Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 62 of 133
Found at i:12656876 original size:19 final size:19
Alignment explanation
Indices: 12656852--12656908 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
12656842 AGTTTAATAG
*
12656852 CAATTTAAGATAATTCTTT
1 CAATTTAAGATAATTCTCT
12656871 CAATTTAAGATAATTCTCT
1 CAATTTAAGATAATTCTCT
12656890 CAATTTAAGATAATTCTCT
1 CAATTTAAGATAATTCTCT
12656909 TACTTCAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (19 bp):
CAATTTAAGATAATTCTCT
Found at i:12657369 original size:19 final size:18
Alignment explanation
Indices: 12657345--12657386 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
12657335 TTAGCATTTG
12657345 AAATAACAAATAAGAAAAT
1 AAATAACAAATAA-AAAAT
* *
12657364 AAATAATAAATAATAAAT
1 AAATAACAAATAAAAAAT
12657382 AAATA
1 AAATA
12657387 GATTAAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAACAAATAAAAAAT
Found at i:12659031 original size:55 final size:55
Alignment explanation
Indices: 12658862--12659160 Score: 185
Period size: 55 Copynumber: 5.4 Consensus size: 55
12658852 TCAAAAAATG
* * * * *
12658862 AAATGATCTGGACTAAGCCAAGATTGAATGACTGAGATTGAACCACATGTTAGGA
1 AAATGATCTGAACTGAGCCAAGATTGAATGATTGAGATTGAACCACAAGCTAGGA
* * *** *
12658917 AAGATGATCTGAACTGAGCCAAGATCGAATGATCGAGATTGAACTGTAAGTCT-GCA
1 AA-ATGATCTGAACTGAGCCAAGATTGAATGATTGAGATTGAACCACAAG-CTAGGA
* *** *
12658973 AAATGATCT-AGATTGAGTTGAGATTGAAAGATTGAGATTGAACCACAAGCTAGGA
1 AAATGATCTGA-ACTGAGCCAAGATTGAATGATTGAGATTGAACCACAAGCTAGGA
* * ** * * * ** * *
12659028 AAATGATTTGGACTGAGATAAGATCGGATGA-TCAGGACAGAATCACAAGTTAGGA
1 AAATGATCTGAACTGAGCCAAGATTGAATGATTGA-GATTGAACCACAAGCTAGGA
** * * ** * * * *
12659083 AAATGAAGTGGACTGAGCCAAGATTGGATGACCGAGATAGGACCACAAGTTA-AA
1 AAATGATCTGAACTGAGCCAAGATTGAATGATTGAGATTGAACCACAAGCTAGGA
12659137 AAATGATCT-AGACTGAGCCAAGAT
1 AAATGATCTGA-ACTGAGCCAAGAT
12659161 CAAATGACTA
Statistics
Matches: 187, Mismatches: 49, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
54 26 0.14
55 117 0.63
56 43 0.23
57 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (55 bp):
AAATGATCTGAACTGAGCCAAGATTGAATGATTGAGATTGAACCACAAGCTAGGA
Found at i:12659222 original size:55 final size:55
Alignment explanation
Indices: 12659023--12659399 Score: 269
Period size: 55 Copynumber: 6.8 Consensus size: 55
12659013 AACCACAAGC
* * ** * * * ** *
12659023 TAGGAAAATGATTTGGACTGAGATAAGATCGGATGATCAGGACAGAATCACAAGT
1 TAGGAAAATGATCTAGACTGAGCCAAGATCGAATGACCAGGACTGAGCCATAAGT
** * * * *
12659078 TAGGAAAATGAAGTGGACTGAGCCAAGATTGGATGACC-GAGA-T-AGGACCACAAGT
1 TAGGAAAATGATCTAGACTGAGCCAAGATCGAATGACCAG-GACTGA-G-CCATAAGT
* * * *
12659133 TA-AAAAATGATCTAGACTGAGCCAAGATCAAATGACTAGGACTGAGCCACAAGT
1 TAGGAAAATGATCTAGACTGAGCCAAGATCGAATGACCAGGACTGAGCCATAAGT
* * * * *
12659187 CAGGAAAATAATCTAGATTGAGCCAAAATCGAATGACC-GAGACTAAGCCATAAGT
1 TAGGAAAATGATCTAGACTGAGCCAAGATCGAATGACCAG-GACTGAGCCATAAGT
* * * ** * * *
12659242 CAAGAAAGATGATCTAAACTGAGCTGAGATCGAATGACCAAGATTGAGCTATAAGT
1 TAGGAAA-ATGATCTAGACTGAGCCAAGATCGAATGACCAGGACTGAGCCATAAGT
* * * * * *
12659298 TAAGAAAATGATCTGGACTGAGCTAAGATCGGATGACCAGAACTAAGCCATAAGT
1 TAGGAAAATGATCTAGACTGAGCCAAGATCGAATGACCAGGACTGAGCCATAAGT
* * * * *
12659353 TAGAAAAGATGATCTAGATTGAGTCAAAATTGAATGACCAGGACTGA
1 TAGGAAA-ATGATCTAGACTGAGCCAAGATCGAATGACCAGGACTGA
12659400 ACCACGAGTT
Statistics
Matches: 253, Mismatches: 58, Indels: 21
0.76 0.17 0.06
Matches are distributed among these distances:
53 1 0.00
54 40 0.16
55 138 0.55
56 74 0.29
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (55 bp):
TAGGAAAATGATCTAGACTGAGCCAAGATCGAATGACCAGGACTGAGCCATAAGT
Found at i:12659417 original size:111 final size:109
Alignment explanation
Indices: 12659038--12659438 Score: 360
Period size: 111 Copynumber: 3.6 Consensus size: 109
12659028 AAATGATTTG
* * * * * *
12659038 GACTGAGATAAGATCGGATGATCAGGACAGAATCACAAGTTAGGAAAATGAA-GTGGACTGAGCC
1 GACTGAG-CAAGATCGAATGACCAGGACTGAACCACAAGTTAGGAAAAT-AATCTGGACTGAGCC
* * *
12659102 AAGATTGGATGACCGAGA-TAGGACCACAAGTTAAAAA-ATGATCTA
64 AAGATCGGATGACCGAGACTAAG-CCATAAGTTAAAAAGATGATCTA
* * * * * *
12659147 GACTGAGCCAAGATCAAATGACTAGGACTGAGCCACAAGTCAGGAAAATAATCTAGATTGAGCCA
1 GACTGAG-CAAGATCGAATGACCAGGACTGAACCACAAGTTAGGAAAATAATCTGGACTGAGCCA
* * *
12659212 AAATCGAATGACCGAGACTAAGCCATAAGTCAAGAAAGATGATCTA
65 AGATCGGATGACCGAGACTAAGCCATAAGTTAA-AAAGATGATCTA
* * * * * * * * * *
12659258 AACTGAGCTGAGATCGAATGACCAAGATTGAGCTATAAGTTAAGAAAATGATCTGGACTGAGCTA
1 GACTGAGC-AAGATCGAATGACCAGGACTGAACCACAAGTTAGGAAAATAATCTGGACTGAGCCA
12659323 AGATCGGATGACC-AGAACTAAGCCATAAGTTAGAAAAGATGATCTA
65 AGATCGGATGACCGAG-ACTAAGCCATAAGTTA-AAAAGATGATCTA
* * * * * * * * *
12659369 GATTGAGTCAAAATTGAATGACCAGGACTGAACCACGAGTTTGTAAAATAATCTGTACTGAACCG
1 GACTGAG-CAAGATCGAATGACCAGGACTGAACCACAAGTTAGGAAAATAATCTGGACTGAGCCA
12659434 AGATC
65 AGATC
12659439 AAATTATTGG
Statistics
Matches: 229, Mismatches: 55, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
108 2 0.01
109 72 0.31
110 9 0.04
111 144 0.63
112 2 0.01
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (109 bp):
GACTGAGCAAGATCGAATGACCAGGACTGAACCACAAGTTAGGAAAATAATCTGGACTGAGCCAA
GATCGGATGACCGAGACTAAGCCATAAGTTAAAAAGATGATCTA
Found at i:12659582 original size:55 final size:54
Alignment explanation
Indices: 12659523--12659712 Score: 163
Period size: 55 Copynumber: 3.5 Consensus size: 54
12659513 GCAAGTTAGA
* * *
12659523 AAAATGATCTAGACTGAGCTAAGATTAGATGATGGGGATGAAACCATAAGTCAAG
1 AAAATGATCTGGACTGAGCCAAGATTAGATGAT-GGGATGAAACCACAAGTCAAG
* * * * *
12659578 AAAATGATATGGATTGAGCCAAGATAAAATGACTAGGATAGAAA-CACAAGTC-AG
1 AAAATGATCTGGACTGAGCCAAGATTAGATGA-TGGGAT-GAAACCACAAGTCAAG
* * * * * *
12659632 AAAAATGATCTTGATTGAGCTAAGATT-GAATGATTGGGATTG-AGCCACAAGTTAGG
1 -AAAATGATCTGGACTGAGCCAAGATTAG-ATGA-TGGGA-TGAAACCACAAGTCAAG
12659688 AAAATGATCTGGACTGAGCCAAGAT
1 AAAATGATCTGGACTGAGCCAAGAT
12659713 AGGATGAACG
Statistics
Matches: 107, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
54 3 0.03
55 97 0.91
56 7 0.07
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.23
Consensus pattern (54 bp):
AAAATGATCTGGACTGAGCCAAGATTAGATGATGGGATGAAACCACAAGTCAAG
Found at i:12659628 original size:110 final size:110
Alignment explanation
Indices: 12659514--12659713 Score: 278
Period size: 110 Copynumber: 1.8 Consensus size: 110
12659504 GACGAAATTG
* *
12659514 CAAGTTAGAAAAATGATCTAGACTGAGCTAAGATT-AGATGATGGGGA-TGAAACCATAAGTCAA
1 CAAGTCAGAAAAATGATCTAGACTGAGCTAAGATTGA-ATGATGGGGATTG-AACCACAAGTCAA
*
12659577 GAAAATGATATGGATTGAGCCAAGATAAAATGACTAGGATAGAAACA
64 GAAAATGATATGGACTGAGCCAAGATAAAATGACTAGGATAGAAACA
* * * * * *
12659624 CAAGTCAGAAAAATGATCTTGATTGAGCTAAGATTGAATGATTGGGATTGAGCCACAAGTTAGGA
1 CAAGTCAGAAAAATGATCTAGACTGAGCTAAGATTGAATGATGGGGATTGAACCACAAGTCAAGA
*
12659689 AAATGATCTGGACTGAGCCAAGATA
66 AAATGATATGGACTGAGCCAAGATA
12659714 GGATGAACGG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
110 75 0.96
111 3 0.04
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (110 bp):
CAAGTCAGAAAAATGATCTAGACTGAGCTAAGATTGAATGATGGGGATTGAACCACAAGTCAAGA
AAATGATATGGACTGAGCCAAGATAAAATGACTAGGATAGAAACA
Found at i:12659925 original size:15 final size:16
Alignment explanation
Indices: 12659907--12659955 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
12659897 TGATCATAGA
12659907 CACTAAGG-TCATATC
1 CACTAAGGTTCATATC
*
12659922 CACTATGGTTCATATC
1 CACTAAGGTTCATATC
*
12659938 ATTACTAAGGTTCATATC
1 --CACTAAGGTTCATATC
12659956 ATTAAAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.25
16 7 0.25
18 14 0.50
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (16 bp):
CACTAAGGTTCATATC
Found at i:12659949 original size:18 final size:18
Alignment explanation
Indices: 12659923--12659959 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
12659913 GGTCATATCC
*
12659923 ACTATGGTTCATATCATT
1 ACTAAGGTTCATATCATT
12659941 ACTAAGGTTCATATCATT
1 ACTAAGGTTCATATCATT
12659959 A
1 A
12659960 AAAGTAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (18 bp):
ACTAAGGTTCATATCATT
Found at i:12660796 original size:14 final size:14
Alignment explanation
Indices: 12660777--12660806 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12660767 CTAGAAAAAT
12660777 AAATAAGAGATTAG
1 AAATAAGAGATTAG
*
12660791 AAATAATAGATTAG
1 AAATAAGAGATTAG
12660805 AA
1 AA
12660807 TTTTGACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (14 bp):
AAATAAGAGATTAG
Found at i:12661602 original size:25 final size:26
Alignment explanation
Indices: 12661548--12661605 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
12661538 ATTTTTAGCC
*
12661548 TTCATTGCTGACTTCTATGTTAGGTA
1 TTCATTGCTGACCTCTATGTTAGGTA
12661574 TTCATTGCTGAACCT-TAT-TTAGGCT-
1 TTCATTGCTG-ACCTCTATGTTAGG-TA
12661599 TTCATTG
1 TTCATTG
12661606 TCGAACCCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 12 0.41
26 14 0.48
27 3 0.10
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (26 bp):
TTCATTGCTGACCTCTATGTTAGGTA
Found at i:12665338 original size:18 final size:18
Alignment explanation
Indices: 12665315--12665350 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12665305 TGTAATCTGT
*
12665315 GTAGTTGGTTATAATCTA
1 GTAGTTGATTATAATCTA
*
12665333 GTAGTTGATTGTAATCTA
1 GTAGTTGATTATAATCTA
12665351 TATATATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (18 bp):
GTAGTTGATTATAATCTA
Found at i:12667820 original size:52 final size:52
Alignment explanation
Indices: 12667763--12667866 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
12667753 TGGACAAGAA
* *
12667763 GACTTGCAAAAGAAGACTTCTAAGAGAAAAAAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAAGCAAGTTT
* * **
12667815 GACTTGTAGAAGAAGAATTCTAAGAGAAAAGGGATTCTTAATAAGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAAGCAAGTTT
12667867 ATATGCTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAAGCAAGTTT
Found at i:12668046 original size:53 final size:52
Alignment explanation
Indices: 12667987--12668099 Score: 138
Period size: 53 Copynumber: 2.2 Consensus size: 52
12667977 GTCTTTCTGA
* * * *
12667987 GTGTGTATGTTAGACTAGACCATAGGAGATTGAGAGAGTCCACATAGGTATAG
1 GTGTGTATGTTAGACTAGACCAGAGAAGAATAAGAGAGTCCACATAGGTAT-G
* * * *
12668040 GTGTGTATGTTAGAGTGGACTAGAGAAGAATAAGATAGTCCACATAGGTATG
1 GTGTGTATGTTAGACTAGACCAGAGAAGAATAAGAGAGTCCACATAGGTATG
12668092 G-GTGTATG
1 GTGTGTATG
12668100 ACTGTATATG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 7 0.13
52 2 0.04
53 43 0.83
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (52 bp):
GTGTGTATGTTAGACTAGACCAGAGAAGAATAAGAGAGTCCACATAGGTATG
Found at i:12669914 original size:20 final size:19
Alignment explanation
Indices: 12669889--12669930 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
12669879 ATAATTGTTA
12669889 TTTT-AATTTTTTGATTTATT
1 TTTTAAATTTTTT--TTTATT
12669909 TTTTAAATTTTTTTTTATT
1 TTTTAAATTTTTTTTTATT
12669928 TTT
1 TTT
12669931 AACTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTAAATTTTTTTTTATT
Found at i:12671621 original size:3 final size:3
Alignment explanation
Indices: 12671615--12671652 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12671605 CACCTTCGTC
12671615 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12671653 ATAAATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12671657 original size:4 final size:4
Alignment explanation
Indices: 12671648--12671673 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
12671638 TAATAATAAT
12671648 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
12671674 AGTTGTCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:12676188 original size:14 final size:15
Alignment explanation
Indices: 12676164--12676193 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12676154 TTACAAAGTG
12676164 AAAATTTATAATAAT
1 AAAATTTATAATAAT
12676179 AAAA-TTATAATAAT
1 AAAATTTATAATAAT
12676193 A
1 A
12676194 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTTATAATAAT
Found at i:12676755 original size:123 final size:124
Alignment explanation
Indices: 12676516--12676741 Score: 291
Period size: 123 Copynumber: 1.8 Consensus size: 124
12676506 GGAAAGTTTT
* * * *
12676516 TAATTTTATAGTATGTATTAACAAAATAAAAATGCTTAAAAATTATTAGTCTTTCAAAAGTATTT
1 TAATTTTATAGTATGTATTAACAAAAAAAAAATACTTAAAAATTATTAGTCTTCCAAAAGTATAT
*
12676581 TTTTAATAATTATATATAATCTAATATATATTTTTTATTAGATAAAATTAATTTTTTAA
66 TTCTAATAATTATATATAATCTAATATATATTTTTTATTAGATAAAATTAATTTTTTAA
* * * *
12676640 TAATTTTATGGTATTTA-TAA-AATAAAAAAAATATTTAAAAATTATTAGT-TATCCAAAATTA-
1 TAATTTTATAGTATGTATTAACAA-AAAAAAAATACTTAAAAATTATTAGTCT-TCCAAAAGTAT
*
12676701 ATTTCTAATAATTTATATATAATTTAA-ATATATCTTTTTAT
64 ATTTCTAATAA-TTATATATAATCTAATATATAT-TTTTTAT
12676742 CTTTTAAAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
122 18 0.20
123 55 0.62
124 15 0.17
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (124 bp):
TAATTTTATAGTATGTATTAACAAAAAAAAAATACTTAAAAATTATTAGTCTTCCAAAAGTATAT
TTCTAATAATTATATATAATCTAATATATATTTTTTATTAGATAAAATTAATTTTTTAA
Found at i:12676779 original size:98 final size:101
Alignment explanation
Indices: 12676659--12676854 Score: 303
Period size: 99 Copynumber: 2.0 Consensus size: 101
12676649 GGTATTTATA
12676659 AAATAAAAAAAATATTTAAAAATTATT-AGTTATCCAAAATTAA-TTTCTAATAATTTATATATA
1 AAATAAAAAAAATATTTAAAAATT-TTAAGTTATCCAAAATTAATTTTCTAATAATTTATATATA
* *
12676722 ATT-TAA-ATATATCTTTTTATCTTTTAAAATTAATC
65 ATTAAAATATATATCTTTTTATCTTATAAAATTAATC
* *
12676757 AAATAAATAAAAATATTT-AAAATTTTAAGTTATGCAAAATTAATTTTCTAATAATTTATTTATA
1 AAATAAA-AAAAATATTTAAAAATTTTAAGTTATCCAAAATTAATTTTCTAATAATTTATATATA
12676821 ATTAAAATATATATCTTTTTATCTTATAAAATTA
65 ATTAAAATATATATCTTTTTATCTTATAAAATTA
12676855 GTTTACTTAT
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
97 2 0.02
98 28 0.31
99 32 0.36
100 2 0.02
101 25 0.28
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (101 bp):
AAATAAAAAAAATATTTAAAAATTTTAAGTTATCCAAAATTAATTTTCTAATAATTTATATATAA
TTAAAATATATATCTTTTTATCTTATAAAATTAATC
Found at i:12676888 original size:126 final size:126
Alignment explanation
Indices: 12676754--12676981 Score: 343
Period size: 126 Copynumber: 1.8 Consensus size: 126
12676744 TTTAAAATTA
* * *
12676754 ATCAAATAAATAAAAATATTTAAAATT-TTAAGTTATGCAAAATTAATTTTCTAATAATTT-ATT
1 ATCAAATAAATAAAAATATTAAAAATTACT-AGTTATGCAAAATTAATTTTCTAATAATTTAATG
12676817 TATAATTAAAATATATATCTTTTTATCTTATAAAATTAGTTTACTTATAATTCTATGGTATTT
65 TATAATTAAAATATATATC-TTTTATCTTATAAAATTAGTTTACTTATAATTCTATGGTATTT
* * *
12676880 ATCAAATAAATAAAAGTATTAAAAATTACTAGTTATTCAAAATTAATTTTGTAATAATTTAGATG
1 ATCAAATAAATAAAAATATTAAAAATTACTAGTTATGCAAAATTAATTTTCTAATAATTTA-ATG
* *
12676945 TATAATTTAAATATATATCTTTTATCTTTTAAAATTA
65 TATAATTAAAATATATATCTTTTATCTTATAAAATTA
12676982 ATTTTTTAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
126 53 0.58
127 18 0.20
128 20 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (126 bp):
ATCAAATAAATAAAAATATTAAAAATTACTAGTTATGCAAAATTAATTTTCTAATAATTTAATGT
ATAATTAAAATATATATCTTTTATCTTATAAAATTAGTTTACTTATAATTCTATGGTATTT
Found at i:12678709 original size:56 final size:53
Alignment explanation
Indices: 12678514--12678719 Score: 153
Period size: 56 Copynumber: 3.7 Consensus size: 53
12678504 TTAGTTACAT
* * * * * *
12678514 TTTTATGAAGGTAATTTACCTAGGTGAGCCCTTTGGTCGAGATGGTCGAGTTAAGC
1 TTTTATGAA-GTAATTT--TTAGATGAGCTCTTTAGTCAAGGTGGTCGAGTTAAGC
* *
12678570 TTTTATGAAAGTAATTTATTATGATGAACTCTTTAGTCAAGGTGGCCGAGTTAAGC
1 TTTTATG-AAGTAATTT-TTA-GATGAGCTCTTTAGTCAAGGTGGTCGAGTTAAGC
* * * * *
12678626 TTTTGTGAAGGTAATTTTTCAAAATGAGCTC-TTAGGTTAAGGTGGTTGAGCTAAGC
1 TTTTATGAA-GTAATTTTT--AGATGAGCTCTTTA-GTCAAGGTGGTCGAGTTAAGC
* *
12678682 TTTTATGAAGTTAATTTGTTGAGATGAGTTTTTTAGTC
1 TTTTATGAAG-TAATTT-TT-AGATGAGCTCTTTAGTC
12678720 GAGCTGGGCT
Statistics
Matches: 119, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
55 10 0.08
56 101 0.85
57 8 0.07
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.39
Consensus pattern (53 bp):
TTTTATGAAGTAATTTTTAGATGAGCTCTTTAGTCAAGGTGGTCGAGTTAAGC
Found at i:12679048 original size:78 final size:78
Alignment explanation
Indices: 12678953--12679145 Score: 244
Period size: 78 Copynumber: 2.5 Consensus size: 78
12678943 CTAAGCTTAA
* * * * *
12678953 CTTGAGCTCTTTGGTCAAATTGGGCCTTTATTAAGGTAGTTTTATAGATTTATGCTCTTTGGTCG
1 CTTGAGCTCTTTAGTCAAATTGGGCTTTTATGAAGGTAATTTTATAAATTTATGCTCTTTGGTCG
*
12679018 AATTGAGTTTGAG
66 AACTGAGTTTGAG
* * * * *
12679031 CTTGAGCTCTTTAGTCAAACTAGGCTTTTATGAAGGTAATTTTGTAAATTTGTGCTCTTTGGTTG
1 CTTGAGCTCTTTAGTCAAATTGGGCTTTTATGAAGGTAATTTTATAAATTTATGCTCTTTGGTCG
*
12679096 AGCTGAGTTTGAG
66 AACTGAGTTTGAG
* *
12679109 CTTTAGCTTTTTAG-CTAAATTGGGCTTTTATGAAGGT
1 CTTGAGCTCTTTAGTC-AAATTGGGCTTTTATGAAGGT
12679146 GTTCTAACGT
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 97 0.99
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (78 bp):
CTTGAGCTCTTTAGTCAAATTGGGCTTTTATGAAGGTAATTTTATAAATTTATGCTCTTTGGTCG
AACTGAGTTTGAG
Found at i:12680814 original size:43 final size:43
Alignment explanation
Indices: 12680761--12680928 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 43
12680751 AAATATAGGC
*
12680761 TTAACAAAATGGACTCCTCTATACAGAGGCTAAACAACTTTAAA
1 TTAA-AAAATGGACTCCTCTATACAAAGGCTAAACAACTTTAAA
12680805 TTAAAAAATGGACTCCTCTATACAAAGGCTCAAA-AA--TT---
1 TTAAAAAATGGACTCCTCTATACAAAGGCT-AAACAACTTTAAA
* * * *
12680843 TTAAGAAATGGGCTCCTTTATACAAGGGCTAAACAACTTTAAA
1 TTAAAAAATGGACTCCTCTATACAAAGGCTAAACAACTTTAAA
* *
12680886 TTAAAAAATGGACT-CTGTTATACAAAGGCTAAAAAACTTTAAA
1 TTAAAAAATGGACTCCT-CTATACAAAGGCTAAACAACTTTAAA
12680929 ATAGAATCCT
Statistics
Matches: 107, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
37 3 0.03
38 28 0.26
40 2 0.02
41 2 0.02
42 2 0.02
43 63 0.59
44 7 0.07
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (43 bp):
TTAAAAAATGGACTCCTCTATACAAAGGCTAAACAACTTTAAA
Found at i:12680865 original size:81 final size:81
Alignment explanation
Indices: 12680767--12680927 Score: 245
Period size: 81 Copynumber: 2.0 Consensus size: 81
12680757 AGGCTTAACA
12680767 AAATGGACTCCTCTATAC-AGAGGCTAAACAACTTTAAATTAAAAAATGGACTCCT-CTATACAA
1 AAATGGACTCCTCTATACAAG-GGCTAAACAACTTTAAATTAAAAAATGGACT-CTGCTATACAA
* *
12680830 AGGCTCAAAAATTTTAAG
64 AGGCTAAAAAACTTTAAG
* * *
12680848 AAATGGGCTCCTTTATACAAGGGCTAAACAACTTTAAATTAAAAAATGGACTCTGTTATACAAAG
1 AAATGGACTCCTCTATACAAGGGCTAAACAACTTTAAATTAAAAAATGGACTCTGCTATACAAAG
12680913 GCTAAAAAACTTTAA
66 GCTAAAAAACTTTAA
12680928 AATAGAATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
80 2 0.03
81 69 0.95
82 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (81 bp):
AAATGGACTCCTCTATACAAGGGCTAAACAACTTTAAATTAAAAAATGGACTCTGCTATACAAAG
GCTAAAAAACTTTAAG
Found at i:12681903 original size:18 final size:19
Alignment explanation
Indices: 12681868--12681903 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12681858 TTAGATAAAC
12681868 CCCTTTTCAATTTAAATCA
1 CCCTTTTCAATTTAAATCA
*
12681887 CCCTTTT-AATTTGAATC
1 CCCTTTTCAATTTAAATC
12681904 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (19 bp):
CCCTTTTCAATTTAAATCA
Found at i:12691807 original size:17 final size:16
Alignment explanation
Indices: 12691784--12691818 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12691774 TAATTATTTC
*
12691784 AATATA-AAGAAAATA
1 AATATATAACAAAATA
12691799 AATATATAACAAAATA
1 AATATATAACAAAATA
12691815 AATA
1 AATA
12691819 CAACAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
AATATATAACAAAATA
Found at i:12696054 original size:7 final size:7
Alignment explanation
Indices: 12695996--12696163 Score: 72
Period size: 7 Copynumber: 24.9 Consensus size: 7
12695986 GGCTTGAGTT
12695996 TTTA-GG
1 TTTAGGG
*
12696002 TTTGGGG
1 TTTAGGG
*
12696009 TTTAAGG
1 TTTAGGG
*
12696016 -TTATGGT
1 TTTA-GGG
12696023 TTTA-GG
1 TTTAGGG
*
12696029 TTTAAGG
1 TTTAGGG
*
12696036 TTTAAGG
1 TTTAGGG
12696043 TTTAGGG
1 TTTAGGG
12696050 TTTAGGGG
1 TTTA-GGG
* *
12696058 TTGACTCGAGT
1 TT---TAG-GG
*
12696069 TTTTGGG
1 TTTAGGG
12696076 TTTAGGG
1 TTTAGGG
12696083 --TA-GG
1 TTTAGGG
*
12696087 TTT-GGA
1 TTTAGGG
*
12696093 TTTAAGG
1 TTTAGGG
12696100 TTTAGGG
1 TTTAGGG
12696107 TTTAGGG
1 TTTAGGG
*
12696114 TTTCGGG
1 TTTAGGG
*
12696121 TTTATGG
1 TTTAGGG
12696128 TTTA-GG
1 TTTAGGG
*
12696134 ATTA--G
1 TTTAGGG
*
12696139 TTTAGGA
1 TTTAGGG
12696146 TTTA--G
1 TTTAGGG
12696151 TTTAGGG
1 TTTAGGG
12696158 TTTAGG
1 TTTAGG
12696164 ATTGGTTTGG
Statistics
Matches: 122, Mismatches: 23, Indels: 33
0.69 0.13 0.19
Matches are distributed among these distances:
4 2 0.02
5 10 0.08
6 21 0.17
7 74 0.61
8 10 0.08
10 1 0.01
11 4 0.03
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:12696115 original size:14 final size:13
Alignment explanation
Indices: 12696074--12696222 Score: 86
Period size: 14 Copynumber: 11.9 Consensus size: 13
12696064 CGAGTTTTTG
12696074 GGTTTAGGG--TA
1 GGTTTAGGGTTTA
*
12696085 GGTTT-GGATTTAA
1 GGTTTAGGGTTT-A
12696098 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
*
12696111 GGGTTTCGGGTTTA
1 -GGTTTAGGGTTTA
*
12696125 TGGTTTA-GGATTA
1 -GGTTTAGGGTTTA
*
12696138 -GTTTAGGATTTA
1 GGTTTAGGGTTTA
12696150 -GTTTAGGGTTTA
1 GGTTTAGGGTTTA
* *
12696162 GGATT--GGTTTGG
1 GGTTTAGGGTTT-A
*
12696174 GGTCTAGGG-TT-
1 GGTTTAGGGTTTA
*
12696185 GGTTTAAGGTTTA
1 GGTTTAGGGTTTA
*
12696198 GAGTTTA-GGTTAA
1 G-GTTTAGGGTTTA
*
12696211 GGTTTAAGGTTT
1 GGTTTAGGGTTT
12696223 TGTTTAGGTT
Statistics
Matches: 107, Mismatches: 17, Indels: 26
0.71 0.11 0.17
Matches are distributed among these distances:
10 2 0.02
11 22 0.21
12 26 0.24
13 28 0.26
14 29 0.27
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.44
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:12696152 original size:12 final size:12
Alignment explanation
Indices: 12696127--12696162 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
12696117 CGGGTTTATG
12696127 GTTTAGGA-TTA
1 GTTTAGGATTTA
12696138 GTTTAGGATTTA
1 GTTTAGGATTTA
*
12696150 GTTTAGGGTTTA
1 GTTTAGGATTTA
12696162 G
1 G
12696163 GATTGGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (12 bp):
GTTTAGGATTTA
Found at i:12696157 original size:51 final size:54
Alignment explanation
Indices: 12696036--12696163 Score: 149
Period size: 57 Copynumber: 2.4 Consensus size: 54
12696026 AGGTTTAAGG
*
12696036 TTTAAGGTTTAGGGTTTAGGGGTTGACTCGAGTTTTTGGGTTTAGGGTAGGTTTGGA
1 TTTAAGGTTTAGGGTTTA-GGGTT-A-TCGAGTTTATGGGTTTAGGGTAGGTTTGGA
* *
12696093 TTTAAGGTTTAGGGTTTAGGGTT-TCGGGTTTAT-GGTTTAGGATTA-GTTTAGGA
1 TTTAAGGTTTAGGGTTTAGGGTTATCGAGTTTATGGGTTTAGG-GTAGGTTT-GGA
12696146 TTT-A-GTTTAGGGTTTAGG
1 TTTAAGGTTTAGGGTTTAGG
12696164 ATTGGTTTGG
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
51 14 0.21
52 13 0.20
53 16 0.24
56 5 0.08
57 18 0.27
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.45
Consensus pattern (54 bp):
TTTAAGGTTTAGGGTTTAGGGTTATCGAGTTTATGGGTTTAGGGTAGGTTTGGA
Found at i:12696176 original size:18 final size:18
Alignment explanation
Indices: 12696138--12696198 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
12696128 TTTAGGATTA
*
12696138 GTTTAGGATTTAGTTTAGG
1 GTTTAGGA-TTGGTTTAGG
*
12696157 GTTTAGGATTGGTTTGGG
1 GTTTAGGATTGGTTTAGG
* * *
12696175 GTCTAGGGTTGGTTTAAG
1 GTTTAGGATTGGTTTAGG
12696193 GTTTAG
1 GTTTAG
12696199 AGTTTAGGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
18 27 0.77
19 8 0.23
ACGTcount: A:0.16, C:0.02, G:0.38, T:0.44
Consensus pattern (18 bp):
GTTTAGGATTGGTTTAGG
Found at i:12696321 original size:19 final size:19
Alignment explanation
Indices: 12696224--12696323 Score: 59
Period size: 19 Copynumber: 5.4 Consensus size: 19
12696214 TTAAGGTTTT
*
12696224 GTTTAGGTTTTCAT-AGTG
1 GTTTAGGGTTTCATGAGTG
*
12696242 GTCTT-GGG-TTCGT-AGGTG
1 GT-TTAGGGTTTCATGA-GTG
* *
12696260 GTTTAGGGTTTGGA-AAGTG
1 GTTTAGGGTTT-CATGAGTG
* *
12696279 GTTTAAGGTTTCATGGGTG
1 GTTTAGGGTTTCATGAGTG
*
12696298 ATTTAGGG-TTCTATGAGTG
1 GTTTAGGGTTTC-ATGAGTG
12696317 GTTTAGG
1 GTTTAGG
12696324 ATTTGGGGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
17 7 0.11
18 16 0.26
19 38 0.61
20 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.37, T:0.42
Consensus pattern (19 bp):
GTTTAGGGTTTCATGAGTG
Found at i:12696444 original size:49 final size:48
Alignment explanation
Indices: 12696371--12696504 Score: 136
Period size: 45 Copynumber: 2.8 Consensus size: 48
12696361 ATGTGATAGA
*
12696371 AACAAATTACAAAGATGCCATTGGTAGAAATGTAAATATTGATGCATG-G
1 AACAAATAACAAA-ATGCCATTGGTAGAAATGTAAATATTGATG-ATGTG
* *
12696420 AACAAATAACGAAAATGTCATTGGT-GAAAATGT---TATTGATGTTGTG
1 AACAAATAAC-AAAATGCCATTGGTAG-AAATGTAAATATTGATGATGTG
* *
12696466 -ACAAATAACAAAAATGCCATTAGTAAAAATGTAAATATT
1 AACAAATAAC-AAAATGCCATTGGTAGAAATGTAAATATT
12696505 AATACATGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
45 29 0.41
46 9 0.13
48 5 0.07
49 25 0.35
50 3 0.04
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (48 bp):
AACAAATAACAAAATGCCATTGGTAGAAATGTAAATATTGATGATGTG
Found at i:12700141 original size:12 final size:12
Alignment explanation
Indices: 12700124--12700148 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12700114 TAATTGTTGC
12700124 CATAAAGAATGT
1 CATAAAGAATGT
12700136 CATAAAGAATGT
1 CATAAAGAATGT
12700148 C
1 C
12700149 CTGGTGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (12 bp):
CATAAAGAATGT
Found at i:12700905 original size:411 final size:409
Alignment explanation
Indices: 12700119--12701073 Score: 1847
Period size: 411 Copynumber: 2.3 Consensus size: 409
12700109 CAATTTAATT
12700119 GTTGCCATAAAGAATGTCATAAAGAATGTCCTGGTGAAAGTTGGAAAATATGTTTTCCCTGTGAA
1 GTTGCCATAAAGAATGTCA-AAA-AATGTCCTGGTGAAAGTTGGAAAATATGTTTTCCCTGTGAA
*
12700184 TTTAATTGTTTTAGATATAAAGGATGATCAAGTTCTATTACTTTTAGGTAGACCTTTCTTGCTCA
64 TTTAATTGTTTTAGATATAAAGGATGATCAAGTTCTATTACTCTTAGGTAGACCTTTCTTGCTCA
12700249 CTGCCTGGCCCAAGGCCTATTCAAAAAGAGCTACTCAATGAACTAAAAAAAACCACATTCTTAGA
129 CTGCCTGGCCCAAGGCCTATTCAAAAAGAGCTACTCAATGAACTAAAAAAAACCACATTCTTAGA
12700314 TGATTACAGCCTTAAGCTTCAACAACTCTTGCCCAAAAAGTTAAAAGATATAATGAGTTTTACTA
194 TGATTACAGCCTTAAGCTTCAACAACTCTTGCCCAAAAAGTTAAAAGATATAATGAGTTTTACTA
12700379 TACCTTGCATGATTGGAAAATTAAAATTCTTTGATTTTTTTGTGAACTTGGTTCACGCATAAATT
259 TACCTTGCATGATTGGAAAATTAAAATTCTTTGATTTTTTTGTGAACTTGGTTCACGCATAAATT
12700444 TAATGCTTATGAATGTTTTTGAGTAGCTAGGTTGTAGAGAGCTGAAACCTCATACATTCAACATT
324 TAATGCTTATGAATGTTTTTGAGTAGCTAGGTTGTAGAGAGCTGAAACCTCATACATTCAACATT
12700509 AAGTTCATTGATCAATCTACTAA
389 AAGTTCATTGATC-ATCTA-TAA
12700532 GTTGCCATAAAGAATGTCAAAAAATGTCCTGGTGAAAGTTGGAAAATATGTTTTCCCTGTGAATT
1 GTTGCCATAAAGAATGTCAAAAAATGTCCTGGTGAAAGTTGGAAAATATGTTTTCCCTGTGAATT
12700597 TAATTGTTTTAGATATAAAGGATGATCAAGTTCTATTACTCTTAGGTAGACCTTTCTTGCTCACT
66 TAATTGTTTTAGATATAAAGGATGATCAAGTTCTATTACTCTTAGGTAGACCTTTCTTGCTCACT
12700662 GCCTGGCCCAAGGCCTATTCAAAAAGAGCTACTCAATGAACTAAAAAAAACCACATTCTTAGATG
131 GCCTGGCCCAAGGCCTATTCAAAAAGAGCTACTCAATGAACTAAAAAAAACCACATTCTTAGATG
12700727 ATTACAGCCTTAAGCTTCAACAACTCTTGCCCAAAAAGTTAAAAGATATAATGAGTTTTACTATA
196 ATTACAGCCTTAAGCTTCAACAACTCTTGCCCAAAAAGTTAAAAGATATAATGAGTTTTACTATA
12700792 CCTTGCATGATTGGAAAATTAAAATTCTTTGATTTTTTTGTGAACTTGGTTCACGCATAAATTTA
261 CCTTGCATGATTGGAAAATTAAAATTCTTTGATTTTTTTGTGAACTTGGTTCACGCATAAATTTA
12700857 ATGCTTATGAATGTTTTTGAGTAGCTAGGTTGTAGAGAGCTGAAACCTCATACATTCAACATTAA
326 ATGCTTATGAATGTTTTTGAGTAGCTAGGTTGTAGAGAGCTGAAACCTCATACATTCAACATTAA
12700922 GTTCATTGATCATCTATAA
391 GTTCATTGATCATCTATAA
*
12700941 GTTGCCATAAAGAATGTCAAAAAATGTCCTGGTGAAAGTTGGAAAATATGGTTTCCCTGTGAATT
1 GTTGCCATAAAGAATGTCAAAAAATGTCCTGGTGAAAGTTGGAAAATATGTTTTCCCTGTGAATT
*
12701006 TAATTGTTTTAGATATAAAGGATGATCAAGTTCTATTACTCTTAGGTAGACCTTTCTTGTTCACT
66 TAATTGTTTTAGATATAAAGGATGATCAAGTTCTATTACTCTTAGGTAGACCTTTCTTGCTCACT
12701071 GCC
131 GCC
12701074 AAAACCTTAA
Statistics
Matches: 539, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
409 134 0.25
410 5 0.01
411 378 0.70
412 3 0.01
413 19 0.04
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (409 bp):
GTTGCCATAAAGAATGTCAAAAAATGTCCTGGTGAAAGTTGGAAAATATGTTTTCCCTGTGAATT
TAATTGTTTTAGATATAAAGGATGATCAAGTTCTATTACTCTTAGGTAGACCTTTCTTGCTCACT
GCCTGGCCCAAGGCCTATTCAAAAAGAGCTACTCAATGAACTAAAAAAAACCACATTCTTAGATG
ATTACAGCCTTAAGCTTCAACAACTCTTGCCCAAAAAGTTAAAAGATATAATGAGTTTTACTATA
CCTTGCATGATTGGAAAATTAAAATTCTTTGATTTTTTTGTGAACTTGGTTCACGCATAAATTTA
ATGCTTATGAATGTTTTTGAGTAGCTAGGTTGTAGAGAGCTGAAACCTCATACATTCAACATTAA
GTTCATTGATCATCTATAA
Found at i:12704757 original size:19 final size:21
Alignment explanation
Indices: 12704729--12704787 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
12704719 CAGCAACTTC
*
12704729 AAACTTAAAGGAAT-TA-ATA
1 AAACTAAAAGGAATATACATA
12704748 AAACTAAAAGGAATATATCATA
1 AAACTAAAAGGAATATA-CATA
*
12704770 ACAAATAAAAGGAATATA
1 A-AACTAAAAGGAATATA
12704788 AATCAAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
22 4 0.12
23 15 0.44
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (21 bp):
AAACTAAAAGGAATATACATA
Found at i:12708474 original size:30 final size:30
Alignment explanation
Indices: 12708438--12708494 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12708428 AGTTCTAACC
*
12708438 ATTTGACTATT-TTTGACCAATTTTGATCAA
1 ATTTGACT-TTGTTTGACCAAGTTTGATCAA
*
12708468 ATTTGACTTTGTTTGACCTAGTTTGAT
1 ATTTGACTTTGTTTGACCAAGTTTGAT
12708495 TTTAAGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTTGACTTTGTTTGACCAAGTTTGATCAA
Found at i:12708752 original size:49 final size:49
Alignment explanation
Indices: 12708686--12708837 Score: 157
Period size: 49 Copynumber: 3.1 Consensus size: 49
12708676 TAATTTAAAA
* * * *
12708686 AAAAATCTCAATTTGAAATATGCTCTTTTAGATATAGGCAAGTGATTTT
1 AAAAATCTTATTTTGAAAAATGCTCTTTTAGATATAGGCAAGTGACTTT
* * * * *
12708735 AAAAGTCTTTTTTTGAAAAATGCTCTTATT-GACATAGGTATGTGACTTT
1 AAAAATCTTATTTTGAAAAATGCTCTT-TTAGATATAGGCAAGTGACTTT
* *
12708784 AAAAATCTTATTTT-AAAAAGTGCT-TCTATAGATATAGGCAAGTGACCTT
1 AAAAATCTTATTTTGAAAAA-TGCTCT-TTTAGATATAGGCAAGTGACTTT
12708833 AAAAA
1 AAAAA
12708838 AAAAATCTTA
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
48 7 0.08
49 74 0.89
50 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (49 bp):
AAAAATCTTATTTTGAAAAATGCTCTTTTAGATATAGGCAAGTGACTTT
Found at i:12709441 original size:20 final size:21
Alignment explanation
Indices: 12709396--12709443 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
12709386 TACATTCACA
12709396 TCATTCA-TTTCCCATTTTCTT
1 TCATTCATTTTCCCA-TTTCTT
12709417 T-ATTCATTTTCCCA-TTCTT
1 TCATTCATTTTCCCATTTCTT
12709436 TCATTCAT
1 TCATTCAT
12709444 CATTTCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 11 0.44
21 8 0.32
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (21 bp):
TCATTCATTTTCCCATTTCTT
Found at i:12709737 original size:31 final size:31
Alignment explanation
Indices: 12709616--12709976 Score: 155
Period size: 31 Copynumber: 11.7 Consensus size: 31
12709606 CTTAAATATC
* *
12709616 CTAGCTAAACTGGGCTTAGATCTTT-TTGGTG
1 CTAGCTAAACTAGGCTTA-ATTTTTCTTGGTG
** * * * * ***
12709647 CTAGCTAGTCTGGGTTTAATTCTCCTCAATG
1 CTAGCTAAACTAGGCTTAATTTTTCTTGGTG
* *
12709678 CTAGCTAAACTAGGCTTAATTCTCCTTGGTG
1 CTAGCTAAACTAGGCTTAATTTTTCTTGGTG
* *
12709709 CTAGCTAGATTAGGCTTAATTTTTCTTGGTG
1 CTAGCTAAACTAGGCTTAATTTTTCTTGGTG
* * * * *
12709740 CCAACTAAACT-GTGCTTACTTCTCCTTGGTG
1 CTAGCTAAACTAG-GCTTAATTTTTCTTGGTG
* * * * *
12709771 CAAGCTAAATTAGG-TTTACTTCTCATTGGTG
1 CTAGCTAAACTAGGCTTAATTTTTC-TTGGTG
* * * *
12709802 CTAGCTAGA-TCGAGCTTAATTTTCCTTGGTA
1 CTAGCTAAACTAG-GCTTAATTTTTCTTGGTG
* ** * *
12709833 CCAATTAAA-TTGGACTCAATTCTTT-TTGGTG
1 CTAGCTAAACTAGG-CTTAATT-TTTCTTGGTG
* * *
12709864 CTAGCTAGACTAGGCTTAATTCTTCTTAGTG
1 CTAGCTAAACTAGGCTTAATTTTTCTTGGTG
* * **
12709895 -TCA-CTAAACTAGGCTTCA-TTTCCTTAATG
1 CT-AGCTAAACTAGGCTTAATTTTTCTTGGTG
* * *
12709924 CTAGGTATACTGGGCTTAATTTTTCCTTGGTG
1 CTAGCTAAACTAGGCTTAATTTTT-CTTGGTG
* * * *
12709956 CCAACTAAACTGGGATTAATT
1 CTAGCTAAACTAGGCTTAATT
12709977 CTACTCGGTA
Statistics
Matches: 238, Mismatches: 77, Indels: 29
0.69 0.22 0.08
Matches are distributed among these distances:
29 9 0.04
30 39 0.16
31 157 0.66
32 33 0.14
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (31 bp):
CTAGCTAAACTAGGCTTAATTTTTCTTGGTG
Found at i:12709777 original size:93 final size:93
Alignment explanation
Indices: 12709680--12709886 Score: 247
Period size: 93 Copynumber: 2.2 Consensus size: 93
12709670 CCTCAATGCT
* * *
12709680 AGCTAAACTAGGCTTAATTCTCCTTGGTGCTAGCTAGATTAG-GCTTAATTTTTCTTGGTGCCAA
1 AGCTAAACTAGGCTTAATTCTCATTGGTGCTAGCTAGA-TAGAGCTTAATTTTCCTTGGTACCAA
* *
12709744 CTAAACTGTG-CTTACTTCTCCTTGGTGCA
65 CTAAACTG-GACTCAATTCTCCTTGGTGCA
* * * * *
12709773 AGCTAAATTAGGTTTACTTCTCATTGGTGCTAGCTAGATCGAGCTTAATTTTCCTTGGTACCAAT
1 AGCTAAACTAGGCTTAATTCTCATTGGTGCTAGCTAGATAGAGCTTAATTTTCCTTGGTACCAAC
* ** *
12709838 TAAATTGGACTCAATTCTTTTTGGTGCT
66 TAAACTGGACTCAATTCTCCTTGGTGCA
*
12709866 AGCTAGACTAGGCTTAATTCT
1 AGCTAAACTAGGCTTAATTCT
12709887 TCTTAGTGTC
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
92 3 0.03
93 91 0.97
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (93 bp):
AGCTAAACTAGGCTTAATTCTCATTGGTGCTAGCTAGATAGAGCTTAATTTTCCTTGGTACCAAC
TAAACTGGACTCAATTCTCCTTGGTGCA
Found at i:12712293 original size:26 final size:25
Alignment explanation
Indices: 12712270--12712317 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12712260 TTTTTTTACC
*
12712270 TTTTT-TT-TTTCTTCTCCTTATTTA
1 TTTTTCTTCTTTCTT-TCATTATTTA
12712294 TTTTTCTTCTTTCTTTCATTATTT
1 TTTTTCTTCTTTCTTTCATTATTT
12712318 TTCCTTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 10 0.48
26 6 0.29
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTCTTCTTTCTTTCATTATTTA
Found at i:12713192 original size:19 final size:19
Alignment explanation
Indices: 12713151--12713201 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
12713141 GTTTAGGGCT
* * **
12713151 TGGTTTAGGGTTTGGAAGG
1 TGGTTTTGGGTTTGAAAAA
12713170 TGGTTTTGGGTTTGAAAAA
1 TGGTTTTGGGTTTGAAAAA
12713189 TGGTTTTGGGTTT
1 TGGTTTTGGGTTT
12713202 CAAGGGTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (19 bp):
TGGTTTTGGGTTTGAAAAA
Found at i:12713219 original size:19 final size:19
Alignment explanation
Indices: 12713197--12713258 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
12713187 AATGGTTTTG
*
12713197 GGTTTCAAGGGTGATTTAA
1 GGTTTCATGGGTGATTTAA
*
12713216 GGTTTTATGGGTGATTT-A
1 GGTTTCATGGGTGATTTAA
* *
12713234 GTGTTTCATGTGTGGTTTAA
1 G-GTTTCATGGGTGATTTAA
12713254 GGTTT
1 GGTTT
12713259 GGGGTTTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.06
19 32 0.89
20 2 0.06
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (19 bp):
GGTTTCATGGGTGATTTAA
Found at i:12713831 original size:12 final size:12
Alignment explanation
Indices: 12713814--12713845 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12713804 CTTTCTTTAA
*
12713814 CTTTTTTTTTCT
1 CTTTTTTTTTCC
12713826 CTTTTTTTTTCC
1 CTTTTTTTTTCC
12713838 CTTTTTTT
1 CTTTTTTT
12713846 CACCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTTTTTCC
Found at i:12716407 original size:15 final size:17
Alignment explanation
Indices: 12716384--12716415 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12716374 GGAAAAACCT
12716384 TTTTGTT-AAAAATTTA
1 TTTTGTTAAAAAATTTA
12716400 TTTT-TTAAAAAATTTA
1 TTTTGTTAAAAAATTTA
12716416 AACCTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.13
16 13 0.87
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTGTTAAAAAATTTA
Found at i:12720895 original size:13 final size:13
Alignment explanation
Indices: 12720879--12720906 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12720869 TGTTCATCAA
12720879 TTATAGACTCATT
1 TTATAGACTCATT
12720892 TTATAGACTCATT
1 TTATAGACTCATT
12720905 TT
1 TT
12720907 CTAAGTACAC
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:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (13 bp):
TTATAGACTCATT
Found at i:12722639 original size:34 final size:34
Alignment explanation
Indices: 12722584--12722686 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 34
12722574 TGTTAGAGAT
* * *
12722584 TTTGTCACCTAGTCTAGTTAATAGCTATTGGCAA
1 TTTGTCACCTAATCCAATTAATAGCTATTGGCAA
* * *
12722618 TTTGTCATCTAATCCAATTAATTGCTACTGAG-AA
1 TTTGTCACCTAATCCAATTAATAGCTATTG-GCAA
* * * *
12722652 TTTGTCACCTAGTCTAATTAATAGATATTGACAA
1 TTTGTCACCTAATCCAATTAATAGCTATTGGCAA
12722686 T
1 T
12722687 AAAGGGAGAC
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
34 53 0.98
35 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (34 bp):
TTTGTCACCTAATCCAATTAATAGCTATTGGCAA
Found at i:12732325 original size:21 final size:20
Alignment explanation
Indices: 12732299--12732345 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
12732289 ACAAAATTCA
*
12732299 TTTTTTAGTAGATTTGTATGG
1 TTTTTT-GTAGATTTGTAAGG
*
12732320 TTTTTTTTAGATTTGTAAGG
1 TTTTTTGTAGATTTGTAAGG
12732340 TTTTTT
1 TTTTTT
12732346 TAACAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.17, C:0.00, G:0.19, T:0.64
Consensus pattern (20 bp):
TTTTTTGTAGATTTGTAAGG
Found at i:12732347 original size:19 final size:20
Alignment explanation
Indices: 12732307--12732346 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
12732297 CATTTTTTAG
*
12732307 TAGATTTGTATGGTTTTTTT
1 TAGATTTGTAAGGTTTTTTT
12732327 TAGATTTGTAAGGTTTTTTT
1 TAGATTTGTAAGGTTTTTTT
12732347 AACAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.62
Consensus pattern (20 bp):
TAGATTTGTAAGGTTTTTTT
Found at i:12736615 original size:9 final size:9
Alignment explanation
Indices: 12736601--12736636 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
12736591 AAAAATATTT
12736601 TAAAAATTC
1 TAAAAATTC
*
12736610 TAAAAATTT
1 TAAAAATTC
12736619 TAAAAATTTC
1 TAAAAA-TTC
12736629 TAAAAATT
1 TAAAAATT
12736637 TTTCAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (9 bp):
TAAAAATTC
Found at i:12736629 original size:19 final size:18
Alignment explanation
Indices: 12736592--12736658 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 18
12736582 TTTAAATATA
12736592 AAAATATTTTAAAAATTCT
1 AAAA-ATTTTAAAAATTCT
12736611 AAAAATTTTAAAAATTTCT
1 AAAAATTTTAAAAA-TTCT
12736630 AAAAATTTTTCAAAAACTTC-
1 AAAAA-TTTT-AAAAA-TTCT
12736650 AAAAATTTT
1 AAAAATTTT
12736659 TCAAAAACTT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 10 0.23
19 17 0.39
20 9 0.20
21 8 0.18
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATTTTAAAAATTCT
Found at i:12736664 original size:19 final size:21
Alignment explanation
Indices: 12736590--12736668 Score: 105
Period size: 20 Copynumber: 4.0 Consensus size: 21
12736580 TTTTTAAATA
12736590 TAAAAATATTTT-AAAAA-TTC
1 TAAAAAT-TTTTCAAAAACTTC
*
12736610 TAAAAA-TTTT-AAAAATTTC
1 TAAAAATTTTTCAAAAACTTC
12736629 TAAAAATTTTTCAAAAACTTC
1 TAAAAATTTTTCAAAAACTTC
12736650 -AAAAATTTTTCAAAAACTT
1 TAAAAATTTTTCAAAAACTT
12736669 AAAAAAACTC
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
18 9 0.16
19 9 0.16
20 29 0.53
21 8 0.15
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAATTTTTCAAAAACTTC
Found at i:12736673 original size:20 final size:20
Alignment explanation
Indices: 12736630--12736674 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
12736620 AAAAATTTCT
*
12736630 AAAAATTTTTCAAAAACTTC
1 AAAAATTTTTCAAAAACTTA
12736650 AAAAATTTTTCAAAAACTTA
1 AAAAATTTTTCAAAAACTTA
12736670 AAAAA
1 AAAAA
12736675 ACTCAACAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTTTTCAAAAACTTA
Found at i:12736790 original size:20 final size:19
Alignment explanation
Indices: 12736767--12736806 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12736757 TAAAAAATTA
*
12736767 TAAAAAGTACTTAAAATTTT
1 TAAAAAATAC-TAAAATTTT
*
12736787 TAAAAAATTCTAAAATTTT
1 TAAAAAATACTAAAATTTT
12736806 T
1 T
12736807 TTGAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAAAATACTAAAATTTT
Found at i:12736860 original size:10 final size:10
Alignment explanation
Indices: 12736838--12736898 Score: 58
Period size: 9 Copynumber: 6.4 Consensus size: 10
12736828 ACAGATTTAA
12736838 AAAAAATTCTC
1 AAAAAATT-TC
12736849 AAAAAATTTC
1 AAAAAATTTC
12736859 --AAAATTTC
1 AAAAAATTTC
*
12736867 AAAATATTTC
1 AAAAAATTTC
**
12736877 AAATTA-TTC
1 AAAAAATTTC
12736886 AAAAAA-TTC
1 AAAAAATTTC
12736895 AAAA
1 AAAA
12736899 TTTTTTTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
8 8 0.18
9 14 0.32
10 14 0.32
11 8 0.18
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:12736864 original size:19 final size:18
Alignment explanation
Indices: 12736840--12736901 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
12736830 AGATTTAAAA
12736840 AAAATTCTCAAAAAATTTC
1 AAAATT-TCAAAAAATTTC
*
12736859 AAAATTTCAAAATATTTC
1 AAAATTTCAAAAAATTTC
*
12736877 AAATTATTCAAAAAA-TTC
1 AAAAT-TTCAAAAAATTTC
12736895 AAAATTT
1 AAAATTT
12736902 TTTTGAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 2 0.05
18 22 0.58
19 14 0.37
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTTCAAAAAATTTC
Found at i:12737018 original size:17 final size:17
Alignment explanation
Indices: 12736998--12737033 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12736988 TATAAAAAAC
12736998 TAAAAATATAAAAATTT
1 TAAAAATATAAAAATTT
* *
12737015 TAAAAATCTAAAACTTT
1 TAAAAATATAAAAATTT
12737032 TA
1 TA
12737034 GAGTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAATATAAAAATTT
Found at i:12737051 original size:10 final size:10
Alignment explanation
Indices: 12737037--12737298 Score: 120
Period size: 10 Copynumber: 26.6 Consensus size: 10
12737027 ACTTTTAGAG
12737037 TTTTTTAAAA
1 TTTTTTAAAA
* *
12737047 CTTTTTAAAT
1 TTTTTTAAAA
*
12737057 TTTTTTAGAA
1 TTTTTTAAAA
*
12737067 TTTTTTAAAT
1 TTTTTTAAAA
*
12737077 TTTTTTGAAA
1 TTTTTTAAAA
12737087 TTTTTT--AA
1 TTTTTTAAAA
*
12737095 TTCTTTT-AAT
1 TT-TTTTAAAA
* *
12737105 TTATTTTGCATA
1 TT-TTTT-AAAA
*
12737117 TTTTTT-GAA
1 TTTTTTAAAA
*
12737126 TTCTTTAAAA
1 TTTTTTAAAA
12737136 CTCTTTTTAAAA
1 -T-TTTTTAAAA
*
12737148 -GTTTTAAAA
1 TTTTTTAAAA
* *
12737157 GTTTTTAGAA
1 TTTTTTAAAA
12737167 TTTTTT-AAA
1 TTTTTTAAAA
12737176 TTTTTTCAAAA
1 TTTTTT-AAAA
*
12737187 TTTCTT--AA
1 TTTTTTAAAA
*
12737195 TTTTTT--TA
1 TTTTTTAAAA
12737203 TTTTTT--AA
1 TTTTTTAAAA
**
12737211 TTTTCGAAAAAA
1 TTTT--TTAAAA
* *
12737223 ATTTTGAAAA
1 TTTTTTAAAA
12737233 TTTTTTAGAAA
1 TTTTTTA-AAA
**
12737244 TTTTAAAAAA
1 TTTTTTAAAA
12737254 TTTTTTAGAAA
1 TTTTTTA-AAA
12737265 TTTTTT--AA
1 TTTTTTAAAA
*
12737273 TTTTTTATAA
1 TTTTTTAAAA
*
12737283 TTTTTAAAAA
1 TTTTTTAAAA
*
12737293 CTTTTT
1 TTTTTT
12737299 GGAAATATGA
Statistics
Matches: 192, Mismatches: 42, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
8 31 0.16
9 26 0.14
10 89 0.46
11 30 0.16
12 16 0.08
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:12737060 original size:20 final size:20
Alignment explanation
Indices: 12737023--12737103 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 20
12737013 TTTAAAAATC
* *
12737023 TAAAAC-TTTTAGAGTTTTT
1 TAAAACTTTTTAAATTTTTT
12737042 TAAAACTTTTTAAATTTTTT
1 TAAAACTTTTTAAATTTTTT
* *
12737062 TAGAATTTTTTAAATTTTTT
1 TAAAACTTTTTAAATTTTTT
* * *
12737082 TGAAA-TTTTTTAATTCTTT
1 TAAAACTTTTTAAATTTTTT
12737101 TAA
1 TAA
12737104 TTTATTTTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 20 0.38
20 32 0.62
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (20 bp):
TAAAACTTTTTAAATTTTTT
Found at i:12737065 original size:30 final size:31
Alignment explanation
Indices: 12737029--12737092 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
12737019 AATCTAAAAC
*
12737029 TTTTAGAGTTTTTTAAAACTTTTT-AAATTT
1 TTTTAGAATTTTTTAAAACTTTTTGAAATTT
**
12737059 TTTTAGAATTTTTTAAATTTTTTTGAAATTT
1 TTTTAGAATTTTTTAAAACTTTTTGAAATTT
12737090 TTT
1 TTT
12737093 AATTCTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (31 bp):
TTTTAGAATTTTTTAAAACTTTTTGAAATTT
Found at i:12737238 original size:11 final size:11
Alignment explanation
Indices: 12737230--12737271 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
12737220 AAAATTTTGA
12737230 AAATTTTTTAG
1 AAATTTTTTAG
* *
12737241 AAA-TTTTAAA
1 AAATTTTTTAG
12737251 AAATTTTTTAG
1 AAATTTTTTAG
12737262 AAATTTTTTA
1 AAATTTTTTA
12737272 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (11 bp):
AAATTTTTTAG
Found at i:12737255 original size:21 final size:20
Alignment explanation
Indices: 12737221--12737304 Score: 89
Period size: 21 Copynumber: 4.2 Consensus size: 20
12737211 TTTTCGAAAA
*
12737221 AAATTTTGAAAATTTTTTAG
1 AAATTTTAAAAATTTTTTAG
12737241 AAATTTTAAAAAATTTTTTAG
1 AAATTTT-AAAAATTTTTTAG
** *
12737262 AAATTTT-TTAATTTTTTAT
1 AAATTTTAAAAATTTTTTAG
* * *
12737281 AATTTTTAAAAACTTTTTGG
1 AAATTTTAAAAATTTTTTAG
12737301 AAAT
1 AAAT
12737305 ATGAACAATT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 15 0.29
20 17 0.33
21 19 0.37
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.52
Consensus pattern (20 bp):
AAATTTTAAAAATTTTTTAG
Found at i:12737390 original size:21 final size:22
Alignment explanation
Indices: 12737366--12737408 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
12737356 TCATATTTTA
12737366 AAAAAAGTTTTTA-AATCATTT
1 AAAAAAGTTTTTAGAATCATTT
* *
12737387 -AAAAATTTTTTAGAATCTTTT
1 AAAAAAGTTTTTAGAATCATTT
12737408 A
1 A
12737409 GAATTTCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
AAAAAAGTTTTTAGAATCATTT
Found at i:12741606 original size:13 final size:13
Alignment explanation
Indices: 12741588--12741624 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
12741578 CTTCCTATTG
12741588 TCTTTATATATGT
1 TCTTTATATATGT
*
12741601 TCTTTAGATATGT
1 TCTTTATATATGT
*
12741614 TCCTTATATAT
1 TCTTTATATAT
12741625 TGATGGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (13 bp):
TCTTTATATATGT
Found at i:12742898 original size:18 final size:18
Alignment explanation
Indices: 12742875--12742936 Score: 124
Period size: 18 Copynumber: 3.4 Consensus size: 18
12742865 AATCTATGAT
12742875 ATTGAACTAGTCCGAATG
1 ATTGAACTAGTCCGAATG
12742893 ATTGAACTAGTCCGAATG
1 ATTGAACTAGTCCGAATG
12742911 ATTGAACTAGTCCGAATG
1 ATTGAACTAGTCCGAATG
12742929 ATTGAACT
1 ATTGAACT
12742937 TGGTTTATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (18 bp):
ATTGAACTAGTCCGAATG
Found at i:12743990 original size:321 final size:318
Alignment explanation
Indices: 12743123--12744083 Score: 953
Period size: 321 Copynumber: 3.0 Consensus size: 318
12743113 AAAGTTGAAA
* ** * *
12743123 TTTATGTTTATTTAGGACTTTTTGTGCCATTAAAAGGCAAAA-ATGCAAGTTTACAATTATTGTT
1 TTTATGTCTATTTAGGACTTTTTGTGCTGTTAAAAGGCAAAATAT--AAATTTGCAATTATTGTT
*
12743187 CTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
64 TTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
12743252 TTTCACTATTTATA-AGTGTGAAAAAGTTTCAGTTTATGTCTGTTTAGGAC-TTTTGTGCTGTT-
129 TTTCAC-ATTTATATA-TGTGAAAAAGTTTCA-TTTATGTCTGTTTAGGACTTTTTGTGCTGTTA
** * * * * * **
12743314 -AAGGGTAAAAT-TATAATTATGCAATAATTGTTATGTTTTAACAATTTAGATGGCCTAAATACA
191 AAAGGCAAAAATGTA-AAAT-TGCAATTATTGTTCTATTTTAACAATTTAGATAG-CTTTATACA
* * * * * * * *
12743377 TGATATTAAACTTGTTCAAATGATTGAACTTGGTTTTCATGATTGATATGTTTGAAAAAGTTGCT
253 TAATATTAAACTTGTTCGAATGTTTAAACTTGGTTTCCATGATTAATATGTATGAAAAAGTTACT
12743442 C
318 C
* * * ** * * *
12743443 CTTATGCCTGTTTAAAACTTTCTGTGCTGTTAAAAGGCAAAAATACAAATTTGCAGTTATTGTTT
1 TTTATGTCTATTTAGGACTTTTTGTGCTGTTAAAAGGC-AAAATATAAATTTGCAATTATTGTTT
* * * * * *
12743508 TATTTTAGCAATTTAGATATCTTCAATATATGATATTAAACTTTTTCAAATGCTTGAACTTGGTT
65 TATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
* ** * *
12743573 TCCACAGTTTATATATGTGAAAAAGTTGTGGTTTATGTTTGTTTAGGACTTTTTGTGTTGTTAAA
130 TTCACA-TTTATATATGTGAAAAAGTT-TCATTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAA
* * * * * *
12743638 AGGCAAAAATG-CATATTTCTAGTTATTGTTCTATTTTAGCAATTTATATAGCTTTATTACATAA
193 AGGCAAAAATGTAAAATTGC-AATTATTGTTCTATTTTAACAATTTAGATAGCTTTA-TACATAA
*
12743702 TATTAAACTTG-TCTGAATGTTTAAACTTTGTTTCCACT-ATTAATATGTATGAAAAAGTTAC-C
256 TATTAAACTTGTTC-GAATGTTTAAACTTGGTTTCCA-TGATTAATATGTATGAAAAAGTTACTC
* *
12743764 GTTTATGTCTATTTAGGACTTTTTGTGCTGTTAGAGAGG-AAAATATAATTTTGCAATTA-TGTT
1 -TTTATGTCTATTTAGGACTTTTTGTGCTGTTA-AAAGGCAAAATATAAATTTGCAATTATTG-T
* * * * *
12743827 TTTGTTTTAACAATTTAGATAGCTTAAATACATTATATTAAACTTGTCCGAATGATTGAATTTGG
63 TTTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGG
* * * * ** *
12743892 TTTTTACGATTGATATATGTAAAAAAGTTACCATTTATGTCTGTTTAATACTTTTTGTGCTATTA
128 TTTTCAC-ATTTATATATGTGAAAAAGTT-TCATTTATGTCTGTTTAGGACTTTTTGTGCTGTTA
* * *
12743957 AAAGGCAAAAATGTAAAATTGCAATTGTTGTTCTATTTTAATAGA-TTAGATATCTTTA-ACATA
191 AAAGGCAAAAATGTAAAATTGCAATTATTGTTCTATTTTAACA-ATTTAGATAGCTTTATACATA
* * * * * *
12744020 TGATATTAAACTTGTTCGAATGTTTAAACATGATTGCCACGCTTGATATGTAT-AAATAAGTTAC
255 --ATATTAAACTTGTTCGAATGTTTAAACTTGGTTTCCATGATTAATATGTATGAAA-AAGTTAC
12744084 AGTTGATATG
Statistics
Matches: 518, Mismatches: 99, Indels: 47
0.78 0.15 0.07
Matches are distributed among these distances:
319 6 0.01
320 147 0.28
321 235 0.45
322 116 0.22
323 14 0.03
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (318 bp):
TTTATGTCTATTTAGGACTTTTTGTGCTGTTAAAAGGCAAAATATAAATTTGCAATTATTGTTTT
ATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTTT
TCACATTTATATATGTGAAAAAGTTTCATTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGG
CAAAAATGTAAAATTGCAATTATTGTTCTATTTTAACAATTTAGATAGCTTTATACATAATATTA
AACTTGTTCGAATGTTTAAACTTGGTTTCCATGATTAATATGTATGAAAAAGTTACTC
Found at i:12744023 original size:482 final size:481
Alignment explanation
Indices: 12743123--12744041 Score: 1233
Period size: 482 Copynumber: 1.9 Consensus size: 481
12743113 AAAGTTGAAA
12743123 TTTATGTTTATTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATGCAAGTTTACAATTATTGTTC
1 TTTATGTTTATTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATGCAAGTTTACAATTATTGTTC
* *
12743188 TATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
66 TATTTTAACAATTTAGATAGCTTCAATACATAATATTAAACTTGTTCGAATGATTAAACTTGGTT
* * * * *
12743253 TTCACTATTTATAAGTGTGAAAAAGTTTCAGTTTATGTCTGTTTAGGACTTTTGTGCTGTTAAGG
131 TCCACTATTAATAAGTATGAAAAAGTTACAGTTTATGTCTATTTAGGACTTTTGTGCTGTTAAGG
*
12743318 GTAAAATTATAATTATGCAATAATTGTTATGTTTTAACAATTTAGATGGCCTAAATACATGATAT
196 GTAAAATTATAATTATGCAATAATTGTTATGTTTTAACAATTTAGATAGCCTAAATACATGATAT
* * * * * *
12743383 TAAACTTGTTCAAATGATTGAACTTGGTTTTCATGATTGATATGTTTGAAAAAGTTGCTCCTTAT
261 TAAACTTGTCCAAATGATTGAACTTGGTTTTCACGATTGATATATGTAAAAAAGTTACTCCTTAT
* * * *
12743448 GCCTGTTTAAAACTTTCTGTGCTGTTAAAAGGCAAAAATACAAATTTGCAGTTATTGTTTTATTT
326 GCCTGTTTAAAACTTTCTGTGCTATTAAAAGGCAAAAATACAAAATTGCAATTATTGTTCTATTT
* * *
12743513 TAGCAATTTAGATATCTTCAATATATGATATTAAACTTTTTCAAATGCTTGAACTTGGTTTCCAC
391 TAACAATTTAGATATCTTCAACATATGATATTAAACTTGTTCAAATGCTTGAACTTGGTTTCCAC
12743578 AGTTTATATATGTGAAAAAGTTGTGG
456 AGTTTATATATGTGAAAAAGTTGTGG
* *** *
12743604 TTTATGTTTGTTTAGGACTTTTTGTGTTGTTAAAAGGCAAAAATGCATA-TTT-CTAGTTATTGT
1 TTTATGTTTATTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATGCA-AGTTTAC-AATTATTGT
* * * * * *
12743667 TCTATTTTAGCAATTTATATAGCTTTATTACATAATATTAAACTTG-TCTGAATGTTTAAACTTT
64 TCTATTTTAACAATTTAGATAGCTTCAATACATAATATTAAACTTGTTC-GAATGATTAAACTTG
* *
12743731 GTTTCCACTATTAATATGTATGAAAAAGTTACCGTTTATGTCTATTTAGGACTTTTTGTGCTGTT
128 GTTTCCACTATTAATAAGTATGAAAAAGTTACAGTTTATGTCTATTTAGGAC-TTTTGTGCTGTT
* * * *
12743796 AGAGAGG-AAAA-TATAATTTTGCAATTA-TGTTTTTGTTTTAACAATTTAGATAGCTTAAATAC
192 A-AG-GGTAAAATTATAATTATGCAATAATTG-TTATGTTTTAACAATTTAGATAGCCTAAATAC
* * * *
12743858 ATTATATTAAACTTGTCCGAATGATTGAATTTGGTTTTTACGATTGATATATGTAAAAAAGTTAC
254 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCACGATTGATATATGTAAAAAAGTTAC
* * * * ** *
12743923 -CATTTATGTCTGTTTAATACTTTTTGTGCTATTAAAAGGCAAAAATGTAAAATTGCAATTGTTG
319 TC-CTTATGCCTGTTTAAAACTTTCTGTGCTATTAAAAGGCAAAAATACAAAATTGCAATTATTG
* * *
12743987 TTCTATTTTAATAGA-TTAGATATCTTTAACATATGATATTAAACTTGTTCGAATG
383 TTCTATTTTAACA-ATTTAGATATCTTCAACATATGATATTAAACTTGTTCAAATG
12744042 TTTAAACATG
Statistics
Matches: 377, Mismatches: 52, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
480 3 0.01
481 155 0.41
482 210 0.56
483 7 0.02
484 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (481 bp):
TTTATGTTTATTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATGCAAGTTTACAATTATTGTTC
TATTTTAACAATTTAGATAGCTTCAATACATAATATTAAACTTGTTCGAATGATTAAACTTGGTT
TCCACTATTAATAAGTATGAAAAAGTTACAGTTTATGTCTATTTAGGACTTTTGTGCTGTTAAGG
GTAAAATTATAATTATGCAATAATTGTTATGTTTTAACAATTTAGATAGCCTAAATACATGATAT
TAAACTTGTCCAAATGATTGAACTTGGTTTTCACGATTGATATATGTAAAAAAGTTACTCCTTAT
GCCTGTTTAAAACTTTCTGTGCTATTAAAAGGCAAAAATACAAAATTGCAATTATTGTTCTATTT
TAACAATTTAGATATCTTCAACATATGATATTAAACTTGTTCAAATGCTTGAACTTGGTTTCCAC
AGTTTATATATGTGAAAAAGTTGTGG
Found at i:12744068 original size:161 final size:161
Alignment explanation
Indices: 12743122--12744083 Score: 849
Period size: 161 Copynumber: 6.0 Consensus size: 161
12743112 TAAAGTTGAA
* * ** * * *
12743122 ATTTATGTTTATTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATGCAAGTTTACAATTATTGTT
1 ATTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGCAATTATTGTT
*
12743187 CTATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
66 CTATTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
* * * * *
12743252 TTTCACTATTTATA-AGTGTGAAAAAGTT-TC
131 TTCCACGATTGATATA-TGTAAAAAAGTTACC
** *
12743282 AGTTTATGTCTGTTTAGGAC-TTTTGTGCTGTT--AAGGGTAAAAT-TATAATTATGCAATAATT
1 A-TTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGTA-AATT-TGCAATTATT
* * * * *
12743343 GTTATGTTTTAACAATTTAGATGGCCTAAATACATGATATTAAACTTGTTCAAATGATTGAACTT
63 GTTCTATTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTT
* * * * * *
12743408 GGTTTTCATGATTGATATGTTTGAAAAAGTTGCTC
128 GGTTTCCACGATTGATATATGTAAAAAAGTTAC-C
* * ** * ** *
12743443 -CTTATGCCTGTTTAAAACTTTCTGTGCTGTTAAAAGGCAAAAATACAAATTTGCAGTTATTGTT
1 ATTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGCAATTATTGTT
* * * * * * * *
12743507 TTATTTTAGCAATTTAGATATCTTCAATATATGATATTAAACTTTTTCAAATGCTTGAACTTGGT
66 CTATTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
* * ***
12743572 TTCCAC-AGTTTATATATGTGAAAAAGTTGTG
131 TTCCACGA-TTGATATATGTAAAAAAGTTACC
* * * * * *
12743603 GTTTATGTTTGTTTAGGACTTTTTGTGTTGTTAAAAGGCAAAAATGCATATTT-CTAGTTATTGT
1 ATTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGC-AATTATTGT
* * * * * * * *
12743667 TCTATTTTAGCAATTTATATAGCTTTATTACATAATATTAAACTTG-TCTGAATGTTTAAACTTT
65 TCTATTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTGTTC-GAATGATTGAACTTG
*
12743731 GTTTCCACTATT-A-ATATGTATGAAAAAGTTACC
129 GTTTCCACGATTGATATATGTA--AAAAAGTTACC
* * * * *
12743764 GTTTATGTCTATTTAGGACTTTTTGTGCTGTTAGAGAGG--AAAATATAATTTTGCAATTA-TGT
1 ATTTATGTCTGTTTAGGACTTTTTGTGCTGTTA-AAAGGCAAAAATGTAAATTTGCAATTATTG-
* * * * *
12743826 TTTTGTTTTAACAATTTAGATAGCTTAAATACATTATATTAAACTTGTCCGAATGATTGAATTTG
64 TTCTATTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTG
**
12743891 GTTTTTACGATTGATATATGTAAAAAAGTTACC
129 GTTTCCACGATTGATATATGTAAAAAAGTTACC
** * * *
12743924 ATTTATGTCTGTTTAATACTTTTTGTGCTATTAAAAGGCAAAAATGTAAAATTGCAATTGTTGTT
1 ATTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGCAATTATTGTT
* * * * * * * * *
12743989 CTATTTTAATAGA-TTAGATATCTTTAACATATGATATTAAACTTGTTCGAATGTTTAAACATGA
66 CTATTTTAACA-ATTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTGG
* * * * *
12744053 TTGCCACGCTTGATATGTATAAATAAGTTAC
130 TTTCCACGATTGATATATGTAAAAAAGTTAC
12744084 AGTTGATATG
Statistics
Matches: 646, Mismatches: 129, Indels: 53
0.78 0.16 0.06
Matches are distributed among these distances:
157 1 0.00
158 12 0.02
159 118 0.18
160 139 0.22
161 347 0.54
162 28 0.04
163 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (161 bp):
ATTTATGTCTGTTTAGGACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGCAATTATTGTT
CTATTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
TTCCACGATTGATATATGTAAAAAAGTTACC
Found at i:12746137 original size:16 final size:16
Alignment explanation
Indices: 12746108--12746151 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
12746098 ATCTTTGTAT
*
12746108 TTTATCTTAATTGTCTA
1 TTTAT-TTATTTGTCTA
*
12746125 TTTATTTATTTGTTTA
1 TTTATTTATTTGTCTA
*
12746141 TTTGTTTATTT
1 TTTATTTATTT
12746152 TATTTATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTATTTATTTGTCTA
Found at i:12746140 original size:8 final size:8
Alignment explanation
Indices: 12746118--12746161 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
12746108 TTTATCTTAA
*
12746118 TTGTCTAT
1 TTGTTTAT
*
12746126 TTATTTAT
1 TTGTTTAT
12746134 TTGTTTAT
1 TTGTTTAT
12746142 TTGTTTATT
1 TTGTTTA-T
*
12746151 TTATTTAT
1 TTGTTTAT
12746159 TTG
1 TTG
12746162 ACTATTTACG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (8 bp):
TTGTTTAT
Found at i:12751030 original size:144 final size:143
Alignment explanation
Indices: 12750570--12751124 Score: 489
Period size: 144 Copynumber: 3.9 Consensus size: 143
12750560 TCATTTTTGA
* * * * *
12750570 GATTTTAAA-GCACCAAAAATCATTAAATATTTTAAAATTAAGATCTGAAAAGTTTTATGAAAA-
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAAT
* * * * ** * * **
12750633 TCGA-ACTCGAAAAAGCTAAATTACAAAAATACTTTTATAACGATATTTTGGTAATTTCATACTT
66 TC-ATGCTTGAGAAAGCCAAATTACAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACCCTT
* *
12750697 CTTGGGGTATTGCTAT
130 C-TCGGGTA-TACTAT
* * * * * ** *
12750713 AATTTCAAATGCACTAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTTGT-GAAAT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAAT
* * * *
12750777 T-TTGAGTTTAGAAAGGCCAAATTACAAAAATACCCCTTA-AAGGGTATTTTGGTAATTTCACCT
66 TCATG-CTTGAGAAA-GCCAAATTACAAAAATA-CCCTTATAAGGGTATTTTGGTAATTTCACCC
* *
12750840 TTATCGGG-ATACTGTT
128 TTCTCGGGTATACT-AT
* * * * *
12750856 GTAGTTTCAAACT-CACAAAAAATTATGAAATATTATAAAATTAAAATATGAAAAGTTTCACAAA
1 G-A-TTTCAAA-TGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAA
* * *
12750920 AATTCATGCTTGGGAAAGCCAAATTAC-AAAATACCCTTATAAGGGTACTTTGATAATTTCACCC
63 AATTCATGCTTGAGAAAGCCAAATTACAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACCC
12750984 TTCTCGTGGTACTACTAT
128 TTCTCG-GGTA-TACTAT
* * *
12751002 GATTTTAAATGCACCAAAAATCATGAAATATTATATAATTAAGATCTGAAAGGTTTCATAAAAAT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAAT
* * *** **
12751067 TCAAGCTTGGGAATTTCAAATTACAAAAATACCTCTTATAAGTATATTTTGGTAATTT
66 TCATGCTTGAGAAAGCCAAATTACAAAAATACC-CTTATAAGGGTATTTTGGTAATTT
12751125 TGCCATTCCC
Statistics
Matches: 328, Mismatches: 65, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
142 3 0.01
143 19 0.06
144 158 0.48
145 103 0.31
146 39 0.12
147 6 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (143 bp):
GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAAT
TCATGCTTGAGAAAGCCAAATTACAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACCCTTC
TCGGGTATACTAT
Found at i:12751165 original size:144 final size:144
Alignment explanation
Indices: 12750873--12751154 Score: 332
Period size: 144 Copynumber: 2.0 Consensus size: 144
12750863 CAAACTCACA
* *
12750873 AAAAATTATGAAATATTATAAAATTAAAATATGAAAAGTTTCACAAAAATTCATGCTTGGGAAAG
1 AAAAATCATGAAATATTATAAAATTAAAATATGAAAAGTTTCACAAAAATTCAAGCTTGGGAAAG
* * * * * * **
12750938 CCAAATTACAAAATACCCTTATAAGGGTACTTTGATAATTTCACCCTTCTCGTGGTACTACTATG
66 CCAAATTACAAAATACCCTTATAAGGATACTTTGATAATTTCACCATTCCCGAGGCACTAATAAA
12751003 ATTTTAAATGCACC
131 ATTTTAAATGCACC
* * * * * **
12751017 AAAAATCATGAAATATTATATAATTAAGATCTGAAAGGTTTCATAAAAATTCAAGCTTGGGAATT
1 AAAAATCATGAAATATTATAAAATTAAAATATGAAAAGTTTCACAAAAATTCAAGCTTGGGAAAG
* * * * **
12751082 TCAAATTACAAAAATACCTCTTATAAGTATATTTTGGTAATTTTGCCATTCCCGAGGCA-TAATA
66 CCAAATTAC-AAAATACC-CTTATAAGGATACTTTGATAATTTCACCATTCCCGAGGCACTAATA
12751146 AAATTTTAA
129 AAATTTTAA
12751155 TGTTTCAAAA
Statistics
Matches: 113, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
144 64 0.57
145 19 0.17
146 30 0.27
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (144 bp):
AAAAATCATGAAATATTATAAAATTAAAATATGAAAAGTTTCACAAAAATTCAAGCTTGGGAAAG
CCAAATTACAAAATACCCTTATAAGGATACTTTGATAATTTCACCATTCCCGAGGCACTAATAAA
ATTTTAAATGCACC
Found at i:12760266 original size:17 final size:17
Alignment explanation
Indices: 12760225--12760266 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
12760215 CTTAATTGTT
* *
12760225 TAATTTTTTATTTTTAG
1 TAATTTTTCATTTTCAG
*
12760242 TAACTTTTCATTTTCAG
1 TAATTTTTCATTTTCAG
12760259 TAATTTTT
1 TAATTTTT
12760267 ATATTTAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (17 bp):
TAATTTTTCATTTTCAG
Found at i:12770834 original size:26 final size:25
Alignment explanation
Indices: 12770805--12770974 Score: 112
Period size: 26 Copynumber: 6.5 Consensus size: 25
12770795 TAGGATTTTG
12770805 ATTTTAGGGTTTTATTTAAGGTTTCA
1 ATTTTAGGGTTTTATTT-AGGTTTCA
*
12770831 ATTTTAGGGTTTCATTTAAGGTTTCA
1 ATTTTAGGGTTTTATTT-AGGTTTCA
* * * *
12770857 AATTTAAGGTTTCAGTTAGGATTTCA
1 ATTTTAGGGTTTTATTTAGG-TTTCA
** *
12770883 ATTTTAACGTTTCAATCTTAGGATTTC-
1 ATTTTAGGGTTT-TAT-TTAGG-TTTCA
* * * *
12770910 ATTTAAGGATTTAACATTAGGTTTC-
1 ATTTTAGGGTTTTA-TTTAGGTTTCA
*
12770935 -GTTTAGGGTTTTAATTTTAGGGTTTCA
1 ATTTTAGGGTTTT-A-TTTA-GGTTTCA
12770962 ATTTTAGGGTTTT
1 ATTTTAGGGTTTT
12770975 GGTCTTAGGA
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
24 8 0.07
25 11 0.09
26 67 0.58
27 9 0.08
28 21 0.18
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (25 bp):
ATTTTAGGGTTTTATTTAGGTTTCA
Found at i:12770897 original size:14 final size:14
Alignment explanation
Indices: 12770819--12770973 Score: 91
Period size: 14 Copynumber: 11.7 Consensus size: 14
12770809 TAGGGTTTTA
12770819 TTTAAGGTTTCAAT
1 TTTAAGGTTTCAAT
*
12770833 TTTAGGGTTTC-A-
1 TTTAAGGTTTCAAT
*
12770845 TTTAAGGTTTCAAA
1 TTTAAGGTTTCAAT
12770859 TTTAAGGTTTC-A-
1 TTTAAGGTTTCAAT
*
12770871 GTT-AGGATTTCAAT
1 TTTAAGG-TTTCAAT
*
12770885 TTTAACGTTTCAAT
1 TTTAAGGTTTCAAT
*
12770899 CTT-AGGATTTC-A-
1 TTTAAGG-TTTCAAT
*
12770911 TTTAAGGATTT-AAC
1 TTTAAGG-TTTCAAT
* *
12770925 ATT-AGGTTTC--G
1 TTTAAGGTTTCAAT
* *
12770936 TTTAGGGTTTTAAT
1 TTTAAGGTTTCAAT
*
12770950 TTTAGGGTTTCAAT
1 TTTAAGGTTTCAAT
*
12770964 TTTAGGGTTT
1 TTTAAGGTTT
12770974 TGGTCTTAGG
Statistics
Matches: 112, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
11 5 0.04
12 26 0.23
13 18 0.16
14 61 0.54
15 2 0.02
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (14 bp):
TTTAAGGTTTCAAT
Found at i:12770898 original size:66 final size:65
Alignment explanation
Indices: 12770819--12770973 Score: 199
Period size: 65 Copynumber: 2.4 Consensus size: 65
12770809 TAGGGTTTTA
12770819 TTTAAGGTTTCAATTTTAGGGTTTCATTTAAGG-TTTCAA-ATTTAAGGTTTCAG-TTAGGATTT
1 TTTAAGGTTTCAATTTTAGGGTTTCATTTAAGGATTT-AACA-TT-AGGTTTC-GTTTAGGATTT
12770881 CAAT
62 CAAT
* * * * *
12770885 TTTAACGTTTCAATCTTAGGATTTCATTTAAGGATTTAACATTAGGTTTCGTTTAGGGTTTTAAT
1 TTTAAGGTTTCAATTTTAGGGTTTCATTTAAGGATTTAACATTAGGTTTCGTTTAGGATTTCAAT
*
12770950 TTTAGGGTTTCAATTTTAGGGTTT
1 TTTAAGGTTTCAATTTTAGGGTTT
12770974 TGGTCTTAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
64 1 0.01
65 38 0.49
66 34 0.44
67 4 0.05
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (65 bp):
TTTAAGGTTTCAATTTTAGGGTTTCATTTAAGGATTTAACATTAGGTTTCGTTTAGGATTTCAAT
Found at i:12770910 original size:40 final size:41
Alignment explanation
Indices: 12770818--12770921 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 41
12770808 TTAGGGTTTT
* * * *
12770818 ATTTAAGGTTTCAATTTTAGGGTTTC-A-TTTAAGGTTTCAA
1 ATTTAAGGTTTC-AGTTAAGGATTTCAATTTTAACGTTTCAA
12770858 ATTTAAGGTTTCAGTT-AGGATTTCAATTTTAACGTTTC-A
1 ATTTAAGGTTTCAGTTAAGGATTTCAATTTTAACGTTTCAA
*
12770897 ATCTT-AGGATTTCATTTAAGGATTT
1 AT-TTAAGG-TTTCAGTTAAGGATTT
12770922 AACATTAGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
38 7 0.13
39 10 0.18
40 31 0.56
41 7 0.13
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (41 bp):
ATTTAAGGTTTCAGTTAAGGATTTCAATTTTAACGTTTCAA
Found at i:12770961 original size:79 final size:80
Alignment explanation
Indices: 12770872--12771027 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 80
12770862 AAGGTTTCAG
12770872 TTAGGATTTCAATTTTAACGTTTCAATCTTAGGATTTCATTTAAGGATTTAACATTA-GGTTTCG
1 TTAGGATTTCAATTTTAACGTTTCAATCTTAGGATTTCATTTAAGGATTTAACATTAGGGTTTCG
12770936 -TTTAGGGTTTTAATT
66 TTTTA-GGTTTTAATT
* ** *** *
12770951 TTAGGGTTTCAATTTTAGGGTTTTGGTCTTAGGATTTCATTTAAGGTTTTAACATTAGGGTTTCG
1 TTAGGATTTCAATTTTAACGTTTCAATCTTAGGATTTCATTTAAGGATTTAACATTAGGGTTTCG
12771016 TTTTAGGTTTTA
66 TTTTAGGTTTTA
12771028 GTAATTTACA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
79 50 0.74
80 14 0.21
81 4 0.06
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.49
Consensus pattern (80 bp):
TTAGGATTTCAATTTTAACGTTTCAATCTTAGGATTTCATTTAAGGATTTAACATTAGGGTTTCG
TTTTAGGTTTTAATT
Found at i:12771008 original size:26 final size:25
Alignment explanation
Indices: 12770858--12771027 Score: 110
Period size: 26 Copynumber: 6.5 Consensus size: 25
12770848 AAGGTTTCAA
* *
12770858 ATTTAAGG-TTTCAGTTAGGATTTC
1 ATTTAAGGTTTTAACTTAGGATTTC
* *
12770882 AATTTTAACGTTTCAATCTTAGGATTTC
1 -A-TTTAAGGTTTTAA-CTTAGGATTTC
*
12770910 ATTTAAGGATTTAACATTAGG-TTTC
1 ATTTAAGGTTTTAAC-TTAGGATTTC
* * * *
12770935 GTTTAGGGTTTTAATTTTAGGGTTTC
1 ATTTAAGGTTTTAA-CTTAGGATTTC
* **
12770961 AATTTTAGGGTTTTGGTCTTAGGATTTC
1 -A-TTTAAGGTTTT-AACTTAGGATTTC
*
12770989 ATTTAAGGTTTTAACATTAGGGTTTC
1 ATTTAAGGTTTTAAC-TTAGGATTTC
* *
12771015 GTTTTAGGTTTTA
1 ATTTAAGGTTTTA
12771028 GTAATTTACA
Statistics
Matches: 113, Mismatches: 22, Indels: 19
0.73 0.14 0.12
Matches are distributed among these distances:
25 23 0.20
26 55 0.49
27 5 0.04
28 30 0.27
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.49
Consensus pattern (25 bp):
ATTTAAGGTTTTAACTTAGGATTTC
Found at i:12771009 original size:54 final size:51
Alignment explanation
Indices: 12770926--12771026 Score: 130
Period size: 54 Copynumber: 1.9 Consensus size: 51
12770916 GGATTTAACA
* * **
12770926 TTAGGTTTCGTTTAGGGTTTTAATTTTAGGGTTTCAATTTTAGGGTTTTGGTC
1 TTAGGTTTCATTTAAGGTTTTAACATTAGGGTTTC-ATTTTA-GGTTTTGGTC
*
12770979 TTAGGATTTCATTTAAGGTTTTAACATTAGGGTTTCGTTTTAGGTTTT
1 TTAGG-TTTCATTTAAGGTTTTAACATTAGGGTTTCATTTTAGGTTTT
12771027 AGTAATTTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 6 0.14
53 10 0.24
54 26 0.62
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.52
Consensus pattern (51 bp):
TTAGGTTTCATTTAAGGTTTTAACATTAGGGTTTCATTTTAGGTTTTGGTC
Found at i:12771533 original size:3 final size:3
Alignment explanation
Indices: 12771527--12771567 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
12771517 AAATAATCAC
12771527 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12771568 GGATTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12772337 original size:35 final size:35
Alignment explanation
Indices: 12772298--12772366 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
12772288 CTGCAAATCA
* * *
12772298 AGAAATAAGGATGACCAACATTAAACCACAAGTTG
1 AGAAATAAAGATGACCAAAACTAAACCACAAGTTG
* *
12772333 AGAAATAAAGATGATCAAAACTAAGCCACAAGTT
1 AGAAATAAAGATGACCAAAACTAAACCACAAGTT
12772367 AGGGAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (35 bp):
AGAAATAAAGATGACCAAAACTAAACCACAAGTTG
Found at i:12772643 original size:18 final size:19
Alignment explanation
Indices: 12772620--12772656 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12772610 TTTTACTTGT
12772620 TTTCAA-AAAAAAAATAAA
1 TTTCAAGAAAAAAAATAAA
*
12772638 TTTCAAGAAAAAAAGTAAA
1 TTTCAAGAAAAAAAATAAA
12772657 AAAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (19 bp):
TTTCAAGAAAAAAAATAAA
Found at i:12773270 original size:26 final size:27
Alignment explanation
Indices: 12773234--12773290 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
12773224 TCCAGTTTTC
*
12773234 TTTTTGCTTTCT-AATTTTATTTTTTAT
1 TTTTTGCTTTCTCAATTTT-TTCTTTAT
*
12773261 TTTTTG-TTTCTCTATTTTTTCTTTAT
1 TTTTTGCTTTCTCAATTTTTTCTTTAT
12773287 TTTT
1 TTTT
12773291 ATTCTCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.77
Consensus pattern (27 bp):
TTTTTGCTTTCTCAATTTTTTCTTTAT
Found at i:12773279 original size:22 final size:25
Alignment explanation
Indices: 12773250--12773305 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 25
12773240 CTTTCTAATT
12773250 TTATTTTTTATTT-TTTGT-TTCTC
1 TTATTTTTTATTTATTTGTATTCTC
* *
12773273 -TATTTTTTCTTTATTTTTATTCTC
1 TTATTTTTTATTTATTTGTATTCTC
12773297 TTATTTTTT
1 TTATTTTTT
12773306 GTATTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 11 0.39
23 4 0.14
24 5 0.18
25 8 0.29
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.79
Consensus pattern (25 bp):
TTATTTTTTATTTATTTGTATTCTC
Found at i:12773474 original size:21 final size:19
Alignment explanation
Indices: 12773445--12773513 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 19
12773435 GCATAACATT
*
12773445 TTATCTTAATTACATGATA
1 TTATATTAATTACATGATA
*
12773464 GTTTATATTAATTGCATGATA
1 --TTATATTAATTACATGATA
*
12773485 TCATATTATTATTACATGATA
1 TTATATTA--ATTACATGATA
12773506 TTATATTA
1 TTATATTA
12773514 TTATTTGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 7 0.17
21 34 0.83
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (19 bp):
TTATATTAATTACATGATA
Found at i:12773514 original size:21 final size:21
Alignment explanation
Indices: 12773453--12773518 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
12773443 TTTTATCTTA
12773453 ATTACATGATAGTT-TA-TATT
1 ATTACATGATA-TTATATTATT
* *
12773473 AATTGCATGATATCATATTATT
1 -ATTACATGATATTATATTATT
12773495 ATTACATGATATTATATTATT
1 ATTACATGATATTATATTATT
12773516 ATT
1 ATT
12773519 TGCATAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.87
22 4 0.10
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (21 bp):
ATTACATGATATTATATTATT
Found at i:12773718 original size:101 final size:101
Alignment explanation
Indices: 12773593--12773841 Score: 304
Period size: 101 Copynumber: 2.5 Consensus size: 101
12773583 TAAAAAAATA
* * * * *
12773593 AAAATTTCTAGTCCTAGC-AACTATTAAAGGATTTAAATCTTGAATTAAGTTTTACCAAACTATT
1 AAAATTTTTAATCCTACCAAACTATTAAAGGATTTAAATATTGAATTAAGTTTTACCAAAATATT
*
12773657 GGAAGATTTAATGAACTCTTT-AAAAATAATAATAAT
66 GGAAGACTTAATGAACTCTTTGAAAAA-AATAATAAT
** *
12773693 AAAATTTTTAATCCTACCAAACTATTGGAGGATTTAAATATTGAATTAAGTTTTATCAAAATATT
1 AAAATTTTTAATCCTACCAAACTATTAAAGGATTTAAATATTGAATTAAGTTTTACCAAAATATT
** * * * *
12773758 GGTGGACTTAATGAATTTTTTGTAAAAGATAATAAT
66 GGAAGACTTAATGAACTCTTTGAAAAAAATAATAAT
* * * *
12773794 GAAATTTTCAATTCTACCAAACTATTAAAGGGTTTAAATATTGAATTA
1 AAAATTTTTAATCCTACCAAACTATTAAAGGATTTAAATATTGAATTA
12773842 GATCTCACCA
Statistics
Matches: 126, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
100 15 0.12
101 107 0.85
102 4 0.03
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (101 bp):
AAAATTTTTAATCCTACCAAACTATTAAAGGATTTAAATATTGAATTAAGTTTTACCAAAATATT
GGAAGACTTAATGAACTCTTTGAAAAAAATAATAAT
Found at i:12773870 original size:101 final size:100
Alignment explanation
Indices: 12773589--12773883 Score: 285
Period size: 101 Copynumber: 2.9 Consensus size: 100
12773579 GGTTTAAAAA
* * * *
12773589 AATAAAAATTTCTAGTCCTAGC-AACTATTAAAGGATTTAAATCTTGAATTAAGTTTTACCAAAC
1 AATAAAATTTTC-AATCCTACCAAACTATTAAAGGATTTAAATATTGAATTAAGTTTTACC-AAC
* * * *
12773653 TATTGGAAGATTTAATGAACTCTTTAAAAATAATAAT
64 AATTGGAAGGTTTAATGAATTTTTTAAAAATAATAAT
* ** * *
12773690 AATAAAATTTTTAATCCTACCAAACTATTGGAGGATTTAAATATTGAATTAAGTTTTATCAAAAT
1 AATAAAATTTTCAATCCTACCAAACTATTAAAGGATTTAAATATTGAATTAAGTTTTACCAACA-
* * * *
12773755 ATTGG-TGGACTTAATGAATTTTTTGTAAAA-GATAAT
65 ATTGGAAGG-TTTAATGAATTTTTT-AAAAATAATAAT
* * * * *
12773791 AATGAAATTTTCAATTCTACCAAACTATTAAAGGGTTTAAATATTGAATT-AGATCTCACCATAC
1 AATAAAATTTTCAATCCTACCAAACTATTAAAGGATTTAAATATTGAATTAAG-TTTTACCA-AC
12773855 AATTGGAAGGTTTAAT-AATTTTCTTAAAA
64 AATTGGAAGGTTTAATGAATTTT-TTAAAA
12773884 TAAATTTCAT
Statistics
Matches: 156, Mismatches: 30, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
100 21 0.13
101 127 0.81
102 8 0.05
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (100 bp):
AATAAAATTTTCAATCCTACCAAACTATTAAAGGATTTAAATATTGAATTAAGTTTTACCAACAA
TTGGAAGGTTTAATGAATTTTTTAAAAATAATAAT
Found at i:12774550 original size:106 final size:106
Alignment explanation
Indices: 12774400--12774591 Score: 246
Period size: 106 Copynumber: 1.8 Consensus size: 106
12774390 GTTATGAAAT
* ** *
12774400 TTAAGAAATAAAGATGACCAAAATGAAGTCATAAGTTAGAAAATAAAAAGTGACTAGGATTGAAC
1 TTAAGAAATAAAGATGACCAAAATGAAGTCATAAGTAAGAAAATAAAAAGCAACTAGGATTAAAC
12774465 CATAAATCAAGAAACAATAATAACTAGGAAGAAGCTACAAG
66 CATAAATCAAGAAACAATAATAACTAGGAAGAAGCTACAAG
* * *
12774506 TTAAGAAATAAAGATGA-CAAGGATGAAGT-TTCAAGTCAAG-AAATAAAAAGCAATTAGGATTA
1 TTAAGAAATAAAGATGACCAA-AATGAAGTCAT-AAGT-AAGAAAATAAAAAGCAACTAGGATTA
* **
12774568 AACCGTAAATTGAGAAACAATAAT
63 AACCATAAATCAAGAAACAATAAT
12774592 GACAAAAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
105 4 0.05
106 67 0.92
107 2 0.03
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.20
Consensus pattern (106 bp):
TTAAGAAATAAAGATGACCAAAATGAAGTCATAAGTAAGAAAATAAAAAGCAACTAGGATTAAAC
CATAAATCAAGAAACAATAATAACTAGGAAGAAGCTACAAG
Found at i:12775642 original size:11 final size:10
Alignment explanation
Indices: 12775626--12775659 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
12775616 TATTCTTCCA
12775626 TTTTCTTCTTT
1 TTTTCTT-TTT
12775637 TTTTCTTTTT
1 TTTTCTTTTT
12775647 TTTTCTTTTT
1 TTTTCTTTTT
12775657 TTT
1 TTT
12775660 ATTTTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:12784895 original size:25 final size:25
Alignment explanation
Indices: 12784844--12784897 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
12784834 TAAACATTAT
* *
12784844 ACAAATAACAAAATAAAAAATCCAA
1 ACAAATAACAAAATAAAAAAGCAAA
*
12784869 ACAAATAA-ATAATAAAAATAGCAAA
1 ACAAATAACAAAATAAAAA-AGCAAA
12784894 ACAA
1 ACAA
12784898 CCATATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.72, C:0.13, G:0.02, T:0.13
Consensus pattern (25 bp):
ACAAATAACAAAATAAAAAAGCAAA
Found at i:12786587 original size:12 final size:12
Alignment explanation
Indices: 12786567--12786616 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
12786557 AGGTTTTGAT
12786567 TTTAAGGTTTCA
1 TTTAAGGTTTCA
* *
12786579 TTTAGGGTTTTAA
1 TTTAAGG-TTTCA
12786592 TTTCAAGGTTTCA
1 TTT-AAGGTTTCA
*
12786605 TTTAGGGTTTCA
1 TTTAAGGTTTCA
12786617 ATTTTATGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 14 0.45
13 14 0.45
14 3 0.10
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (12 bp):
TTTAAGGTTTCA
Found at i:12786587 original size:26 final size:26
Alignment explanation
Indices: 12786558--12786628 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
12786548 TTTCACTAAA
*
12786558 GGTTTTGATTTTAAGGTTTCATTTAG
1 GGTTTTAATTTTAAGGTTTCATTTAG
*
12786584 GGTTTTAATTTCAAGGTTTCATTTAG
1 GGTTTTAATTTTAAGGTTTCATTTAG
* *
12786610 GGTTTCAATTTTATGGTTT
1 GGTTTTAATTTTAAGGTTT
12786629 TGGTCTTAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.20, C:0.06, G:0.21, T:0.54
Consensus pattern (26 bp):
GGTTTTAATTTTAAGGTTTCATTTAG
Found at i:12786654 original size:66 final size:66
Alignment explanation
Indices: 12786574--12786710 Score: 159
Period size: 66 Copynumber: 2.1 Consensus size: 66
12786564 GATTTTAAGG
* * * *** * *
12786574 TTTCATTTAGGGTTTTAA-TTTCAAGGTTTCATTTAGGGTTTCAATTTTATGGTTTTGGTCTTAG
1 TTTCATTTAAGGTTTTAACATT-AAGATTTCATTTAGAACTTCAATTTTATGGTTTCGATCTTAG
12786638 GA
65 GA
** *
12786640 TTTCATTTAAGGTTTTAACATTAAGATTTTGTTTAGAACTTCAATTTTATGGTTTCGATTTTAGG
1 TTTCATTTAAGGTTTTAACATTAAGATTTCATTTAGAACTTCAATTTTATGGTTTCGATCTTAGG
12786705 A
66 A
12786706 TTTCA
1 TTTCA
12786711 ATCTTAAGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 57 0.97
67 2 0.03
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.51
Consensus pattern (66 bp):
TTTCATTTAAGGTTTTAACATTAAGATTTCATTTAGAACTTCAATTTTATGGTTTCGATCTTAGG
A
Found at i:12786667 original size:26 final size:25
Alignment explanation
Indices: 12786638--12786763 Score: 58
Period size: 26 Copynumber: 4.8 Consensus size: 25
12786628 TTGGTCTTAG
12786638 GATTTCATTTAAGGTTTTAACATTAA
1 GATTTCATTT-AGGTTTTAACATTAA
** ** * ** *
12786664 GATTTTGTTTAGAACTTCAATTTTAT
1 GATTTCATTTAG-GTTTTAACATTAA
* *
12786690 GGTTTCGATTTTAGGATTTCAATC-TTAA
1 GATTTC-A-TTTAGG-TTTTAA-CATTAA
*
12786718 GATTTCATTTAGAGTTTTAACATT-G
1 GATTTCATTTAG-GTTTTAACATTAA
12786743 GAGTTTCATTTAAGGTTTTAA
1 GA-TTTCATTT-AGGTTTTAA
12786764 TACTTTACAA
Statistics
Matches: 73, Mismatches: 18, Indels: 18
0.67 0.17 0.17
Matches are distributed among these distances:
25 5 0.07
26 46 0.63
27 4 0.05
28 18 0.25
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (25 bp):
GATTTCATTTAGGTTTTAACATTAA
Found at i:12789686 original size:18 final size:18
Alignment explanation
Indices: 12789663--12789715 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
12789653 AAGTGAAAAT
* *
12789663 TAATAAATTAATAAATAA
1 TAATAAATAAATAAACAA
12789681 TAATAAATAAATAAACAA
1 TAATAAATAAATAAACAA
*
12789699 AAATAAAATAAAATAAA
1 TAAT-AAAT-AAATAAA
12789716 AATTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 19 0.63
19 4 0.13
20 7 0.23
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
TAATAAATAAATAAACAA
Found at i:12789691 original size:14 final size:13
Alignment explanation
Indices: 12789667--12789715 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
12789657 GAAAATTAAT
*
12789667 AAATTAATAAATA
1 AAATAAATAAATA
12789680 ATAATAAATAAATA
1 A-AATAAATAAATA
*
12789694 AACAAAAATAAAATA
1 AA-ATAAAT-AAATA
12789709 AAATAAA
1 AAATAAA
12789716 AATTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 2 0.07
14 21 0.70
15 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:12789817 original size:3 final size:3
Alignment explanation
Indices: 12789811--12789866 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
12789801 ATAATTATTA
* *
12789811 AAT AAT AAA AAT AA- AAT AAT AAT AGATT AAT AAAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT -AAT AAT AAT AAT AAT
*
12789858 AAC AAT AAT
1 AAT AAT AAT
12789867 TTTAATGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 2 0.05
3 34 0.79
4 5 0.12
5 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:12789864 original size:18 final size:18
Alignment explanation
Indices: 12789811--12789866 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
12789801 ATAATTATTA
*
12789811 AATAATA-AAAATAAAAT
1 AATAATAGATAATAAAAT
12789828 AATAATAGATTAAT-AAAT
1 AATAATAGA-TAATAAAAT
12789846 AATAATAG-TAATAACAAT
1 AATAATAGATAATAA-AAT
12789864 AAT
1 AAT
12789867 TTTAATGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
18 19 0.56
19 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAATAGATAATAAAAT
Found at i:12790008 original size:13 final size:13
Alignment explanation
Indices: 12789992--12790058 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
12789982 AGGTTTATAA
*
12789992 AAAACAAAACCCT
1 AAAATAAAACCCT
*
12790005 AAAATAAAAACAC-
1 AAAAT-AAAACCCT
*
12790018 AAAATAAAACCTT
1 AAAATAAAACCCT
* *
12790031 AAATTAAAACCTT
1 AAAATAAAACCCT
12790044 AAAATAAAACCCT
1 AAAATAAAACCCT
12790057 AA
1 AA
12790059 GTAAAACTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
12 5 0.11
13 34 0.76
14 6 0.13
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAACCCT
Found at i:12790034 original size:12 final size:12
Alignment explanation
Indices: 12790019--12790065 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
12790009 TAAAAACACA
12790019 AAATAAAACCTT
1 AAATAAAACCTT
12790031 AAATTAAAACCTT
1 AAA-TAAAACCTT
*
12790044 AAAATAAAACCCT
1 -AAATAAAACCTT
*
12790057 AAGTAAAAC
1 AAATAAAAC
12790066 TCAAAATCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.35
13 17 0.55
14 3 0.10
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (12 bp):
AAATAAAACCTT
Found at i:12792663 original size:80 final size:80
Alignment explanation
Indices: 12792529--12792689 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 80
12792519 TCTTTGAGCA
* * * *** *
12792529 ATTGGATAAGGGTATAGATCATTTATTGACTATCTTGGTGAAAACCATCTAATCACTAAACTTTT
1 ATTGGATAAAGGCATAGATCATTCACCAACTATCTTGGTCAAAACCATCTAATCACTAAACTTTT
*
12792594 GTCGAAGAAAGGGTG
66 GTCAAAGAAAGGGTG
12792609 ATTGGATAAAGGCATAGATCATTCACCAACTATCTTGG-CAAAGACCAT-TAAATCACTAAACTT
1 ATTGGATAAAGGCATAGATCATTCACCAACTATCTTGGTCAAA-ACCATCT-AATCACTAAACTT
*
12792672 TTGTCAAAGGAAGGGTG
64 TTGTCAAAGAAAGGGTG
12792689 A
1 A
12792690 AAGTGAATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.06
80 66 0.94
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (80 bp):
ATTGGATAAAGGCATAGATCATTCACCAACTATCTTGGTCAAAACCATCTAATCACTAAACTTTT
GTCAAAGAAAGGGTG
Found at i:12794201 original size:3 final size:3
Alignment explanation
Indices: 12794193--12794235 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
12794183 AAAGTAAAAT
12794193 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12794236 GATGATGATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12794691 original size:17 final size:19
Alignment explanation
Indices: 12794649--12794693 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
12794639 TTTGTTCTTC
*
12794649 TTTCTTTTACCTTTTCTAT
1 TTTCTTTCACCTTTTCTAT
12794668 TTT-TTTCACCTTTT-T-T
1 TTTCTTTCACCTTTTCTAT
12794684 TTTCTTTCAC
1 TTTCTTTCAC
12794694 TTAGTGTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 7 0.29
18 10 0.42
19 3 0.12
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTCACCTTTTCTAT
Found at i:12795020 original size:15 final size:14
Alignment explanation
Indices: 12794991--12795017 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12794981 CTTTCTTAAT
12794991 TTTTTCATTTTGGC
1 TTTTTCATTTTGGC
12795005 TTTTTCATTTTGG
1 TTTTTCATTTTGG
12795018 GCTCTTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.15, T:0.67
Consensus pattern (14 bp):
TTTTTCATTTTGGC
Found at i:12795150 original size:15 final size:14
Alignment explanation
Indices: 12795130--12795182 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
12795120 TCTCTTCACC
12795130 CTTTATTTTTTATTT
1 CTTT-TTTTTTATTT
* *
12795145 CTTTATTTTT-TTC
1 CTTTTTTTTTATTT
*
12795158 CTTTTTCTTTATTT
1 CTTTTTTTTTATTT
12795172 CTTTTTTTTTA
1 CTTTTTTTTTA
12795183 CATTCCCCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 10 0.32
14 17 0.55
15 4 0.13
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTTTTTTTATTT
Found at i:12795170 original size:27 final size:27
Alignment explanation
Indices: 12795129--12795181 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
12795119 TTCTCTTCAC
*
12795129 CCTTTATTTTTTATTTCTTTATTTTTTT
1 CCTTTATTCTTTATTTCTTT-TTTTTTT
12795157 CCTTT-TTCTTTATTTCTTTTTTTTT
1 CCTTTATTCTTTATTTCTTTTTTTTT
12795182 ACATTCCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.25
27 13 0.54
28 5 0.21
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (27 bp):
CCTTTATTCTTTATTTCTTTTTTTTTT
Found at i:12795176 original size:23 final size:23
Alignment explanation
Indices: 12795136--12795179 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12795126 CACCCTTTAT
*
12795136 TTTTTATTTCTTTATTTTTTTCC
1 TTTTTATTTATTTATTTTTTTCC
* *
12795159 TTTTTCTTTATTTCTTTTTTT
1 TTTTTATTTATTTATTTTTTT
12795180 TTACATTCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTATTTATTTATTTTTTTCC
Found at i:12795181 original size:19 final size:18
Alignment explanation
Indices: 12795135--12795181 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
12795125 TCACCCTTTA
*
12795135 TTTTTTATTTCTTTATTT
1 TTTTTTTTTTCTTTATTT
*
12795153 TTTTCCTTTTTCTTTATTT
1 TTTT-TTTTTTCTTTATTT
*
12795172 CTTTTTTTTT
1 TTTTTTTTTT
12795182 ACATTCCCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTCTTTATTT
Found at i:12795323 original size:26 final size:27
Alignment explanation
Indices: 12795282--12795332 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
12795272 GTTATTATGA
* * *
12795282 GAAAAAAAGTTTATATGGGATGAACAG
1 GAAAAAAAGTTCATATAGAATGAACAG
12795309 GAAAAAAAG-TCATATAGAATGAAC
1 GAAAAAAAGTTCATATAGAATGAAC
12795333 TTGTTTAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.53, C:0.06, G:0.22, T:0.20
Consensus pattern (27 bp):
GAAAAAAAGTTCATATAGAATGAACAG
Found at i:12796641 original size:3 final size:3
Alignment explanation
Indices: 12796633--12796681 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
12796623 GTGTAATATC
12796633 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
12796681 A
1 A
12796682 ATTTTGCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12798291 original size:56 final size:56
Alignment explanation
Indices: 12798201--12798311 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
12798191 CACTTCTTTT
* ***
12798201 GACAAAAGTTTAGTGATTTAATGGTCTTTGCCAAGATAGTTGGTGAATGATCTATC
1 GACAAAAGTTTAGTGATTTAATGGTCTTTACCAAGATAGTCAATGAATGATCTATC
*
12798257 GACAAAAGTTTAGTGA-TTAGATGGT-TTTCACCAAGTTAGTCAATGAATGATCTAT
1 GACAAAAGTTTAGTGATTTA-ATGGTCTTT-ACCAAGATAGTCAATGAATGATCTAT
12798312 ACCCATATCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (56 bp):
GACAAAAGTTTAGTGATTTAATGGTCTTTACCAAGATAGTCAATGAATGATCTATC
Found at i:12802151 original size:22 final size:22
Alignment explanation
Indices: 12802121--12802198 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
12802111 GTTGGTACGT
* *
12802121 AAGCCCAGATTAACTAGCATGC
1 AAGCTCAGATTAACTAGTATGC
* *
12802143 AAGCTCAGATTAGCTAGTATAC
1 AAGCTCAGATTAACTAGTATGC
* * *
12802165 AAGC-CTAGATTAATTGGTAAGC
1 AAGCTC-AGATTAACTAGTATGC
12802187 AAGCTCAGATTA
1 AAGCTCAGATTA
12802199 GTTGGCACAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 1 0.02
22 43 0.96
23 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (22 bp):
AAGCTCAGATTAACTAGTATGC
Found at i:12802212 original size:22 final size:22
Alignment explanation
Indices: 12802193--12802268 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
12802183 AAGCAAGCTC
12802193 AGATTAGTTGGCACATAAGCCT
1 AGATTAGTTGGCACATAAGCCT
* * *
12802215 A-ATTTAGCTAGCACGTAAGTCC-
1 AGA-TTAGTTGGCACATAAG-CCT
*
12802237 AGTTTAGTTGGCACATAAGCCT
1 AGATTAGTTGGCACATAAGCCT
12802259 AGATTAGTTG
1 AGATTAGTTG
12802269 AAAAAGTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 3 0.07
22 37 0.88
23 2 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (22 bp):
AGATTAGTTGGCACATAAGCCT
Found at i:12802213 original size:44 final size:44
Alignment explanation
Indices: 12802108--12802264 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 44
12802098 TAAACCTAGT
* * * *
12802108 TTAGTTGGTACGTAAGCCCAGATTAACTAGCATGCAAGCTCAGA
1 TTAGTTGGCACATAAGCCTAGATTAACTAGCAAGCAAGCTCAGA
* * * * * * * *
12802152 TTAGCTAGTATACAAGCCTAGATTAATTGGTAAGCAAGCTCAGA
1 TTAGTTGGCACATAAGCCTAGATTAACTAGCAAGCAAGCTCAGA
* * * *
12802196 TTAGTTGGCACATAAGCCTA-ATTTAGCTAGCACGTAAG-TCCAGT
1 TTAGTTGGCACATAAGCCTAGA-TTAACTAGCAAGCAAGCT-CAGA
12802240 TTAGTTGGCACATAAGCCTAGATTA
1 TTAGTTGGCACATAAGCCTAGATTA
12802265 GTTGAAAAAG
Statistics
Matches: 88, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
43 2 0.02
44 85 0.97
45 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
TTAGTTGGCACATAAGCCTAGATTAACTAGCAAGCAAGCTCAGA
Found at i:12802577 original size:33 final size:32
Alignment explanation
Indices: 12802502--12802616 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 32
12802492 AGCTGACACC
** *
12802502 AATAAAAATTTAAGTCCAGTTTAGCTAGCACTT
1 AATAAAAATTTAAG-CCAAATTAGCTAGCACTA
**
12802535 AATTCAAATTTAAGCCAAAATTAGCTAGCACTA
1 AATAAAAATTTAAGCC-AAATTAGCTAGCACTA
* * *
12802568 AATAAAAATTTTAAGCCTGAATTATCTAACA-TA
1 AATAAAAA-TTTAAGCC-AAATTAGCTAGCACTA
**
12802601 AATGCAAATTTAAGCC
1 AATAAAAATTTAAGCC
12802617 TAGAATAGAT
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
32 10 0.15
33 39 0.58
34 18 0.27
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (32 bp):
AATAAAAATTTAAGCCAAATTAGCTAGCACTA
Found at i:12802591 original size:34 final size:33
Alignment explanation
Indices: 12802522--12802622 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 33
12802512 TAAGTCCAGT
* * **
12802522 TTAGCTAGCACTTAATTCAAATTTAAGCCAAAA
1 TTAGCTAGCACTAAATACAAATTTAAGCCTGAA
*
12802555 TTAGCTAGCACTAAATAAAAATTTTAAGCCTGAA
1 TTAGCTAGCACTAAATACAAA-TTTAAGCCTGAA
* * *
12802589 TTATCTAACA-TAAATGCAAATTTAAGCCTAGAA
1 TTAGCTAGCACTAAATACAAATTTAAGCCT-GAA
12802622 T
1 T
12802623 AGATTGTACC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 9 0.16
33 30 0.53
34 18 0.32
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.31
Consensus pattern (33 bp):
TTAGCTAGCACTAAATACAAATTTAAGCCTGAA
Done.