * * * * *
52991533 GTCTCTTTTTTCATCTTCTCAGCTGAGCCATTCACTGTTGAA-G-CGATCTCTTTCTTAACCTTC
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTG-TCAAGGCCG-TCTCTTTCTTCATCTTC
52991596 TCAGCTGAGTTATTTACTGTCAAGGCT
64 TCAGCTGAGTTATTTACTGTCAAGGCT
* * * *
52991623 GTTTCTTTCTTCACCTTCTC-GTTCGAGCTTTTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCT
1 GTCTCTTTCTTCATCTTCTCAGCT-GAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCT
* **
52991687 CAGCCGAGCCATTTACTGT--A-GCT
65 CAGCTGAGTTATTTACTGTCAAGGCT
* ** * *
52991710 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTCACTGTCCTGGCCATCTCTTTGTTCATCTTCT
1 GTCTCTT-TCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCT
*
52991774 CAGCTGAGTTATTTATTGTCAAGGCT
65 CAGCTGAGTTATTTACTGTCAAGGCT
* * * *
52991800 GTCTCTTTGTTCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTTTC
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCTC
*** *
52991865 AGCTGAACCATTTTCTG-C-A-GCT
66 AGCTGAGTTATTTACTGTCAAGGCT
* * * *
52991887 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTTAATG---A---TGTTTCTTTCATCATCTTCT
1 GTCTCTT-TCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCT
* *
52991945 CAGCTGAGTTATTTATTTTCAAGGCT
65 CAGCTGAGTTATTTACTGTCAAGGCT
* * * * ** *
52991971 GTCTCTTTGTTCATCTTCTCCGCTGAGCTCTTTA-T-TGAA-GTTGTCTCTCTT-TTCATCTCCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCT-TTCTTCATCTTCT
* * *
52992032 CAG-TGGAGCTATTTACTGTCATGGCC
65 CAGCT-GAGTTATTTACTGTCAAGGCT
* * * * ** *
52992058 ATCTCATTCTTCATCTTCTCGGCTGAGCTATTCACTGTTGAGGCCATCTCTTT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTT
52992111 GTTTGCCTTC
Statistics
Matches: 390, Mismatches: 74, Indels: 49
0.76 0.14 0.10
Matches are distributed among these distances:
81 29 0.07
82 1 0.00
83 3 0.01
84 33 0.08
85 1 0.00
86 1 0.00
87 163 0.42
88 10 0.03
89 12 0.03
90 135 0.35
91 2 0.01
ACGTcount: A:0.15, C:0.26, G:0.16, T:0.43
Consensus pattern (90 bp):
GTCTCTTTCTTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCTC
AGCTGAGTTATTTACTGTCAAGGCT
Found at i:52991836 original size:177 final size:174
Alignment explanation
Indices: 52991533--52992110 Score: 634
Period size: 177 Copynumber: 3.3 Consensus size: 174
52991523 TGCCACAGTG
* * * * * *
52991533 GTCTCTTTTTTCATCTTCTCAGCTGAGCCATTCACTGTTGAAGCGATCTCTTTCTTAACCTTCTC
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGTTG--GCCATCTCTTTCTTCATCTTCTC
* * * * * *
52991598 AGCTGAGTTATTTACTGTCAAGGCTGTTTCTTTCTTCACCTTCTCGTTCGAGCTTTTTACTGTCA
64 AGCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCTCGCT-GAGCTATTTACTGTCA
*
52991663 AGGCCGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGTAGCT
128 AGGCTGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGTAGCT
*
52991710 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGTCCTGGCCATCTCTTTGTTCATCTTCTC
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGT--TGGCCATCTCTTTCTTCATCTTCTC
*
52991775 AGCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCTCAGCTGAGATATTTACTGTCA
64 AGCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCTC-GCTGAGCTATTTACTGTCA
* * * * *
52991840 AGGCTGTCTCTTTCTTCATCTTTTCAGCTGAACCATTTTCTGCAGCT
128 AGGCTGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGTAGCT
* * * * *
52991887 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTAATGAT-G---TTTCTTTCATCATCTTCTCAG
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGTTGGCCATCTCTTTCTTCATCTTCTCAG
* * *
52991948 CTGAGTTATTTATTTTCAAGGCTGTCTCTTTGTTCATCTTCTCCGCTGAGCTCTTTA-T-TGAA-
66 CTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCT-CGCTGAGCTATTTACTGTCAAG
* * ** * *
52992010 GTTGTCTCTCTT-TTCATCTCCTCAGTGGAGCTATTTACTGTCATGGCC
130 GCTGTCTCT-TTCTTCATCTTCTCAGCCGAGCCATTTACTGT-A--GCT
* * *
52992058 ATCTCAT-TCTTCATCTTCTCGGCTGAGCTATTCACTGTTGAGGCCATCTCTTT
1 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTCACTGTT--GGCCATCTCTTT
52992111 GTTTGCCTTC
Statistics
Matches: 339, Mismatches: 47, Indels: 30
0.81 0.11 0.07
Matches are distributed among these distances:
168 29 0.09
169 6 0.02
170 3 0.01
171 102 0.30
172 1 0.00
174 2 0.01
175 1 0.00
177 191 0.56
178 2 0.01
179 2 0.01
ACGTcount: A:0.15, C:0.26, G:0.16, T:0.43
Consensus pattern (174 bp):
GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGTTGGCCATCTCTTTCTTCATCTTCTCAG
CTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCTCGCTGAGCTATTTACTGTCAAGG
CTGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGTAGCT
Found at i:52992016 original size:126 final size:126
Alignment explanation
Indices: 52991810--52992046 Score: 311
Period size: 126 Copynumber: 1.9 Consensus size: 126
52991800 GTCTCTTTGT
*
52991810 TCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTTTCAGCTGAACCA
1 TCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTCTCAGCTGAACCA
* *
52991875 TTTTCTGCAGCTGTCTCT-TGTCTCATCTTCTCAGCT-GAGCTATTTAATGATGTTTCTTTCA
66 TTTTCTGAAGCTGTCTCTCT-TCTCATCTCCTCAG-TGGAGCTATTTAATGATGTTTCTTTCA
* * * * * *
52991936 TCATCTTCTCAGCTGAGTTATTTATTTTCAAGGCTGTCTCTTTGTTCATCTTCTCCGCTGAGCTC
1 TCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTCTCAGCTGAAC-C
* *
52992001 -TTTAT-TGAAGTTGTCTCTCTTTTCATCTCCTCAGTGGAGCTATTTA
65 ATTT-TCTGAAGCTGTCTCTCTTCTCATCTCCTCAGTGGAGCTATTTA
52992047 CTGTCATGGC
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
125 1 0.01
126 92 0.96
127 3 0.03
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (126 bp):
TCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTCTCAGCTGAACCA
TTTTCTGAAGCTGTCTCTCTTCTCATCTCCTCAGTGGAGCTATTTAATGATGTTTCTTTCA
Found at i:53003938 original size:18 final size:18
Alignment explanation
Indices: 53003917--53003961 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
53003907 AGATGACCAC
* *
53003917 GAAGGTGAAGGTGAAGAT
1 GAAGATGAAGGCGAAGAT
*
53003935 GAAGCTGAAGGCGAAGAT
1 GAAGATGAAGGCGAAGAT
53003953 GAAGATGAA
1 GAAGATGAA
53003962 AGAGGTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.40, T:0.13
Consensus pattern (18 bp):
GAAGATGAAGGCGAAGAT
Found at i:53005888 original size:26 final size:26
Alignment explanation
Indices: 53005843--53005900 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
53005833 AATTTTTAAA
*
53005843 TTAAA-AAAAGTAGAGAGACTAATTT
1 TTAAATAAAAGTAGAGAGACTAAATT
*
53005868 CTTAAATAAAAGTAG-GGGACTAAATT
1 -TTAAATAAAAGTAGAGAGACTAAATT
53005894 TTAAATA
1 TTAAATA
53005901 TACGAAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.24
26 14 0.48
27 8 0.28
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (26 bp):
TTAAATAAAAGTAGAGAGACTAAATT
Found at i:53009357 original size:39 final size:40
Alignment explanation
Indices: 53009301--53009389 Score: 135
Period size: 39 Copynumber: 2.2 Consensus size: 40
53009291 TTATTAAAGC
**
53009301 TAAAATCAATCCTAAAATGGGTCCATTTCTTGGAAGGAAAT
1 TAAAAT-AATCCTAAAATGGGTCCATTTCTTAAAAGGAAAT
*
53009342 TAAAATAA-CCTAAAATGGGTCCATTTTTTAAAAGGAAAT
1 TAAAATAATCCTAAAATGGGTCCATTTCTTAAAAGGAAAT
53009381 TAAAATAAT
1 TAAAATAAT
53009390 TTATTGTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 36 0.82
40 2 0.05
41 6 0.14
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (40 bp):
TAAAATAATCCTAAAATGGGTCCATTTCTTAAAAGGAAAT
Found at i:53009646 original size:15 final size:16
Alignment explanation
Indices: 53009608--53009651 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
53009598 AAGTTATATT
*
53009608 TAAGATTTTTGCGACTA
1 TAAGATTTTAG-GACTA
*
53009625 TATGATTTTAGGA-TA
1 TAAGATTTTAGGACTA
53009640 TAAGATTTTAGG
1 TAAGATTTTAGG
53009652 GTTGGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 2 0.08
17 9 0.38
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (16 bp):
TAAGATTTTAGGACTA
Found at i:53021355 original size:30 final size:31
Alignment explanation
Indices: 53021321--53021386 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
53021311 TTGATCTCTT
*
53021321 AAAATGAAAAAAAT-TCTTTTAATCACTTAA
1 AAAATGAAAAAAATATCTTTTAACCACTTAA
* * * *
53021351 AAAATGATAAAATTATGTTTTAACCTCTTAA
1 AAAATGAAAAAAATATCTTTTAACCACTTAA
53021382 AAAAT
1 AAAAT
53021387 TATAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.35
Consensus pattern (31 bp):
AAAATGAAAAAAATATCTTTTAACCACTTAA
Found at i:53024350 original size:24 final size:25
Alignment explanation
Indices: 53024323--53024376 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
53024313 AAAAAAGAGG
53024323 AAAATTTAAAGAACATAAAA-GAAA
1 AAAATTTAAAGAACATAAAACGAAA
* ** *
53024347 AAAAATTAAATTACTTAAAACGAAA
1 AAAATTTAAAGAACATAAAACGAAA
53024372 AAAAT
1 AAAAT
53024377 ATGGGAATCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (25 bp):
AAAATTTAAAGAACATAAAACGAAA
Found at i:53031168 original size:20 final size:21
Alignment explanation
Indices: 53031126--53031168 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
53031116 AAAAAATTCA
*
53031126 ATTTTTTAACTTTCATTACAT
1 ATTTTTTAACTTTCATTAAAT
**
53031147 ATTTTTTAA-TTTTTTTAAAT
1 ATTTTTTAACTTTCATTAAAT
53031167 AT
1 AT
53031169 ACTTTTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTTAACTTTCATTAAAT
Found at i:53038692 original size:3 final size:3
Alignment explanation
Indices: 53038684--53038714 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
53038674 AAAAATTGGA
*
53038684 AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
53038715 TTTCAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:53038703 original size:15 final size:15
Alignment explanation
Indices: 53038683--53038712 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53038673 CAAAAATTGG
53038683 AAATAATAATAATAA
1 AAATAATAATAATAA
53038698 AAATAATAATAATAA
1 AAATAATAATAATAA
53038713 TATTTCAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAATAATAATAA
Found at i:53051527 original size:13 final size:13
Alignment explanation
Indices: 53051509--53051544 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
53051499 TTTGGCAATG
53051509 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
53051522 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
53051535 CTTTTGAAAA
1 CTTTTGAAAA
53051545 ATTTGAGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:53063695 original size:6 final size:6
Alignment explanation
Indices: 53063686--53063725 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
53063676 ATAATAAAAA
* *
53063686 TAATAG TAATAG TAGTAG TAATAG TAATAG TAATAA TAAT
1 TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAAT
53063726 TCTTTGTGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
TAATAG
Found at i:53064784 original size:19 final size:20
Alignment explanation
Indices: 53064760--53064804 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
53064750 TGTTTTTAAT
*
53064760 TTAAAAAAATA-TAAAAATA
1 TTAAAAAAACACTAAAAATA
*
53064779 TTAAAAAAACACTAAATATA
1 TTAAAAAAACACTAAAAATA
53064799 TTAAAA
1 TTAAAA
53064805 TAATTATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAAAAAAACACTAAAAATA
Found at i:53075644 original size:42 final size:42
Alignment explanation
Indices: 53075598--53075677 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
53075588 TGAGCTTGCT
* * *
53075598 TGTTGTTTTCCCAAGTTGCTTTCTTTTTTGTATAGACATAGA
1 TGTTGCTTTCCCAAGTTGCTTCCTTTTCTGTATAGACATAGA
53075640 TGTTGCTTTCCCAAGTTGCTTCCTTTTCTGTATAGACA
1 TGTTGCTTTCCCAAGTTGCTTCCTTTTCTGTATAGACA
53075678 ATATTATTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.47
Consensus pattern (42 bp):
TGTTGCTTTCCCAAGTTGCTTCCTTTTCTGTATAGACATAGA
Found at i:53076638 original size:22 final size:23
Alignment explanation
Indices: 53076599--53076645 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
53076589 ATAACAGTTT
*
53076599 AAGATTTTTCTTTTCATTTATTAA
1 AAGATTTTTC-TTACATTTATTAA
53076623 AAGATTTTTC-TACATTTATTAA
1 AAGATTTTTCTTACATTTATTAA
53076645 A
1 A
53076646 GCTATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (23 bp):
AAGATTTTTCTTACATTTATTAA
Found at i:53085629 original size:98 final size:97
Alignment explanation
Indices: 53085462--53085751 Score: 417
Period size: 98 Copynumber: 3.0 Consensus size: 97
53085452 AACAACTAGT
* * *
53085462 TTTATTTGA--TTTTTCCTTAAAAACTCTAAATACTAAACCCCAATCTAATTTTTTAAAATTTTA
1 TTTATTTGATTTTTTTCCTTAAAAACACTAAACACTAAACCCTAATCTAATTTTTTAAAA-TTTA
*
53085525 TAATTAATTTACTCAAGTAACCCTAAATCCTAA
65 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
*
53085558 TTTATTTGATTTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTA
1 TTTATTTGATTTTTTTCCTTAAAAACACTAAACACTAAACCCTAATCTAA-TTTTTTAAAATTTA
53085623 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
65 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
* * * *
53085656 TTTATTTAATTTTTTT-CTTAAAAAGCAC-AAACTCTAAACTCTAATCTAATTTTCTAAAATTTA
1 TTTATTTGATTTTTTTCCTTAAAAA-CACTAAACACTAAACCCTAATCTAATTTTTTAAAATTTA
* * *
53085719 TAATTAATTTAATTAAGAAACCCTAAACCCTAA
65 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
53085752 ACCTTTATTT
Statistics
Matches: 178, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
96 52 0.29
97 27 0.15
98 89 0.50
99 10 0.06
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (97 bp):
TTTATTTGATTTTTTTCCTTAAAAACACTAAACACTAAACCCTAATCTAATTTTTTAAAATTTAT
AATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:53085647 original size:46 final size:46
Alignment explanation
Indices: 53085497--53085648 Score: 110
Period size: 50 Copynumber: 3.2 Consensus size: 46
53085487 CTAAATACTA
*
53085497 AACCCCAATCTAA-TTTTTTAAAATTTTATAATTAATTTACTCAAGT
1 AACCCTAATCTAATTTTTTTAAAA-TTTATAATTAATTTACTCAAGT
* * ** * ** ** * *
53085543 AACCCTAAATCCTAATTTATTTGATTTTTTTCCTTAA-AAACCCTAAACACT
1 AACCCT-AAT-CTAATTTTTTTAAAATTTATAATTAATTTA--CT-CA-AGT
53085594 AAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGT
1 -AACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGT
53085641 AACCCTAA
1 AACCCTAA
53085649 ACCCTAATTT
Statistics
Matches: 74, Mismatches: 23, Indels: 18
0.64 0.20 0.16
Matches are distributed among these distances:
46 13 0.18
47 6 0.08
48 13 0.18
49 10 0.14
50 20 0.27
51 6 0.08
52 6 0.08
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (46 bp):
AACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGT
Found at i:53092447 original size:28 final size:26
Alignment explanation
Indices: 53092407--53092469 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
53092397 TACATGTTAA
* *
53092407 AAAAACAAAAAATGGAAATAAATATAT
1 AAAAATAAAAAATAGAAATAAAT-TAT
* *
53092434 AAAAATAAAGAAATATATATAAATTAT
1 AAAAATAAA-AAATAGAAATAAATTAT
53092461 AAAAATAAA
1 AAAAATAAA
53092470 TTNNCTTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (26 bp):
AAAAATAAAAAATAGAAATAAATTAT
Found at i:53106648 original size:126 final size:126
Alignment explanation
Indices: 53106423--53106672 Score: 500
Period size: 126 Copynumber: 2.0 Consensus size: 126
53106413 TTTGGTCCCC
53106423 CCTAAAAATGATAAAAATTTGATTTAATCTTTTAAAAATTATAAAGATACAAGCTATTAAAATAG
1 CCTAAAAATGATAAAAATTTGATTTAATCTTTTAAAAATTATAAAGATACAAGCTATTAAAATAG
53106488 TGAAATTGCATTTTTACTATCATAAAAATTAAAATTTAATTTCGGCCCCCTAGCAAAATCT
66 TGAAATTGCATTTTTACTATCATAAAAATTAAAATTTAATTTCGGCCCCCTAGCAAAATCT
53106549 CCTAAAAATGATAAAAATTTGATTTAATCTTTTAAAAATTATAAAGATACAAGCTATTAAAATAG
1 CCTAAAAATGATAAAAATTTGATTTAATCTTTTAAAAATTATAAAGATACAAGCTATTAAAATAG
53106614 TGAAATTGCATTTTTACTATCATAAAAATTAAAATTTAATTTCGGCCCCCTAGCAAAAT
66 TGAAATTGCATTTTTACTATCATAAAAATTAAAATTTAATTTCGGCCCCCTAGCAAAAT
53106673 TTTCTACCTT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (126 bp):
CCTAAAAATGATAAAAATTTGATTTAATCTTTTAAAAATTATAAAGATACAAGCTATTAAAATAG
TGAAATTGCATTTTTACTATCATAAAAATTAAAATTTAATTTCGGCCCCCTAGCAAAATCT
Found at i:53120390 original size:19 final size:19
Alignment explanation
Indices: 53120355--53120405 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
53120345 TATAATTAAT
*
53120355 ATAATTTA-TT-ATTTTTA
1 ATAATTTATTTAATATTTA
53120372 ATAATTTATTTAATATTTA
1 ATAATTTATTTAATATTTA
*
53120391 A-ATTTTATTTTAATA
1 ATAATTTA-TTTAATA
53120406 GTAAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 14 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAATTTATTTAATATTTA
Found at i:53120410 original size:18 final size:18
Alignment explanation
Indices: 53120374--53120415 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
53120364 TATTTTTAAT
*
53120374 AATTTATTTAATATTTAA
1 AATTTATTTAATATGTAA
*
53120392 ATTTTATTTTAATA-GTAA
1 AATTTA-TTTAATATGTAA
53120410 AATTTA
1 AATTTA
53120416 AAAATAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
AATTTATTTAATATGTAA
Found at i:53120412 original size:19 final size:18
Alignment explanation
Indices: 53120376--53120414 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
53120366 TTTTTAATAA
* *
53120376 TTTATTTAATATTTAAAT
1 TTTATTTAATAGTAAAAT
53120394 TTTATTTTAATAGTAAAAT
1 TTTA-TTTAATAGTAAAAT
53120413 TT
1 TT
53120415 AAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTATTTAATAGTAAAAT
Found at i:53122669 original size:9 final size:10
Alignment explanation
Indices: 53122649--53122680 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
53122639 NNNNNNNNNN
53122649 TTTTTAATTT
1 TTTTTAATTT
53122659 TTTTTAATTT
1 TTTTTAATTT
53122669 TTTTTAAATTT
1 TTTTT-AATTT
53122680 T
1 T
53122681 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:53122691 original size:11 final size:11
Alignment explanation
Indices: 53122677--53122727 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
53122667 TTTTTTTAAA
53122677 TTTTAAAATAT
1 TTTTAAAATAT
53122688 TTTTAAAATAT
1 TTTTAAAATAT
*
53122699 TTTTTAAA-AT
1 TTTTAAAATAT
53122709 TTTT-AAA-AT
1 TTTTAAAATAT
53122718 TTTTAAAATA
1 TTTTAAAATA
53122728 AAAATGGACC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 9 0.24
10 9 0.24
11 19 0.51
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:53122702 original size:30 final size:30
Alignment explanation
Indices: 53122667--53122727 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
53122657 TTTTTTTAAT
*
53122667 TTTTTTTAAATTTTAAAATATTTTTAAAATA
1 TTTTTTAAAATTTTAAAA-ATTTTTAAAATA
*
53122698 TTTTTTAAAATTTTTAAAATTTTTAAAATA
1 TTTTTTAAAATTTTAAAAATTTTTAAAATA
53122728 AAAATGGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTTTTAAAATTTTAAAAATTTTTAAAATA
Found at i:53122713 original size:9 final size:9
Alignment explanation
Indices: 53122668--53122726 Score: 64
Period size: 9 Copynumber: 6.1 Consensus size: 9
53122658 TTTTTTAATT
*
53122668 TTTTTTAAA
1 TTTTTAAAA
*
53122677 TTTTAAAATA
1 TTTTTAAA-A
53122687 TTTTTAAAATA
1 TTTTT-AAA-A
53122698 TTTTTTAAAA
1 -TTTTTAAAA
53122708 TTTTTAAAA
1 TTTTTAAAA
53122717 TTTTTAAAA
1 TTTTTAAAA
53122726 T
1 T
53122727 AAAAATGGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 25 0.57
10 6 0.14
11 8 0.18
12 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:53124090 original size:20 final size:20
Alignment explanation
Indices: 53124054--53124092 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
53124044 AAATTTTTAA
*
53124054 AAATATATTTATAATATAAT
1 AAATATATTAATAATATAAT
53124074 AAATATA-TAATACATATAA
1 AAATATATTAATA-ATATAA
53124093 ATTTAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATATTAATAATATAAT
Found at i:53130521 original size:25 final size:25
Alignment explanation
Indices: 53130492--53130539 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
53130482 TTTGCTATTC
*
53130492 ATATACACGCATATTTTTATATACA
1 ATATACACGCATATTTTAATATACA
***
53130517 ATATATGTGCATATTTTAATATA
1 ATATACACGCATATTTTAATATA
53130540 TACTTTTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (25 bp):
ATATACACGCATATTTTAATATACA
Found at i:53131815 original size:16 final size:16
Alignment explanation
Indices: 53131794--53131863 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
53131784 TTGATTTGCT
53131794 ATTACACCTCTAATT-C
1 ATTACACCTCT-ATTCC
53131810 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
53131826 ATTACGCCTTTATTCC
1 ATTACACCTCTATTCC
**
53131842 ATTATGCCTCTATTCC
1 ATTACACCTCTATTCC
*
53131858 AATACA
1 ATTACA
53131864 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
15 3 0.07
16 43 0.93
ACGTcount: A:0.27, C:0.31, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:53142452 original size:1 final size:1
Alignment explanation
Indices: 53142446--53142476 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
53142436 GAAGAAAGGC
53142446 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
53142477 CACCCCAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:53168425 original size:3 final size:3
Alignment explanation
Indices: 53168417--53168451 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
53168407 AAAGAACATG
53168417 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
53168452 CACAAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:53173128 original size:24 final size:24
Alignment explanation
Indices: 53173101--53173146 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
53173091 AAATCAAAAC
53173101 ATTTTTTAAAATT-TAAAAAAATAT
1 ATTTTTT-AAATTATAAAAAAATAT
53173125 ATTTTTTAAATTATAAAAAAAT
1 ATTTTTTAAATTATAAAAAAAT
53173147 TAAAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTTTTAAATTATAAAAAAATAT
Found at i:53179477 original size:19 final size:20
Alignment explanation
Indices: 53179450--53179491 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
53179440 ACTGATTCTC
*
53179450 AAAACCAAAAAAAAAAG-AG
1 AAAAACAAAAAAAAAAGAAG
*
53179469 AAAAACAAAAAGAAAAGAAG
1 AAAAACAAAAAAAAAAGAAG
53179489 AAA
1 AAA
53179492 GGTTTTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAGAAG
Found at i:53179479 original size:20 final size:22
Alignment explanation
Indices: 53179450--53179489 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
53179440 ACTGATTCTC
*
53179450 AAAACCAAAA-AAAA-AAGAGA
1 AAAACAAAAAGAAAAGAAGAGA
53179470 AAAACAAAAAGAAAAGAAGA
1 AAAACAAAAAGAAAAGAAGA
53179490 AAGGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (22 bp):
AAAACAAAAAGAAAAGAAGAGA
Found at i:53194271 original size:30 final size:28
Alignment explanation
Indices: 53194237--53194314 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 28
53194227 ATTAATAACG
53194237 ATAAAATTATATATTATTCTGTTAAAAATA
1 ATAAAATTATA-ATTATTCT-TTAAAAATA
*
53194267 ATAAAGATT-TAACTTAATTCTTTAAAAATT
1 ATAAA-ATTATAA-TT-ATTCTTTAAAAATA
*
53194297 ATAAAAATATAAATTATT
1 ATAAAATTAT-AATTATT
53194315 AAATCGTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
29 6 0.15
30 25 0.61
31 10 0.24
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (28 bp):
ATAAAATTATAATTATTCTTTAAAAATA
Found at i:53197818 original size:21 final size:22
Alignment explanation
Indices: 53197785--53197829 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
53197775 TTTGTTAAAG
* *
53197785 AAAAATATAAAAGAACAAGTTA
1 AAAAACATAAAAGAACAAATTA
*
53197807 AAAAACAT-AAAGAAGAAATTA
1 AAAAACATAAAAGAACAAATTA
53197828 AA
1 AA
53197830 TTGCTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (22 bp):
AAAAACATAAAAGAACAAATTA
Found at i:53208748 original size:31 final size:31
Alignment explanation
Indices: 53208694--53208752 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
53208684 AAGTTTAGAG
* * * *
53208694 ACCAAAATAGACTTGATTGCCAAGTTCAAAT
1 ACCAAAATAGACATAACTACCAAGTTCAAAT
53208725 ACCAAAATAGACATAACTACCAAGTTCA
1 ACCAAAATAGACATAACTACCAAGTTCA
53208753 GGACCAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (31 bp):
ACCAAAATAGACATAACTACCAAGTTCAAAT
Found at i:53223777 original size:19 final size:20
Alignment explanation
Indices: 53223747--53223784 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
53223737 TAATTTCATC
53223747 TTGAATTTTAATATTTTTAT
1 TTGAATTTTAATATTTTTAT
*
53223767 TTGAA-TTTAATTTTTTTA
1 TTGAATTTTAATATTTTTA
53223785 AAAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTGAATTTTAATATTTTTAT
Found at i:53241901 original size:18 final size:18
Alignment explanation
Indices: 53241880--53241926 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
53241870 CGGAGAAGGT
*
53241880 GGTGGTGTTGGAAATGGA
1 GGTGGTGGTGGAAATGGA
* **
53241898 GGTGCTGGTGGGCATGGA
1 GGTGGTGGTGGAAATGGA
53241916 GGTGGTGGTGG
1 GGTGGTGGTGG
53241927 TAGTGGTGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.04, G:0.57, T:0.26
Consensus pattern (18 bp):
GGTGGTGGTGGAAATGGA
Found at i:53242074 original size:24 final size:24
Alignment explanation
Indices: 53242024--53242076 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
53242014 AAATGGAGGA
* * *
53242024 GGTGGTGGAGGTGGAGGTAAGGGT
1 GGTGGCGGAGGCGGAGGTAAGGCT
53242048 GGTGGCGGAGGCGGAGGT-AGTGCT
1 GGTGGCGGAGGCGGAGGTAAG-GCT
53242072 GGTGG
1 GGTGG
53242077 AGCTGGAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.13, C:0.06, G:0.62, T:0.19
Consensus pattern (24 bp):
GGTGGCGGAGGCGGAGGTAAGGCT
Found at i:53242122 original size:126 final size:124
Alignment explanation
Indices: 53241911--53242359 Score: 378
Period size: 126 Copynumber: 3.6 Consensus size: 124
53241901 GCTGGTGGGC
* * * ***
53241911 ATGGAGGTGGTGGTGGTAGTGGTGGAGGCGGAGGTAGTGCAGGTGGAGCTTCTGGATATGGAAGT
1 ATGGAGGTGGAGGAGGTGGTGGTGGAGGCGGAGGTAGTGCAGGTGGAGCTGGAGGATATGGAAGT
* *
53241976 GG-AGT-----TGGTGAAGGAGGTGGAGCTGGTAGTGGAGCTGGAAATGGAGGAGGTGG
66 GGAAGTGGAAGTGGAGAAGGAGGTGGAGCTGGTAGCGGAGCTGGAAATGGAGGAGGTGG
* *
53242029 -TGGAGGTGGAGGTAAGGGTGGTGGCGGAGGCGGAGGTAGTGCTGGTGGAGCTGGAGGATATGGA
1 ATGGAGGTGGAGG--A-GGTGGTGGTGGAGGCGGAGGTAGTGCAGGTGGAGCTGGAGGATATGGA
* * * *
53242093 AGTGGAAGTGGAAGTGGAGAAGGTGGTGGAGCTGGTAGCGGAGCTGGTAATGGTGGTGGTGG
63 AGTGGAAGTGGAAGTGGAGAAGGAGGTGGAGCTGGTAGCGGAGCTGGAAATGGAGGAGGTGG
* * * * * * * *
53242155 ACATGGAGGTGGTGGAGGTGGTGGTAGTGGTGGTGGTGGTGGAGGCGGAGCTGGAGGATATGGAA
1 --ATGGAGGTGGAGGAGGTGGTGGTGGAGGCGGAGGTAGTGCAGGTGGAGCTGGAGGATATGGAA
* * * * * ** *
53242220 GTGGAAGTGGAAGTGGA-AGTGGAAGTGGAAG-TGGT-GAAGGTGGTGGAGCTGGTAAGGGTGGT
64 GTGGAAGTGGAAGTGGAGA-AGGAGGTGG-AGCTGGTAG-CGGAGCTGGAAATGG--A-GGAGGT
53242282 GG
123 GG
* * * * * * *
53242284 ACATGGAGGTGGTGGAGGTGGTGGTAGCGGTGGTGGTGGTGGAGGTGGAGCTGGAGGATATGGAA
1 --ATGGAGGTGGAGGAGGTGGTGGTGGAGGCGGAGGTAGTGCAGGTGGAGCTGGAGGATATGGAA
53242349 GTGGAAGTGGA
64 GTGGAAGTGGA
53242360 GGAGGAAGTG
Statistics
Matches: 277, Mismatches: 36, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
117 11 0.04
120 47 0.17
121 3 0.01
125 2 0.01
126 118 0.43
127 3 0.01
129 93 0.34
ACGTcount: A:0.20, C:0.04, G:0.54, T:0.21
Consensus pattern (124 bp):
ATGGAGGTGGAGGAGGTGGTGGTGGAGGCGGAGGTAGTGCAGGTGGAGCTGGAGGATATGGAAGT
GGAAGTGGAAGTGGAGAAGGAGGTGGAGCTGGTAGCGGAGCTGGAAATGGAGGAGGTGG
Found at i:53242151 original size:3 final size:3
Alignment explanation
Indices: 53242143--53242196 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
53242133 GAGCTGGTAA
*** * * *
53242143 TGG TGG TGG TGG ACA TGG AGG TGG TGG AGG TGG TGG TAG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
53242191 TGG TGG
1 TGG TGG
53242197 AGGCGGAGCT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.09, C:0.02, G:0.61, T:0.28
Consensus pattern (3 bp):
TGG
Found at i:53242224 original size:6 final size:6
Alignment explanation
Indices: 53242215--53242253 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
53242205 CTGGAGGATA
53242215 TGGAAG TGGAAG TGGAAG TGGAAG TGGAAG TGGAAG TGG
1 TGGAAG TGGAAG TGGAAG TGGAAG TGGAAG TGGAAG TGG
53242254 TGAAGGTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (6 bp):
TGGAAG
Found at i:53242265 original size:18 final size:19
Alignment explanation
Indices: 53242244--53242284 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
53242234 GGAAGTGGAA
53242244 GTGGAAG-TGGTGAA-GGTG
1 GTGGAAGCTGGT-AAGGGTG
53242262 GTGG-AGCTGGTAAGGGTG
1 GTGGAAGCTGGTAAGGGTG
53242280 GTGGA
1 GTGGA
53242285 CATGGAGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.20, C:0.02, G:0.56, T:0.22
Consensus pattern (19 bp):
GTGGAAGCTGGTAAGGGTG
Found at i:53242299 original size:9 final size:9
Alignment explanation
Indices: 53242287--53242331 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
53242277 GTGGTGGACA
53242287 TGGAGGTGG
1 TGGAGGTGG
53242296 TGGAGGTGG
1 TGGAGGTGG
*
53242305 TGGTA-GCGG
1 TGG-AGGTGG
*
53242314 TGGTGGTGG
1 TGGAGGTGG
53242323 TGGAGGTGG
1 TGGAGGTGG
53242332 AGCTGGAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 29 0.97
10 1 0.03
ACGTcount: A:0.09, C:0.02, G:0.64, T:0.24
Consensus pattern (9 bp):
TGGAGGTGG
Found at i:53242406 original size:12 final size:12
Alignment explanation
Indices: 53242391--53242430 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
53242381 GGTTCTGGCA
53242391 GTGGTGGTAGCG
1 GTGGTGGTAGCG
* **
53242403 GTGGCGGCGGCG
1 GTGGTGGTAGCG
53242415 GTGGTGGTAGCG
1 GTGGTGGTAGCG
53242427 GTGG
1 GTGG
53242431 CGGCGGTGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.05, C:0.12, G:0.62, T:0.20
Consensus pattern (12 bp):
GTGGTGGTAGCG
Found at i:53242420 original size:24 final size:24
Alignment explanation
Indices: 53242391--53242446 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
53242381 GGTTCTGGCA
53242391 GTGGTGGTAGCGGTGGCGGCGGCG
1 GTGGTGGTAGCGGTGGCGGCGGCG
*
53242415 GTGGTGGTAGCGGTGGCGGCGGTG
1 GTGGTGGTAGCGGTGGCGGCGGCG
*
53242439 GTAGTGGT
1 GTGGTGGT
53242447 GGAGGAGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.12, G:0.61, T:0.21
Consensus pattern (24 bp):
GTGGTGGTAGCGGTGGCGGCGGCG
Found at i:53242432 original size:18 final size:18
Alignment explanation
Indices: 53242406--53242448 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
53242396 GGTAGCGGTG
* *
53242406 GCGGCGGCGGTGGTGGTA
1 GCGGTGGCGGCGGTGGTA
53242424 GCGGTGGCGGCGGTGGTA
1 GCGGTGGCGGCGGTGGTA
*
53242442 GTGGTGG
1 GCGGTGG
53242449 AGGAGCACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.14, G:0.63, T:0.19
Consensus pattern (18 bp):
GCGGTGGCGGCGGTGGTA
Found at i:53254043 original size:34 final size:35
Alignment explanation
Indices: 53253999--53254065 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53253989 CAGTAAAATA
*
53253999 TTTTCCGTAAAATGATTTA-GGGAAAATGTTTTGC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTGC
* *
53254033 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
53254066 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTGC
Found at i:53259665 original size:10 final size:11
Alignment explanation
Indices: 53259647--53259673 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
53259637 GGGATCTATC
53259647 AGAAAAAAAAA
1 AGAAAAAAAAA
53259658 AGAAAAAAAAA
1 AGAAAAAAAAA
53259669 AGAAA
1 AGAAA
53259674 GAAACAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:53270883 original size:68 final size:68
Alignment explanation
Indices: 53270800--53270938 Score: 278
Period size: 68 Copynumber: 2.0 Consensus size: 68
53270790 ATAAACACAA
53270800 AGCAGAACTGGTATTATTTATAGATGAAATTTAAATGAAATGAAAGACAAAAGGCAAATGAATAA
1 AGCAGAACTGGTATTATTTATAGATGAAATTTAAATGAAATGAAAGACAAAAGGCAAATGAATAA
53270865 ATT
66 ATT
53270868 AGCAGAACTGGTATTATTTATAGATGAAATTTAAATGAAATGAAAGACAAAAGGCAAATGAATAA
1 AGCAGAACTGGTATTATTTATAGATGAAATTTAAATGAAATGAAAGACAAAAGGCAAATGAATAA
53270933 ATT
66 ATT
53270936 AGC
1 AGC
53270939 TGCTGAAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (68 bp):
AGCAGAACTGGTATTATTTATAGATGAAATTTAAATGAAATGAAAGACAAAAGGCAAATGAATAA
ATT
Found at i:53293829 original size:7 final size:7
Alignment explanation
Indices: 53293817--53293842 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
53293807 ATCAAACATT
53293817 TATTCTA
1 TATTCTA
53293824 TATTCTA
1 TATTCTA
53293831 TATTCTA
1 TATTCTA
53293838 TATTC
1 TATTC
53293843 AACCCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTCTA
Found at i:53296008 original size:29 final size:29
Alignment explanation
Indices: 53295975--53296104 Score: 92
Period size: 29 Copynumber: 4.5 Consensus size: 29
53295965 AAAATCAAAG
53295975 AAATATATAAAAATACATAAATATTTTAA
1 AAATATATAAAAATACATAAATATTTTAA
* * *
53296004 AAATATAT-AAAATAAAATAAAAAGATTGTTGA
1 AAATATATAAAAAT-ACAT--AAATATT-TTAA
* * * * *
53296036 CAAGAAATAATAAT--AT-AAT-TTTAAA
1 AAATATATAAAAATACATAAATATTTTAA
53296061 AAATATATAAAAATACATAAATATTTTCAA
1 AAATATATAAAAATACATAAATATTTT-AA
*
53296091 AAA-ATATAATAATA
1 AAATATATAAAAATA
53296105 AATTTAAATT
Statistics
Matches: 75, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
25 12 0.16
26 2 0.03
27 4 0.05
28 8 0.11
29 24 0.32
30 7 0.09
31 6 0.08
32 8 0.11
33 4 0.05
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
AAATATATAAAAATACATAAATATTTTAA
Found at i:53296093 original size:31 final size:33
Alignment explanation
Indices: 53296040--53296107 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 33
53296030 TGTTGACAAG
53296040 AAATAATAATATAATTTTAAAAAATAT-ATAA-
1 AAATAATAATATAATTTTAAAAAATATAATAAT
53296071 AAATACATAA-AT-ATTTTCAAAAAATATAATAAT
1 AAATA-ATAATATAATTTT-AAAAAATATAATAAT
53296104 AAAT
1 AAAT
53296108 TTAAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
30 5 0.15
31 16 0.48
32 8 0.24
33 4 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (33 bp):
AAATAATAATATAATTTTAAAAAATATAATAAT
Found at i:53296902 original size:2 final size:2
Alignment explanation
Indices: 53296895--53296925 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
53296885 AAACCAAACA
*
53296895 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53296926 CCACATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:53297971 original size:51 final size:51
Alignment explanation
Indices: 53297913--53298133 Score: 193
Period size: 51 Copynumber: 4.4 Consensus size: 51
53297903 TTTAGGGGTT
* * *
53297913 TTCACATAGTACCACCCATGTTACTATTATCATTCGATACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATCATTCGATACACATAGTAGCC
* * * * * *
53297964 TTCACATAGTACTACACATGTGATCAAGTT-T--TACGGTTCCACGTATTAG-C
1 TTCACATAGTACTACACATGTGA-CTA-TTATCATTC-GATACACATAGTAGCC
* * * * *
53298014 TTCACATAGTACTACACACGTGACTA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATC-ATTCGATACACATAGTAGCC
* * *
53298065 TTCACTTAGTACTACACATGTGACCATTATTTATT-GATACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTA-TCATTCGATACACATAGTAGCC
*
53298116 TTCACTTAGTACTACACA
1 TTCACATAGTACTACACA
53298134 CGTGTTCATC
Statistics
Matches: 134, Mismatches: 26, Indels: 20
0.74 0.14 0.11
Matches are distributed among these distances:
49 2 0.01
50 35 0.26
51 89 0.66
52 6 0.04
53 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
TTCACATAGTACTACACATGTGACTATTATCATTCGATACACATAGTAGCC
Found at i:53298026 original size:50 final size:51
Alignment explanation
Indices: 53297945--53298133 Score: 199
Period size: 51 Copynumber: 3.7 Consensus size: 51
53297935 ACTATTATCA
* *
53297945 TTCGATACACATAGTAGCCTTCACATAGTACTACACATGTGA-TCAAG-TT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACATGTGACTAAAGCTT
* * * *
53297994 TTACGGTTCCACGTATTAG-CTTCACATAGTACTACACACGTGACTAAAGCTT
1 TT-CGG-TACACATAGTAGCCTTCACATAGTACTACACATGTGACTAAAGCTT
* * *
53298046 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACATGTGACTA-AAGCTT
* * *
53298096 TATTGATACACATAGTAGCCTTCACTTAGTACTACACA
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACA
53298134 CGTGTTCATC
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
49 2 0.02
50 37 0.31
51 74 0.63
52 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
TTCGGTACACATAGTAGCCTTCACATAGTACTACACATGTGACTAAAGCTT
Found at i:53298083 original size:26 final size:26
Alignment explanation
Indices: 53298051--53298133 Score: 93
Period size: 26 Copynumber: 3.2 Consensus size: 26
53298041 AGCTTTTCGG
53298051 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
53298077 TACACAT-GT-GACCATT-ATTTATTGA-
1 TACACATAGTAG-CC-TTCACTTAGT-AC
53298102 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
53298128 TACACA
1 TACACA
53298134 CGTGTTCATC
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
24 1 0.02
25 19 0.41
26 25 0.54
27 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:53298652 original size:35 final size:35
Alignment explanation
Indices: 53298567--53298637 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
53298557 CTCAAAAATG
*
53298567 CAAAGAACATTTAAAATGGGGCTAGGATGCACTTA
1 CAAAGAACATTAAAAATGGGGCTAGGATGCACTTA
53298602 CAAAGAACATTAAAAATGGGGCTAGGATGCACTTA
1 CAAAGAACATTAAAAATGGGGCTAGGATGCACTTA
53298637 C
1 C
53298638 TATGAGCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (35 bp):
CAAAGAACATTAAAAATGGGGCTAGGATGCACTTA
Found at i:53326009 original size:4 final size:4
Alignment explanation
Indices: 53326000--53326026 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
53325990 TGGCAAAACT
53326000 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
53326027 CTTAACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:53326070 original size:31 final size:31
Alignment explanation
Indices: 53326035--53326096 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
53326025 AACTTAACAA
*
53326035 CTCAACGAC-TTACATAAAAATTTTTAAATAG
1 CTCAACGACTTTA-ATAAAAACTTTTAAATAG
* * *
53326066 CTCAATGTCTTTAATGAAAACTTTTAAATAG
1 CTCAACGACTTTAATAAAAACTTTTAAATAG
53326097 TTTAGTGACC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (31 bp):
CTCAACGACTTTAATAAAAACTTTTAAATAG
Found at i:53340801 original size:37 final size:36
Alignment explanation
Indices: 53340760--53340830 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
53340750 TTAAAATTTT
*
53340760 ATAAAAAATTATTAAAATTCTATAAAAATAATAAACA
1 ATAAAAAATTAATAAAATT-TATAAAAATAATAAACA
* * *
53340797 ATAAAAAGTTAATAAAATTTATTAAAATCATAAA
1 ATAAAAAATTAATAAAATTTATAAAAATAATAAA
53340831 AACTTGAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (36 bp):
ATAAAAAATTAATAAAATTTATAAAAATAATAAACA
Found at i:53349012 original size:25 final size:25
Alignment explanation
Indices: 53348946--53349004 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
53348936 AATGGCTCTC
*
53348946 TTAAGCTTTCCGATATACAGCTCGA
1 TTAAGCTTCCCGATATACAGCTCGA
*
53348971 TTGAGCTTCCCGATATACAGCTCGA
1 TTAAGCTTCCCGATATACAGCTCGA
53348996 TTAAGCTTC
1 TTAAGCTTC
53349005 TTGTTATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (25 bp):
TTAAGCTTCCCGATATACAGCTCGA
Found at i:53370560 original size:18 final size:16
Alignment explanation
Indices: 53370518--53370571 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
53370508 AAAAATTCAT
* *
53370518 AAAAATATATAATCT-
1 AAAAAAATATAATTTA
*
53370533 AAAAACATATAAATTATA
1 AAAAAAATAT-AATT-TA
53370551 AAAAAAATATAATTTA
1 AAAAAAATATAATTTA
53370567 AAAAA
1 AAAAA
53370572 TGTAAAACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 9 0.27
16 10 0.30
17 5 0.15
18 9 0.27
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAAATATAATTTA
Found at i:53370564 original size:17 final size:17
Alignment explanation
Indices: 53370518--53370571 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
53370508 AAAAATTCAT
*
53370518 AAAAATATATAATCT-AA
1 AAAAATATA-AATTTAAA
*
53370535 AAACATATAAATTATAAA
1 AAAAATATAAATT-TAAA
53370553 AAAAATAT-AATTTAAA
1 AAAAATATAAATTTAAA
53370569 AAA
1 AAA
53370572 TGTAAAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.31
17 13 0.41
18 9 0.28
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATATAAATTTAAA
Found at i:53370571 original size:15 final size:15
Alignment explanation
Indices: 53370517--53370571 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
53370507 TAAAAATTCA
* *
53370517 TAAAAATATATAATC
1 TAAAAAAATATAATT
*
53370532 TAAAAACATATAAATT
1 TAAAAAAATAT-AATT
53370548 ATAAAAAAAATATAATT
1 -T-AAAAAAATATAATT
53370565 TAAAAAA
1 TAAAAAA
53370572 TGTAAAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 16 0.47
16 4 0.12
17 5 0.15
18 9 0.26
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAAAATATAATT
Found at i:53373418 original size:986 final size:986
Alignment explanation
Indices: 53371507--53373448 Score: 3875
Period size: 986 Copynumber: 2.0 Consensus size: 986
53371497 ACGTACTTTT
53371507 ATTTTCAAATAAATTTATTACAAGTTTAATACATTATTAGTTTTCTTAATGTAGTATTTATAAAA
1 ATTTTCAAATAAATTTATTACAAGTTTAATACATTATTAGTTTTCTTAATGTAGTATTTATAAAA
53371572 GTTATATATATAAATAATTATATTTATTTTATATTTTACCATTTATTTGGTGAAAATATATAATT
66 GTTATATATATAAATAATTATATTTATTTTATATTTTACCATTTATTTGGTGAAAATATATAATT
53371637 GATTAACAATATTATGATGATTAATAAATAAAATTGTAAATTTATTTAATTTTGTGTTTAATTTT
131 GATTAACAATATTATGATGATTAATAAATAAAATTGTAAATTTATTTAATTTTGTGTTTAATTTT
53371702 TTAGAAATGTGTGAAAATTTTTAAAGTTTTTTATTATAAATTTTCATCAAACTAACCATAAAATA
196 TTAGAAATGTGTGAAAATTTTTAAAGTTTTTTATTATAAATTTTCATCAAACTAACCATAAAATA
53371767 TGAATTAAACATTAAAAATTTTATAACTTTTACCAAAAACAGATATCGTGTTGGATAAAGAAAAA
261 TGAATTAAACATTAAAAATTTTATAACTTTTACCAAAAACAGATATCGTGTTGGATAAAGAAAAA
53371832 CACATATTTCGTGCTGGATTGATTATTTATTTGTGTTAAATTATTAGGGTTGATTATTTATATAT
326 CACATATTTCGTGCTGGATTGATTATTTATTTGTGTTAAATTATTAGGGTTGATTATTTATATAT
53371897 GTTATTTTGTAGATTTAAAATTTAAAGATTAAAATATGCTCTAAGCAAGGTTTTCAGAATTGGAT
391 GTTATTTTGTAGATTTAAAATTTAAAGATTAAAATATGCTCTAAGCAAGGTTTTCAGAATTGGAT
53371962 TGATGGTCGAAATGGTCATGTCACTGGTTTGTACGATTCAATTAAATAAATCATTAAAAAAAACC
456 TGATGGTCGAAATGGTCATGTCACTGGTTTGTACGATTCAATTAAATAAATCATTAAAAAAAACC
53372027 AACTCAATCCATTTTTATATTGGTTCAATCAGTTCGTACGGCTCAACTAATCTGATTCCTCTCTC
521 AACTCAATCCATTTTTATATTGGTTCAATCAGTTCGTACGGCTCAACTAATCTGATTCCTCTCTC
53372092 CAAATCGATACCCAACCAATCCAATCGAGTTCAAACAACCATGGCTCTAAATCTCTACACCTTAT
586 CAAATCGATACCCAACCAATCCAATCGAGTTCAAACAACCATGGCTCTAAATCTCTACACCTTAT
53372157 ACAATTGAAACTTAGTCCTCCTACTTCTATATTCAAGAATTTAATCCCTCTAATTTTTAGATTTA
651 ACAATTGAAACTTAGTCCTCCTACTTCTATATTCAAGAATTTAATCCCTCTAATTTTTAGATTTA
53372222 AAAATCTGCTTTCAAATTATTTATAACCACATAACATTTTAATTATATTAACTATTTGGATTAAT
716 AAAATCTGCTTTCAAATTATTTATAACCACATAACATTTTAATTATATTAACTATTTGGATTAAT
53372287 CAACAACACCATAAAAATGTAAAGATCAAATTATGTAAAAATTTAAAGTATAAGGATTAAATCTT
781 CAACAACACCATAAAAATGTAAAGATCAAATTATGTAAAAATTTAAAGTATAAGGATTAAATCTT
53372352 AATTTTAAATATTTTAGAAAAACCAAAAATGAAAATATTATAAAATAAATAAACATTGAATGTAA
846 AATTTTAAATATTTTAGAAAAACCAAAAATGAAAATATTATAAAATAAATAAACATTGAATGTAA
*
53372417 CAATGAGATATTTTTTAAGACTTATTTTCTAAAAAAAAAGAAAAAAGGAGAAGAAGAGACATTTC
911 CAATGAGATATTTTTTAAGACTTATTTTCTAAAAAAAAAAAAAAAAGGAGAAGAAGAGACATTTC
53372482 CTTTTTGTACC
976 CTTTTTGTACC
53372493 ATTTTCAAATAAATTTATTACAAGTTTAATACATTATTAGTTTTCTTAATGTAGTATTTATAAAA
1 ATTTTCAAATAAATTTATTACAAGTTTAATACATTATTAGTTTTCTTAATGTAGTATTTATAAAA
53372558 GTTATATATATAAATAATTATATTTATTTTATATTTTACCATTTATTTGGTGAAAATATATAATT
66 GTTATATATATAAATAATTATATTTATTTTATATTTTACCATTTATTTGGTGAAAATATATAATT
53372623 GATTAACAATATTATGATGATTAATAAATAAAATTGTAAATTTATTTAATTTTGTGTTTAATTTT
131 GATTAACAATATTATGATGATTAATAAATAAAATTGTAAATTTATTTAATTTTGTGTTTAATTTT
53372688 TTAGAAATGTGTGAAAATTTTTAAAGTTTTTTATTATAAATTTTCATCAAACTAACCATAAAATA
196 TTAGAAATGTGTGAAAATTTTTAAAGTTTTTTATTATAAATTTTCATCAAACTAACCATAAAATA
53372753 TGAATTAAACATTAAAAATTTTATAACTTTTACCAAAAACAGATATCGTGTTGGATAAAGAAAAA
261 TGAATTAAACATTAAAAATTTTATAACTTTTACCAAAAACAGATATCGTGTTGGATAAAGAAAAA
53372818 CACATATTTCGTGCTGGATTGATTATTTATTTGTGTTAAATTATTAGGGTTGATTATTTATATAT
326 CACATATTTCGTGCTGGATTGATTATTTATTTGTGTTAAATTATTAGGGTTGATTATTTATATAT
53372883 GTTATTTTGTAGATTTAAAATTTAAAGATTAAAATATGCTCTAAGCAAGGTTTTCAGAATTGGAT
391 GTTATTTTGTAGATTTAAAATTTAAAGATTAAAATATGCTCTAAGCAAGGTTTTCAGAATTGGAT
53372948 TGATGGTCGAAATGGTCATGTCACTGGTTTGTACGATTCAATTAAATAAATCATTAAAAAAAACC
456 TGATGGTCGAAATGGTCATGTCACTGGTTTGTACGATTCAATTAAATAAATCATTAAAAAAAACC
53373013 AACTCAATCCATTTTTATATTGGTTCAATCAGTTCGTACGGCTCAACTAATCTGATTCCTCTCTC
521 AACTCAATCCATTTTTATATTGGTTCAATCAGTTCGTACGGCTCAACTAATCTGATTCCTCTCTC
53373078 CAAATCGATACCCAACCAATCCAATCGAGTTCAAACAACCATGGCTCTAAATCTCTACACCTTAT
586 CAAATCGATACCCAACCAATCCAATCGAGTTCAAACAACCATGGCTCTAAATCTCTACACCTTAT
53373143 ACAATTGAAACTTAGTCCTCCTACTTCTATATTCAAGAATTTAATCCCTCTAATTTTTAGATTTA
651 ACAATTGAAACTTAGTCCTCCTACTTCTATATTCAAGAATTTAATCCCTCTAATTTTTAGATTTA
53373208 AAAATCTGCTTTCAAATTATTTATAACCACATAACATTTTAATTATATTAACTATTTGGATTAAT
716 AAAATCTGCTTTCAAATTATTTATAACCACATAACATTTTAATTATATTAACTATTTGGATTAAT
53373273 CAACAACACCATAAAAATGTAAAGATCAAATTATGTAAAAATTTAAAGTATAAGGATTAAATCTT
781 CAACAACACCATAAAAATGTAAAGATCAAATTATGTAAAAATTTAAAGTATAAGGATTAAATCTT
53373338 AATTTTAAATATTTTAGAAAAACCAAAAATGAAAATATTATAAAATAAATAAACATTGAATGTAA
846 AATTTTAAATATTTTAGAAAAACCAAAAATGAAAATATTATAAAATAAATAAACATTGAATGTAA
53373403 CAATGAGATATTTTTTAAGACTTATTTTCTAAAAAAAAAAAAAAAA
911 CAATGAGATATTTTTTAAGACTTATTTTCTAAAAAAAAAAAAAAAA
53373449 AAGGAAAGAA
Statistics
Matches: 955, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
986 955 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (986 bp):
ATTTTCAAATAAATTTATTACAAGTTTAATACATTATTAGTTTTCTTAATGTAGTATTTATAAAA
GTTATATATATAAATAATTATATTTATTTTATATTTTACCATTTATTTGGTGAAAATATATAATT
GATTAACAATATTATGATGATTAATAAATAAAATTGTAAATTTATTTAATTTTGTGTTTAATTTT
TTAGAAATGTGTGAAAATTTTTAAAGTTTTTTATTATAAATTTTCATCAAACTAACCATAAAATA
TGAATTAAACATTAAAAATTTTATAACTTTTACCAAAAACAGATATCGTGTTGGATAAAGAAAAA
CACATATTTCGTGCTGGATTGATTATTTATTTGTGTTAAATTATTAGGGTTGATTATTTATATAT
GTTATTTTGTAGATTTAAAATTTAAAGATTAAAATATGCTCTAAGCAAGGTTTTCAGAATTGGAT
TGATGGTCGAAATGGTCATGTCACTGGTTTGTACGATTCAATTAAATAAATCATTAAAAAAAACC
AACTCAATCCATTTTTATATTGGTTCAATCAGTTCGTACGGCTCAACTAATCTGATTCCTCTCTC
CAAATCGATACCCAACCAATCCAATCGAGTTCAAACAACCATGGCTCTAAATCTCTACACCTTAT
ACAATTGAAACTTAGTCCTCCTACTTCTATATTCAAGAATTTAATCCCTCTAATTTTTAGATTTA
AAAATCTGCTTTCAAATTATTTATAACCACATAACATTTTAATTATATTAACTATTTGGATTAAT
CAACAACACCATAAAAATGTAAAGATCAAATTATGTAAAAATTTAAAGTATAAGGATTAAATCTT
AATTTTAAATATTTTAGAAAAACCAAAAATGAAAATATTATAAAATAAATAAACATTGAATGTAA
CAATGAGATATTTTTTAAGACTTATTTTCTAAAAAAAAAAAAAAAAGGAGAAGAAGAGACATTTC
CTTTTTGTACC
Found at i:53373480 original size:82 final size:83
Alignment explanation
Indices: 53373376--53373540 Score: 289
Period size: 82 Copynumber: 2.0 Consensus size: 83
53373366 ATGAAAATAT
*
53373376 TATAAAATAAATAAACATTGAATGTAACAATGAGATATTTTTTAAGACTTATTTTCTAAAAAAAA
1 TATAAAATAAATAAACATTGAATGTAACAATGAGATATTTTTTAAAACTTATTTTCT-AAAAAAA
53373441 AAAAAAAAAAGGA-AAGAA
65 AAAAAAAAAAGGAGAAGAA
*
53373459 TATAAAAT-AATAAACATTGAATGTAACAATGAGATATTTTTTAAAACTTTTTTTCTAAAAAAAA
1 TATAAAATAAATAAACATTGAATGTAACAATGAGATATTTTTTAAAACTTATTTTCTAAAAAAAA
53373523 AAAAAAAAAGGAGAAGAA
66 AAAAAAAAAGGAGAAGAA
53373541 GAGACATTTC
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
81 20 0.25
82 51 0.65
83 8 0.10
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (83 bp):
TATAAAATAAATAAACATTGAATGTAACAATGAGATATTTTTTAAAACTTATTTTCTAAAAAAAA
AAAAAAAAAGGAGAAGAA
Found at i:53386744 original size:17 final size:18
Alignment explanation
Indices: 53386722--53386762 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
53386712 ATATTTTTTA
53386722 TTTTTAATCAAA-TATAC
1 TTTTTAATCAAAGTATAC
53386739 TTTTTAATCAAATGTATAC
1 TTTTTAATCAAA-GTATAC
53386758 TTTTT
1 TTTTT
53386763 TGGTGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 12 0.55
19 10 0.45
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTTAATCAAAGTATAC
Found at i:53403814 original size:13 final size:13
Alignment explanation
Indices: 53403796--53403823 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53403786 ACTAAAGCCC
53403796 AACAAGCATATTA
1 AACAAGCATATTA
53403809 AACAAGCATATTA
1 AACAAGCATATTA
53403822 AA
1 AA
53403824 ACCCAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AACAAGCATATTA
Done.