Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 68 of 362
Found at i:21081068 original size:12 final size:12
Alignment explanation
Indices: 21081051--21081082 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21081041 AGTCACACGC
21081051 CCGTGTGCTAGG
1 CCGTGTGCTAGG
21081063 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
21081075 TCGTGTGC
1 CCGTGTGC
21081083 CAATTAGGGA
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:0.06, C:0.25, G:0.41, T:0.28
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:21082179 original size:40 final size:40
Alignment explanation
Indices: 21082135--21082228 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
21082125 CAATATCTCA
* *
21082135 CACACTAAGTGTCTTACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGTCATACATAGCCGAAGCTATATCAAATCG
* * * *
21082175 CACACTAAGTGCCATATATAGCCGAAGCTATATTATATCG
1 CACACTAAGTGTCATACATAGCCGAAGCTATATCAAATCG
21082215 CACACTAAGTGTCA
1 CACACTAAGTGTCA
21082229 AAAATAACCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGTCATACATAGCCGAAGCTATATCAAATCG
Found at i:21089071 original size:55 final size:55
Alignment explanation
Indices: 21089010--21089120 Score: 136
Period size: 55 Copynumber: 2.0 Consensus size: 55
21089000 CGTGTCAATC
* *
21089010 TAACAGGTTCAACC-ACGGGTGC-TAGACACAAGCGTGTCACACGCTCGTGCTGTTT
1 TAACAGGTTC-ACCTAC-GGTGCTTACACACAAGCGTGTCACACGCCCGTGCTGTTT
* * * *
21089065 TAACAGGTTCACCTACGGTTCTTCCACACAGGCGTGTCACACGCCCGTGTTGTTT
1 TAACAGGTTCACCTACGGTGCTTACACACAAGCGTGTCACACGCCCGTGCTGTTT
21089120 T
1 T
21089121 GGCATGTTCG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 7 0.15
55 41 0.85
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (55 bp):
TAACAGGTTCACCTACGGTGCTTACACACAAGCGTGTCACACGCCCGTGCTGTTT
Found at i:21095398 original size:43 final size:43
Alignment explanation
Indices: 21095351--21095444 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
21095341 CTCAGATAGA
* * *
21095351 GTCTTACACAAAAT-TGATTAACGATACCAATGTCCCAGACATG
1 GTCTTACACAAAATCTCAAT-ACAATACCAATGTCCCAGACATG
* *
21095394 GTCTTACACATAATCTCAATACAATGCCAATGTCCCAGACATG
1 GTCTTACACAAAATCTCAATACAATACCAATGTCCCAGACATG
21095437 GTCTTACA
1 GTCTTACA
21095445 TGTAATCACA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 42 0.93
44 3 0.07
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
GTCTTACACAAAATCTCAATACAATACCAATGTCCCAGACATG
Found at i:21106116 original size:40 final size:41
Alignment explanation
Indices: 21106065--21106161 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
21106055 TAAGTCCGTA
*
21106065 TCGCACACTTAGTGCC-TTATATAGACGAAGCTAT-TCCAAC
1 TCGCACACTTAGTGCCATT-TATAGACGAAGCTATATCAAAC
* * *
21106105 TCGCACACTTAGTGCCATTTGTAGCCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGACGAAGCTATATCAAAC
21106146 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
21106162 AGCATAGCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.88
41 6 0.12
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGACGAAGCTATATCAAAC
Found at i:21110179 original size:62 final size:62
Alignment explanation
Indices: 21110087--21110207 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
21110077 ATTATAAGGT
21110087 TAATATAGTAATTTATGTATTAAGTTAATAATAATAATAAAACAAAG-CATAAACCATGTTAA
1 TAATATAGTAATTTATGTATTAAGTTAATAATAATAATAAAACAAAGCCA-AAACCATGTTAA
21110149 TAATATAGTAATTTATGTATTAAGTTAATAATAATAATAAAACAAAGCCAAAACCATGT
1 TAATATAGTAATTTATGTATTAAGTTAATAATAATAATAAAACAAAGCCAAAACCATGT
21110208 AAATTCATTC
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 56 0.97
63 2 0.03
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.33
Consensus pattern (62 bp):
TAATATAGTAATTTATGTATTAAGTTAATAATAATAATAAAACAAAGCCAAAACCATGTTAA
Found at i:21111172 original size:22 final size:23
Alignment explanation
Indices: 21111099--21111199 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 23
21111089 TCTACTCGTA
* * *
21111099 AGAGCTTACTGTTTTCATCTCATT
1 AGAGCTTACCG-TTTCAGCTCAAT
* * *
21111123 GGAGCTTACCGTTTCCGCTC-GT
1 AGAGCTTACCGTTTCAGCTCAAT
**
21111145 ATGAGCTTATTG-TTCAGCTCAAT
1 A-GAGCTTACCGTTTCAGCTCAAT
21111168 AGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCAAT
21111191 AGAGCTTAC
1 AGAGCTTAC
21111200 TGTCCATCAG
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
22 16 0.26
23 37 0.60
24 9 0.15
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCAAT
Found at i:21116534 original size:28 final size:28
Alignment explanation
Indices: 21116502--21116579 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 28
21116492 GCCAAGTGGG
* *
21116502 TTGGCAAGCTAAGGGTTCACTAGTAAGT
1 TTGGCAAGCTAAGGGTTCACCAATAAGT
* * *
21116530 TTGGCAAGCT-GGGGTTCGCCAATAGGT
1 TTGGCAAGCTAAGGGTTCACCAATAAGT
*
21116557 TTGGCAAAC-AAGGGTTCACCAAT
1 TTGGCAAGCTAAGGGTTCACCAAT
21116580 GTAAGTCGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 31 0.76
28 10 0.24
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (28 bp):
TTGGCAAGCTAAGGGTTCACCAATAAGT
Found at i:21117636 original size:21 final size:20
Alignment explanation
Indices: 21117607--21117668 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
21117597 CTTTAATATT
*
21117607 AAATTAATATAATATTTATC
1 AAATAAATATAATATTTATC
*
21117627 AAGATAAATATTAGA-ATTTATT
1 AA-ATAAATA-TA-ATATTTATC
* *
21117649 AAATTAATAGAATATTTATC
1 AAATAAATATAATATTTATC
21117669 TACAAGATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.03
20 9 0.27
21 12 0.36
22 10 0.30
23 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
AAATAAATATAATATTTATC
Found at i:21117707 original size:17 final size:18
Alignment explanation
Indices: 21117681--21117723 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
21117671 CAAGATAAAC
21117681 ATTAAAATAA-ATTTAAT
1 ATTAAAATAACATTTAAT
*
21117698 ATTAAGATAATCGATTTAAT
1 ATTAAAATAA-C-ATTTAAT
21117718 ATTAAA
1 ATTAAA
21117724 TTAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
20 12 0.57
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (18 bp):
ATTAAAATAACATTTAAT
Found at i:21117753 original size:26 final size:24
Alignment explanation
Indices: 21117723--21117777 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
21117713 TTAATATTAA
*
21117723 ATTAATAAAATACTATTAAGATAATT
1 ATTAATAAAAT-CTATTAAAATAA-T
*
21117749 ATTAAATTAAATCTATTAAAATAAT
1 ATT-AATAAAATCTATTAAAATAAT
21117774 ATTA
1 ATTA
21117778 TCTTTGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 4 0.15
26 14 0.54
27 7 0.27
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAATAAAATCTATTAAAATAAT
Found at i:21121683 original size:10 final size:9
Alignment explanation
Indices: 21121662--21121727 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 9
21121652 ATAATAATAT
21121662 ATTATATAG
1 ATTATATAG
21121671 ATTATAGTAG
1 ATTATA-TAG
21121681 ATTAT-TAG
1 ATTATATAG
* *
21121689 CTATAATAATAT
1 --ATTAT-ATAG
21121701 ATTATATAG
1 ATTATATAG
21121710 ATTATAGTAG
1 ATTATA-TAG
*
21121720 ATGATATA
1 ATTATATA
21121728 CTATAGTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
8 3 0.07
9 17 0.37
10 24 0.52
12 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (9 bp):
ATTATATAG
Found at i:21121700 original size:39 final size:39
Alignment explanation
Indices: 21121646--21121836 Score: 179
Period size: 39 Copynumber: 4.9 Consensus size: 39
21121636 TTTAATCAAG
21121646 TTAGCTATAATAATATATTATATAGATTATAGTAGATTA
1 TTAGCTATAATAATATATTATATAGATTATAGTAGATTA
*
21121685 TTAGCTATAATAATATATTATATAGATTATAGTAGATGA
1 TTAGCTATAATAATATATTATATAGATTATAGTAGATTA
*
21121724 TATA-CTATAGTATACA-AT-TTAATATTACATATATA-TA-A-TA
1 T-TAGCTATA--ATA-ATATATT-ATA-TAGAT-TATAGTAGATTA
* * *
21121764 ATATGTTAT-ATAA-ACTATTA-ATATATTATAGT--ATTA
1 TTA-GCTATAATAATA-TATTATATAGATTATAGTAGATTA
21121800 TTAGCTATAATAATATATTATATAGATTATAGTAGAT
1 TTAGCTATAATAATATATTATATAGATTATAGTAGAT
21121837 GATATACTAT
Statistics
Matches: 125, Mismatches: 9, Indels: 36
0.74 0.05 0.21
Matches are distributed among these distances:
35 9 0.07
36 18 0.14
37 15 0.12
38 5 0.04
39 50 0.40
40 5 0.04
41 12 0.10
42 7 0.06
43 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (39 bp):
TTAGCTATAATAATATATTATATAGATTATAGTAGATTA
Found at i:21121807 original size:115 final size:114
Alignment explanation
Indices: 21121661--21121906 Score: 440
Period size: 115 Copynumber: 2.1 Consensus size: 114
21121651 TATAATAATA
*
21121661 TATTATATAGATTATAGTAGATTATTAGCTATAATAATATATTATATAGATTATAGTAGATGATA
1 TATTA-ATATATTATAGTA-ATTATTAGCTATAATAATATATTATATAGATTATAGTAGATGATA
21121726 TACTATAGTATACAATTTAATATTACATATATATAATAATATGTTATATAAAC
64 TACTATAGTATACAATTTAATATTACATA-ATATAATAATATGTTATA-AAAC
21121779 TATTAATATATTATAGT-ATTATTAGCTATAATAATATATTATATAGATTATAGTAGATGATATA
1 TATTAATATATTATAGTAATTATTAGCTATAATAATATATTATATAGATTATAGTAGATGATATA
21121843 CTATAGTATACAATTTAATATTACATAATATAATAATATGTTATAAAAC
66 CTATAGTATACAATTTAATATTACATAATATAATAATATGTTATAAAAC
21121892 TATTAATATATTATA
1 TATTAATATATTATA
21121907 ATTTTTAATA
Statistics
Matches: 127, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
113 19 0.15
114 18 0.14
115 74 0.58
117 11 0.09
118 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (114 bp):
TATTAATATATTATAGTAATTATTAGCTATAATAATATATTATATAGATTATAGTAGATGATATA
CTATAGTATACAATTTAATATTACATAATATAATAATATGTTATAAAAC
Found at i:21121823 original size:15 final size:16
Alignment explanation
Indices: 21121755--21121823 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 16
21121745 ATATTACATA
*
21121755 TATATAATAATA-TGT
1 TATATAATAATATTAT
* *
21121770 TATATAA-ACTATTAA
1 TATATAATAATATTAT
* *
21121785 TATATTATAGTATTAT
1 TATATAATAATATTAT
21121801 TAGCTATAATAATA-TAT
1 TA--TATAATAATATTAT
21121818 TATATA
1 TATATA
21121824 GATTATAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
14 3 0.07
15 18 0.43
16 8 0.19
17 5 0.12
18 8 0.19
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (16 bp):
TATATAATAATATTAT
Found at i:21121917 original size:54 final size:56
Alignment explanation
Indices: 21121741--21121917 Score: 161
Period size: 57 Copynumber: 3.1 Consensus size: 56
21121731 TAGTATACAA
*
21121741 TTTAATATTACATATATATAATAATATGTTATATAAACTATTAATATATTATAGTATT
1 TTTAATATTACATA-ATATAATAATATGTTATATAAACTATTAATATATTATA-CATT
* * * * * * *
21121799 ATTAGCTA-TA-ATAATAT-ATTATATAGATTATAGTAGA-TGATATACTATAGTATACA-A
1 TTTA-ATATTACATAATATAATAATAT-G-TTATA-TAAACT-AT-TAATATATTATACATT
21121856 TTTAATATTACATAATATAATAATATGTTATA-AAACTATTAATATATTATA-ATT
1 TTTAATATTACATAATATAATAATATGTTATATAAACTATTAATATATTATACATT
21121910 TTTAATAT
1 TTTAATAT
21121918 ATGATATAGT
Statistics
Matches: 93, Mismatches: 15, Indels: 26
0.69 0.11 0.19
Matches are distributed among these distances:
53 1 0.01
54 18 0.19
55 10 0.11
56 8 0.09
57 19 0.20
58 19 0.20
59 18 0.19
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (56 bp):
TTTAATATTACATAATATAATAATATGTTATATAAACTATTAATATATTATACATT
Found at i:21121990 original size:66 final size:66
Alignment explanation
Indices: 21121808--21121990 Score: 174
Period size: 66 Copynumber: 2.8 Consensus size: 66
21121798 TATTAGCTAT
* * * * *
21121808 AATAATATATTATATAGATTA-TAGTAGATGATATACTATAGTATACAATTTAATATTACATAAT
1 AATAATATATTATATA-ACTATTAGTATATTATATACTATAGTATACGATATAATATTACATAAT
*
21121872 AT
65 AA
* * * * * * * * *
21121874 AATAATATGTTATAAAACTATTAATATATTATA-ATTTTTAATATATGATATAGTATTACCTAAT
1 AATAATATATTATATAACTATTAGTATATTATATA-CTATAGTATACGATATAATATTACATAAT
21121938 AA
65 AA
*
21121940 AATAATATATTATATAACTATTAGTATATTATATA-TAATAGTGTACGATAT
1 AATAATATATTATATAACTATTAGTATATTATATACT-ATAGTATACGATAT
21121991 TGTTTTGCAT
Statistics
Matches: 91, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
65 5 0.05
66 85 0.93
67 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (66 bp):
AATAATATATTATATAACTATTAGTATATTATATACTATAGTATACGATATAATATTACATAATA
A
Found at i:21125490 original size:12 final size:12
Alignment explanation
Indices: 21125468--21125503 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
21125458 AACAAAAAAT
21125468 TGAAGTAAATAAG
1 TGAA-TAAATAAG
21125481 TGAATAAATAAG
1 TGAATAAATAAG
*
21125493 TGAGTAAATAA
1 TGAATAAATAA
21125504 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:21125845 original size:9 final size:9
Alignment explanation
Indices: 21125831--21125863 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
21125821 TTGAATTGAT
21125831 TCGATTAAC
1 TCGATTAAC
*
21125840 TCGATTAAT
1 TCGATTAAC
21125849 TCGATTAAC
1 TCGATTAAC
21125858 TCGATT
1 TCGATT
21125864 CGAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (9 bp):
TCGATTAAC
Found at i:21125852 original size:18 final size:18
Alignment explanation
Indices: 21125829--21125863 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21125819 AATTGAATTG
21125829 ATTCGATTAACTCGATTA
1 ATTCGATTAACTCGATTA
21125847 ATTCGATTAACTCGATT
1 ATTCGATTAACTCGATT
21125864 CGAATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTCGATTAACTCGATTA
Found at i:21130976 original size:23 final size:25
Alignment explanation
Indices: 21130948--21131017 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 25
21130938 TAAATTTAAA
21130948 AGTTTTATATTTAAAAATGATTCTATTTT
1 AGTTTTATATTTAAAAATGATTC----TT
21130977 AGTTTTATATTTAAAAATGATTC-T
1 AGTTTTATATTTAAAAATGATTCTT
* *
21131001 ATTTTTAATTTTTAAAA
1 AGTTTT-ATATTTAAAA
21131018 TTAATTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 6 0.16
25 9 0.24
29 23 0.61
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (25 bp):
AGTTTTATATTTAAAAATGATTCTT
Found at i:21130990 original size:29 final size:29
Alignment explanation
Indices: 21130948--21131005 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
21130938 TAAATTTAAA
21130948 AGTTTTATATTTAAAAATGATTCTATTTT
1 AGTTTTATATTTAAAAATGATTCTATTTT
21130977 AGTTTTATATTTAAAAATGATTCTATTTT
1 AGTTTTATATTTAAAAATGATTCTATTTT
21131006 TAATTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (29 bp):
AGTTTTATATTTAAAAATGATTCTATTTT
Found at i:21131037 original size:20 final size:20
Alignment explanation
Indices: 21131001--21131038 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21130991 AAATGATTCT
*
21131001 ATTTTTAATTTTTAAAATTA
1 ATTTTTAATTTTGAAAATTA
21131021 ATTTCTTAA-TTTGAAAAT
1 ATTT-TTAATTTTGAAAAT
21131039 GAAATGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTTTTAATTTTGAAAATTA
Found at i:21134886 original size:21 final size:22
Alignment explanation
Indices: 21134840--21134887 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
21134830 TTGAAAATTA
*
21134840 ATATTTATGATTTAATAATAAG
1 ATATTTATCATTTAATAATAAG
*
21134862 -TATTTATCATTTAAT-ATAGG
1 ATATTTATCATTTAATAATAAG
21134882 ATATTT
1 ATATTT
21134888 TTAATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (22 bp):
ATATTTATCATTTAATAATAAG
Found at i:21134900 original size:14 final size:15
Alignment explanation
Indices: 21134883--21134929 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
21134873 TAATATAGGA
21134883 TATTTTTA-ATTATT
1 TATTTTTATATTATT
*
21134897 TA-TTTTATTTTATT
1 TATTTTTATATTATT
*
21134911 TATTTTGATATTATAT
1 TATTTTTATATTAT-T
21134927 TAT
1 TAT
21134930 CTTATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.19
14 9 0.33
15 9 0.33
16 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TATTTTTATATTATT
Found at i:21137316 original size:24 final size:23
Alignment explanation
Indices: 21137283--21137327 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
21137273 TTGTTGACTT
21137283 TATTGAAA-TTATATTATGTATAA
1 TATTGAAATTTATATT-TGTATAA
21137306 TATTGTAAATTTATATTTGTAT
1 TATTG-AAATTTATATTTGTAT
21137328 GTTTGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (23 bp):
TATTGAAATTTATATTTGTATAA
Found at i:21140352 original size:7 final size:7
Alignment explanation
Indices: 21140340--21140372 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
21140330 CAAACTATAT
21140340 AATTTTA
1 AATTTTA
21140347 AATTTTA
1 AATTTTA
21140354 AATTTTA
1 AATTTTA
21140361 AATTTTA
1 AATTTTA
21140368 AATTT
1 AATTT
21140373 ATATTCCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:21141992 original size:43 final size:42
Alignment explanation
Indices: 21141932--21142093 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
21141922 CAGAAAAATC
* *
21141932 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAA
* * * *
21141974 ATATTGATGCC-ACTGTCCCAAACAG-GGTCTTACACGAAATCAT
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAA
* * * * *
21142017 ATACGATGCCGATGTTCCAGACATGGTCTTACACGTAAATCTCA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGT-AATC-AA
*
21142061 AGACGATGCCAACGTCCCAGACGTGGTCTTACA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACA
21142094 TAATATCACA
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAA
Found at i:21159383 original size:29 final size:30
Alignment explanation
Indices: 21159350--21159412 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
21159340 AAGAAAAAAG
* * *
21159350 ACTAAATTATAAAAGCTATAAAAATTAAT-
1 ACTAAATCATAAAAACTACAAAAATTAATC
*
21159379 ACTAAATCATAAAAACTGCAAAAATTAATC
1 ACTAAATCATAAAAACTACAAAAATTAATC
21159409 ACTA
1 ACTA
21159413 TTAGTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
ACTAAATCATAAAAACTACAAAAATTAATC
Found at i:21160965 original size:13 final size:13
Alignment explanation
Indices: 21160904--21160966 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
21160894 GATAAAATTA
* *
21160904 AAATGTTTAGATG
1 AAATGATTATATG
*
21160917 AAATGGTTATATG
1 AAATGATTATATG
* * *
21160930 AAGTGAATACATG
1 AAATGATTATATG
*
21160943 AAATGGTTATATG
1 AAATGATTATATG
*
21160956 AATTGATTATA
1 AAATGATTATA
21160967 AGGAAATAGA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.37
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:21166210 original size:25 final size:25
Alignment explanation
Indices: 21166181--21166228 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21166171 TTATAACGTG
* * *
21166181 AAAATCACCGTTTTGCCCCTAGGTA
1 AAAATCACCATTATACCCCTAGGTA
*
21166206 AAAATGACCATTATACCCCTAGG
1 AAAATCACCATTATACCCCTAGG
21166229 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATCACCATTATACCCCTAGGTA
Found at i:21166295 original size:20 final size:20
Alignment explanation
Indices: 21166272--21166329 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
21166262 TAAACATGGT
21166272 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
21166292 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
21166312 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
21166330 CTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:21166312 original size:11 final size:11
Alignment explanation
Indices: 21166276--21166329 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
21166266 CATGGTATGT
21166276 ATGATATGCAC
1 ATGATATGCAC
* *
21166287 ATGACATG--T
1 ATGATATGCAC
21166296 ATGATATGCAC
1 ATGATATGCAC
*
21166307 ATGATATG--T
1 ATGATATGCAC
21166316 ATGATATGCAC
1 ATGATATGCAC
21166327 ATG
1 ATG
21166330 CTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:21166408 original size:25 final size:24
Alignment explanation
Indices: 21166381--21166523 Score: 209
Period size: 24 Copynumber: 5.9 Consensus size: 24
21166371 AAGGAAGTGA
*
21166381 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
21166405 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
21166430 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
21166454 -AAAGGGCTTATGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
*
21166477 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
21166501 AAAAGAGGC-TAGGCCTCCAGTTA
1 AAAAG-GGCTTATGCC-CCAGTTA
21166524 GGTGATAAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.20
24 54 0.50
25 33 0.30
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:21166480 original size:47 final size:47
Alignment explanation
Indices: 21166381--21166503 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
21166371 AAGGAAGTGA
* *
21166381 AAAAGGGCTTATGCCCTAGTTATTAAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT--AAAGGGCTTATGCCCCAGTTACT
21166430 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTACT
*
21166477 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
21166504 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 48 0.68
49 23 0.32
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTACT
Found at i:21166754 original size:31 final size:31
Alignment explanation
Indices: 21166718--21166781 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
21166708 CGTTTATAGT
* *
21166718 AAAGGCTTTGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
21166749 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
21166780 AA
1 AA
21166782 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:21170988 original size:80 final size:80
Alignment explanation
Indices: 21170833--21170988 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 80
21170823 TAATGGTGAT
* * * *
21170833 AATCAGGCTTTAAGCCTAGCAAGCCTTGTGCTGGTGAATGAAATCGGGCTTATGCCTAGCAGGCT
1 AATCAGACTTTAAGCCTAGCAAGCCTTGTGCTAGTG-ATGAAATCAGGCTTAGGCCTAGCAGGCT
*
21170898 TATTGTCGGTGTATAA
65 TATTGCCGGTGTATAA
* * * *
21170914 AATCAGACTTTGAGTCTAGCAGGCCTTGTGCTAGTG-TGAGATACAGGCTTAGGCCTAGCAGGCT
1 AATCAGACTTTAAGCCTAGCAAGCCTTGTGCTAGTGATGAAAT-CAGGCTTAGGCCTAGCAGGCT
21170978 T-TATGCCGGTG
65 TAT-TGCCGGTG
21170989 AATTATTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 6 0.09
80 27 0.42
81 31 0.48
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (80 bp):
AATCAGACTTTAAGCCTAGCAAGCCTTGTGCTAGTGATGAAATCAGGCTTAGGCCTAGCAGGCTT
ATTGCCGGTGTATAA
Found at i:21171158 original size:21 final size:22
Alignment explanation
Indices: 21171127--21171167 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21171117 GAATGTATTG
21171127 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGGAAATGAAATA
**
21171149 TGAT-TATGTGTCAATGAAA
1 TGATGTATGTGGAAATGAAA
21171168 CATAAAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (22 bp):
TGATGTATGTGGAAATGAAATA
Found at i:21172765 original size:13 final size:13
Alignment explanation
Indices: 21172749--21172773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21172739 CAACTATCCA
21172749 AACCAATATGCCT
1 AACCAATATGCCT
21172762 AACCAATATGCC
1 AACCAATATGCC
21172774 CTCAATGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.20
Consensus pattern (13 bp):
AACCAATATGCCT
Found at i:21174846 original size:24 final size:24
Alignment explanation
Indices: 21174807--21174866 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
21174797 CTTATAAAAA
*
21174807 TTAACC-TTTGTAACTTTTATGAT
1 TTAACCATTTTTAACTTTTATGAT
21174830 TTAACCATTTTTAACTTTTATGAT
1 TTAACCATTTTTAACTTTTATGAT
21174854 TTAACCATTTTTA
1 TTAACCATTTTTA
21174867 CTTAATTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 6 0.17
24 29 0.83
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.53
Consensus pattern (24 bp):
TTAACCATTTTTAACTTTTATGAT
Found at i:21180219 original size:29 final size:29
Alignment explanation
Indices: 21180120--21180221 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
21180110 TGAAAGTATT
* *
21180120 AGGTACTATGTACCAATGATTATTTTATC
1 AGGTACTATGTACCGATGATTACTTTATC
* * * * **
21180149 AGGTACTTTGTATCGGTGTTTGTGTTGTATC
1 AGGTACTATGTACCGATGATT-ACTT-TATC
* * *
21180180 AGGCACAATGTGCCGATGATTACTTTATC
1 AGGTACTATGTACCGATGATTACTTTATC
21180209 AGGTACTATGTAC
1 AGGTACTATGTAC
21180222 AGTTGTTCAT
Statistics
Matches: 52, Mismatches: 19, Indels: 4
0.69 0.25 0.05
Matches are distributed among these distances:
29 30 0.58
30 4 0.08
31 18 0.35
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (29 bp):
AGGTACTATGTACCGATGATTACTTTATC
Found at i:21184461 original size:27 final size:28
Alignment explanation
Indices: 21184431--21184515 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 28
21184421 ACTAAGGAGA
21184431 TCCATTTAGAGTTTGCCACAAAGG-CAT
1 TCCATTTAGAGTTTGCCACAAAGGTCAT
* * * *
21184458 TCCATTCAAAGTTTGCCAAAAAGGTTAT
1 TCCATTTAGAGTTTGCCACAAAGGTCAT
** ** *
21184486 TCTTTTTAGAGTTCACCACAAAGGTTAT
1 TCCATTTAGAGTTTGCCACAAAGGTCAT
21184514 TC
1 TC
21184516 TTAACTATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 21 0.46
28 25 0.54
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (28 bp):
TCCATTTAGAGTTTGCCACAAAGGTCAT
Found at i:21194182 original size:33 final size:32
Alignment explanation
Indices: 21194145--21194212 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
21194135 GAAAGGTTAG
21194145 GTATACTTTGTGTATACCA-TATGAAAAGGAAAT
1 GTATACTTTGTGTATACCACT-TGAAAA-GAAAT
* *
21194178 GTATACTTTGTGTGTACCACTTGGAAAGAAAT
1 GTATACTTTGTGTATACCACTTGAAAAGAAAT
21194210 GTA
1 GTA
21194213 CACCTCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 8 0.25
33 23 0.72
34 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (32 bp):
GTATACTTTGTGTATACCACTTGAAAAGAAAT
Found at i:21200719 original size:20 final size:21
Alignment explanation
Indices: 21200694--21200735 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
21200684 AATATGTTGT
*
21200694 AAAATGAAAG-TTTTTGATAG
1 AAAATGAAAGATTATTGATAG
21200714 AAAATGAAAGATTATTGATAG
1 AAAATGAAAGATTATTGATAG
21200735 A
1 A
21200736 TAAACCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAATGAAAGATTATTGATAG
Found at i:21201388 original size:33 final size:32
Alignment explanation
Indices: 21201351--21201452 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 32
21201341 TACCCAAATG
* *
21201351 GTACAATTTGAAAAGGTTATGTACACCTTGTGT
1 GTAC-ATTTGAAAAGGTTATGTATACTTTGTGT
* * *
21201384 GTACACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACATTTGAAAAGGTTATGTATACTTTGTGT
* * **
21201416 ATACCATATGAAAAGGAAATGTATACTTTGTGT
1 GTA-CATTTGAAAAGGTTATGTATACTTTGTGT
21201449 GTAC
1 GTAC
21201453 CACTTGGAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
32 26 0.47
33 29 0.53
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (32 bp):
GTACATTTGAAAAGGTTATGTATACTTTGTGT
Found at i:21201398 original size:32 final size:32
Alignment explanation
Indices: 21201362--21201463 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 32
21201352 TACAATTTGA
* *
21201362 AAAGGTTATGTACACCTTGTGTGTACACTTGG
1 AAAGGTTATGTATACTTTGTGTGTACACTTGG
* * *
21201394 AAAGGTTAGGTATACTTTGTGTATAC-CATATGA
1 AAAGGTTATGTATACTTTGTGTGTACAC-T-TGG
**
21201427 AAAGGAAATGTATACTTTGTGTGTACCACTTGG
1 AAAGGTTATGTATACTTTGTGTGTA-CACTTGG
21201460 AAAG
1 AAAG
21201464 AAATGTACAC
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
31 1 0.02
32 23 0.41
33 29 0.52
34 2 0.04
35 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (32 bp):
AAAGGTTATGTATACTTTGTGTGTACACTTGG
Found at i:21201454 original size:33 final size:32
Alignment explanation
Indices: 21201403--21201470 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
21201393 GAAAGGTTAG
21201403 GTATACTTTGTGTATACCA-TATGAAAAGGAAAT
1 GTATACTTTGTGTATACCACT-TGAAAA-GAAAT
* *
21201436 GTATACTTTGTGTGTACCACTTGGAAAGAAAT
1 GTATACTTTGTGTATACCACTTGAAAAGAAAT
21201468 GTA
1 GTA
21201471 CACCTCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 8 0.25
33 23 0.72
34 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (32 bp):
GTATACTTTGTGTATACCACTTGAAAAGAAAT
Found at i:21202548 original size:30 final size:30
Alignment explanation
Indices: 21202512--21202617 Score: 185
Period size: 30 Copynumber: 3.5 Consensus size: 30
21202502 CAGAATTCCA
*
21202512 CACGGGCTGGCCACACGGCCATAGGGTCCC
1 CACGGGCTGGCCACACGGCCATAGGATCCC
*
21202542 CACGGGCTGGCCCCACGGCCATAGGATCCC
1 CACGGGCTGGCCACACGGCCATAGGATCCC
*
21202572 CACGGGCTGGCCACACGTCCATAGGATCCC
1 CACGGGCTGGCCACACGGCCATAGGATCCC
21202602 CACGGGCTGGCCACAC
1 CACGGGCTGGCCACAC
21202618 AGGTGTGTGC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.18, C:0.42, G:0.30, T:0.10
Consensus pattern (30 bp):
CACGGGCTGGCCACACGGCCATAGGATCCC
Found at i:21202574 original size:17 final size:16
Alignment explanation
Indices: 21202525--21202606 Score: 59
Period size: 17 Copynumber: 5.3 Consensus size: 16
21202515 GGGCTGGCCA
21202525 CACGGCCATAGGGTCCC
1 CACGGCCATA-GGTCCC
*
21202542 CACGGGC-T-GG-CCC
1 CACGGCCATAGGTCCC
21202555 CACGGCCATAGGATCCC
1 CACGGCCATAGG-TCCC
* *
21202572 CACGGGC-T-GG-CCA
1 CACGGCCATAGGTCCC
*
21202585 CACGTCCATAGGATCCC
1 CACGGCCATAGG-TCCC
21202602 CACGG
1 CACGG
21202607 GCTGGCCACA
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
13 16 0.33
14 4 0.08
15 6 0.12
16 2 0.04
17 21 0.43
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.11
Consensus pattern (16 bp):
CACGGCCATAGGTCCC
Found at i:21204929 original size:46 final size:45
Alignment explanation
Indices: 21204876--21205049 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
21204866 TTTGGGCATT
21204876 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
*** * *
21204922 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTC
* *
21204969 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
* *
21205015 CGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21205050 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTC
Found at i:21205029 original size:93 final size:93
Alignment explanation
Indices: 21204870--21205041 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
21204860 AGGATATTTG
* * * *
21204870 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
21204935 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
21204963 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
21205028 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
21205042 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:21256138 original size:40 final size:40
Alignment explanation
Indices: 21256003--21256225 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
21255993 TTGAATGCTG
* * *
21256003 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
21256043 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
21256082 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
21256122 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
21256162 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
21256201 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21256226 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
38 19 0.12
39 49 0.31
40 78 0.50
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:21256139 original size:79 final size:78
Alignment explanation
Indices: 21256056--21256225 Score: 225
Period size: 79 Copynumber: 2.2 Consensus size: 78
21256046 GGACTAAGAT
* *
21256056 CCGAAGGCATTTGTGCGAGATA-CAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTA
*
21256120 AATCCGGGTTAAGTC
65 AA-CCGGGCTAAGTC
* * * * * *
21256135 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
21256200 ACCGGGCTATGTC
66 ACCGGGCTAAGTC
21256213 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21256226 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 22 0.28
79 36 0.46
80 21 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
ACCGGGCTAAGTC
Found at i:21263940 original size:39 final size:39
Alignment explanation
Indices: 21263888--21264058 Score: 204
Period size: 39 Copynumber: 4.3 Consensus size: 39
21263878 GGACTAAGAT
21263888 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
21263927 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
21263967 CCGAAGGCATTCGTGCGAG-TCATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGAT-A-CAAATCCGGGTTAAGTC
* * * * *
21264007 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
21264046 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21264059 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
39 64 0.56
40 51 0.44
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:21263971 original size:79 final size:78
Alignment explanation
Indices: 21263835--21264058 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 78
21263825 TTGAATGCTG
* * * * * * *
21263835 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
*
21263898 TTGTGCGAGATACA-AAT
63 TTGTGCGAG-T-CATAAA
* * * *
21263915 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTT
21263979 GTGCGAGTCATTAAA
65 GTGCGAGTCA-TAAA
* * *
21263994 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
21264059 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
77 2 0.02
78 2 0.02
79 90 0.73
80 28 0.23
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTCATAAA
Found at i:21264076 original size:79 final size:80
Alignment explanation
Indices: 21263915--21264091 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
21263905 AGATACAAAT
* * *
21263915 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
21263979 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
21263994 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
21264058 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
21264073 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21264092 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:21270007 original size:40 final size:40
Alignment explanation
Indices: 21269934--21270009 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
21269924 TAGTGCCACA
* * *
21269934 TATAGCTGAAGCTACTCCAATTCGCACAGTTAGTGCTATT
1 TATAGCCGAAGCTACTCCAAATCGCACACTTAGTGCTATT
* * *
21269974 TATAGCCGAAGCTATTTCAAATCGTACACTTAGTGC
1 TATAGCCGAAGCTACTCCAAATCGCACACTTAGTGC
21270010 CGAACATAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (40 bp):
TATAGCCGAAGCTACTCCAAATCGCACACTTAGTGCTATT
Found at i:21270927 original size:20 final size:20
Alignment explanation
Indices: 21270902--21270939 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21270892 ATCCAAATCA
*
21270902 AATAGGCACTTTTAACATAT
1 AATAGGCAATTTTAACATAT
*
21270922 AATAGGCAATTTTTACAT
1 AATAGGCAATTTTAACAT
21270940 TTTATGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
AATAGGCAATTTTAACATAT
Found at i:21273586 original size:42 final size:42
Alignment explanation
Indices: 21273498--21273656 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 42
21273488 AGATTACGTA
* * * * * *
21273498 TAAGACCATATCTAGTATATGGAA-TCAGTATAAGACTTCGTA
1 TAAGACCATATCTAGGATATGGAATTGA-TATGAGATTTCATG
*
21273540 TAAGACCATATCTAGGATATGAAATTGATATGAGATTTCATG
1 TAAGACCATATCTAGGATATGGAATTGATATGAGATTTCATG
* * * * * * *
21273582 TAAGACCATAGCTGGGCTATTGGTATCGATACGAGATTACATG
1 TAAGACCATATCTAGGATA-TGGAATTGATATGAGATTTCATG
* * *
21273625 TAAGACCATATCTGGGATATGGCATTGGTATG
1 TAAGACCATATCTAGGATATGGAATTGATATG
21273657 GTACCGAGTG
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 57 0.61
43 37 0.39
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (42 bp):
TAAGACCATATCTAGGATATGGAATTGATATGAGATTTCATG
Found at i:21273765 original size:22 final size:22
Alignment explanation
Indices: 21273740--21273784 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21273730 TAAAGAAGAT
21273740 AAAGAGCATGTAAGTATTACGA
1 AAAGAGCATGTAAGTATTACGA
21273762 AAAGAGCATGTAAGTATTACGA
1 AAAGAGCATGTAAGTATTACGA
21273784 A
1 A
21273785 CTTGTACAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (22 bp):
AAAGAGCATGTAAGTATTACGA
Found at i:21279588 original size:28 final size:28
Alignment explanation
Indices: 21279556--21279615 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
21279546 TGTAAATGTG
21279556 TTTTCAAAATTAATTTATAACAAAAGTA
1 TTTTCAAAATTAATTTATAACAAAAGTA
21279584 TTTTCAAAATTAATTTATAACAAAAGTA
1 TTTTCAAAATTAATTTATAACAAAAGTA
21279612 TTTT
1 TTTT
21279616 AATAAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (28 bp):
TTTTCAAAATTAATTTATAACAAAAGTA
Found at i:21279616 original size:16 final size:15
Alignment explanation
Indices: 21279568--21279614 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
21279558 TTCAAAATTA
21279568 ATTTATAACAAAAGT
1 ATTTATAACAAAAGT
*
21279583 ATTT-T--CAAAATT
1 ATTTATAACAAAAGT
21279595 AATTTATAACAAAAGT
1 -ATTTATAACAAAAGT
21279611 ATTT
1 ATTT
21279615 TAATAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 2 0.08
15 8 0.31
16 6 0.23
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (15 bp):
ATTTATAACAAAAGT
Found at i:21284778 original size:41 final size:40
Alignment explanation
Indices: 21284732--21284844 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 40
21284722 AAAGATCACT
21284732 ATTAGCGGCGCTTATGTACAAAACGCCGCAAAAAGTCAAGC
1 ATTAGCGGCG-TTATGTACAAAACGCCGCAAAAAGTCAAGC
* * * *
21284773 ATTAGCGGCGTTTTAT-TA-AAAACGCCGCAATAGGTGACGC
1 ATTAGCGGCG--TTATGTACAAAACGCCGCAAAAAGTCAAGC
* *
21284813 ATTAGCAGCGGT-TGTACAAAAACGCCGCAAAA
1 ATTAGCGGCGTTATGTAC-AAAACGCCGCAAAA
21284845 TTGATGAGCA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.02
38 3 0.05
40 40 0.67
41 12 0.20
42 4 0.07
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (40 bp):
ATTAGCGGCGTTATGTACAAAACGCCGCAAAAAGTCAAGC
Found at i:21285928 original size:15 final size:15
Alignment explanation
Indices: 21285910--21285941 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21285900 TTTAATTTAG
21285910 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
21285925 AAGATAAATATATAT
1 AAGATAAATATAAAT
21285940 AA
1 AA
21285942 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:21291552 original size:5 final size:5
Alignment explanation
Indices: 21291542--21291582 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
21291532 ATAATTTTAA
**
21291542 TATTT TATTT TATTT TATTT TA-AA TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA
21291583 ACATTACCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 2 0.06
5 29 0.94
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:21291568 original size:61 final size:60
Alignment explanation
Indices: 21291497--21291680 Score: 185
Period size: 62 Copynumber: 3.0 Consensus size: 60
21291487 TTAAAGTTTC
21291497 ATTTTAAATATTTTATTTTTTTTGAATCACAAAAAATAATTTTAATATTTTATTTTATTTT
1 ATTTTAAATATTTTATTTTTTTTGAATCAC-AAAAATAATTTTAATATTTTATTTTATTTT
* * ** * * ** *
21291558 ATTTTAAATATTTTATTTTATTTTAACATTACCTAATTAA-ATTAA-ATCGTATTTAAAGTTTT
1 ATTTTAAATATTTTATTTT-TTTTGA-ATCACAAAAATAATTTTAATATTTTATTT-TA-TTTT
* * *
21291620 ATTTTAAATATTTCA-TTTTTTTGAATCACGAAAAATAATTTCAATAATTTATTTTATTTT
1 ATTTTAAATATTTTATTTTTTTTGAATCAC-AAAAATAATTTTAATATTTTATTTTATTTT
21291680 A
1 A
21291681 ACATTACCTA
Statistics
Matches: 95, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
59 4 0.04
60 22 0.23
61 31 0.33
62 34 0.36
63 4 0.04
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (60 bp):
ATTTTAAATATTTTATTTTTTTTGAATCACAAAAATAATTTTAATATTTTATTTTATTTT
Found at i:21291570 original size:24 final size:23
Alignment explanation
Indices: 21291535--21291582 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
21291525 ACAAAAAATA
21291535 ATTTTAATATTTTATTTTATTTT
1 ATTTTAATATTTTATTTTATTTT
21291558 ATTTTAAATATTTTATTTTATTTT
1 ATTTT-AATATTTTATTTTATTTT
21291582 A
1 A
21291583 ACATTACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
ATTTTAATATTTTATTTTATTTT
Found at i:21291571 original size:19 final size:19
Alignment explanation
Indices: 21291547--21291583 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21291537 TTTAATATTT
21291547 TATTTTATTTTATTTTAAA
1 TATTTTATTTTATTTTAAA
21291566 TATTTTATTTTATTTTAA
1 TATTTTATTTTATTTTAA
21291584 CATTACCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTTATTTTATTTTAAA
Found at i:21291578 original size:123 final size:122
Alignment explanation
Indices: 21291445--21291680 Score: 375
Period size: 123 Copynumber: 1.9 Consensus size: 122
21291435 TTTTGTTCTC
* *
21291445 TTTTATTTTATTTTCAA-ATTATCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATT
1 TTTTATTTTATTTT-AACATTACCTAATTAAATTAAATCATATTTAAAGTTTCATTTTAAATATT
* * *
21291509 TTATTTTTTTTGAATCACAAAAAATAATTTTAATATTTTATTTTATTTTATTTTAAATA
65 TCA-TTTTTTTGAATCACAAAAAATAATTTCAATAATTTATTTTATTTTATTTTAAATA
* *
21291568 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATCATATTTAAAGTTTCATTTTAAATATTT
*
21291633 CATTTTTTTGAATCACGAAAAATAATTTCAATAATTTATTTTATTTTA
66 CATTTTTTTGAATCACAAAAAATAATTTCAATAATTTATTTTATTTTA
21291681 ACATTACCTA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
122 45 0.43
123 59 0.57
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (122 bp):
TTTTATTTTATTTTAACATTACCTAATTAAATTAAATCATATTTAAAGTTTCATTTTAAATATTT
CATTTTTTTGAATCACAAAAAATAATTTCAATAATTTATTTTATTTTATTTTAAATA
Found at i:21291638 original size:62 final size:61
Alignment explanation
Indices: 21291445--21291638 Score: 205
Period size: 62 Copynumber: 3.1 Consensus size: 61
21291435 TTTTGTTCTC
* *
21291445 TTTTATTTTATTTTCAAATTATCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATA
1 TTTTATTTTATTTT-AAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATA
* * ** * * * *
21291507 TTTTATTTT-TTTTGAATCACAAAAAATAATTTTAATATTTTATTT-TA-TTTTATTTTAAATA
1 TTTTATTTTATTTTAAATTAC-CTAATTAA-ATTAA-ATTATATTTAAAGTTTTATTTTAAATA
**
21291568 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATA
1 TTTTATTTTATTTTAA-ATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATA
*
21291630 TTTCATTTT
1 TTTTATTTT
21291639 TTTGAATCAC
Statistics
Matches: 105, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
60 11 0.10
61 36 0.34
62 46 0.44
63 12 0.11
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (61 bp):
TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATA
Found at i:21291834 original size:98 final size:98
Alignment explanation
Indices: 21291564--21291827 Score: 510
Period size: 98 Copynumber: 2.7 Consensus size: 98
21291554 TTTTATTTTA
*
21291564 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
21291629 ATTTCATTTTTTTGAATCACGAAAAATAATTTC
66 ATTTCATTTTTTTGAATCACGAAAAATAATTTC
*
21291662 AATAATTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
21291727 ATTTCATTTTTTTGAATCACGAAAAATAATTTC
66 ATTTCATTTTTTTGAATCACGAAAAATAATTTC
21291760 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
21291825 ATT
66 ATT
21291828 CTATTTTATT
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 163 1.00
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (98 bp):
AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
ATTTCATTTTTTTGAATCACGAAAAATAATTTC
Found at i:21291949 original size:9 final size:9
Alignment explanation
Indices: 21291935--21292092 Score: 91
Period size: 9 Copynumber: 17.7 Consensus size: 9
21291925 CCAGCAACTC
21291935 ACATAATTT
1 ACATAATTT
21291944 ACATAATTT
1 ACATAATTT
*
21291953 ACATGA--T
1 ACATAATTT
*
21291960 ACATAACTT
1 ACATAATTT
21291969 ACATAATTT
1 ACATAATTT
*
21291978 AAAGTTCGAATTT
1 ACA--T--AATTT
*
21291991 -CATAACTT
1 ACATAATTT
21291999 ACATAATTT
1 ACATAATTT
*
21292008 ACAT-ACTT
1 ACATAATTT
21292016 ACATAA--T
1 ACATAATTT
*
21292023 ACATAACTT
1 ACATAATTT
21292032 ACATAA--T
1 ACATAATTT
* *
21292039 ACATGACTT
1 ACATAATTT
21292048 ACATAATTT
1 ACATAATTT
*
21292057 AAAGATCAAATTT
1 --ACAT--AATTT
*
21292070 -CATAACTT
1 ACATAATTT
21292078 ACATAATTT
1 ACATAATTT
21292087 ACATAA
1 ACATAA
21292093 AATTAACACA
Statistics
Matches: 117, Mismatches: 15, Indels: 34
0.70 0.09 0.20
Matches are distributed among these distances:
7 19 0.16
8 15 0.13
9 65 0.56
10 3 0.03
11 4 0.03
12 1 0.01
13 10 0.09
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (9 bp):
ACATAATTT
Found at i:21292033 original size:16 final size:16
Alignment explanation
Indices: 21291943--21292054 Score: 97
Period size: 16 Copynumber: 7.1 Consensus size: 16
21291933 TCACATAATT
* *
21291943 TACATAATTTACATGA
1 TACATAACTTACATAA
21291959 TACATAACTTACATAA
1 TACATAACTTACATAA
** * *
21291975 TTTA-AAGTT-CGA-AT
1 TACATAACTTAC-ATAA
*
21291989 TTCATAACTTACATAA
1 TACATAACTTACATAA
21292005 TTTACAT-ACTTACATAA
1 --TACATAACTTACATAA
21292022 TACATAACTTACATAA
1 TACATAACTTACATAA
*
21292038 TACATGACTTACATAA
1 TACATAACTTACATAA
21292054 T
1 T
21292055 TTAAAGATCA
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
14 5 0.06
15 15 0.19
16 44 0.56
17 10 0.13
18 4 0.05
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.37
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:21292034 original size:79 final size:79
Alignment explanation
Indices: 21291943--21292091 Score: 253
Period size: 79 Copynumber: 1.9 Consensus size: 79
21291933 TCACATAATT
* * * *
21291943 TACATAATTTACATGATACATAACTTACATAATTTAAAGTTCGAATTTCATAACTTACATAATTT
1 TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
21292008 ACATACTTACATAA
66 ACATACTTACATAA
*
21292022 TACATAACTTACATAATACATGACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
1 TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
21292087 ACATA
66 ACATA
21292092 AAATTAACAC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.37
Consensus pattern (79 bp):
TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
ACATACTTACATAA
Found at i:21292245 original size:9 final size:9
Alignment explanation
Indices: 21292227--21292296 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
21292217 GTACATAATG
21292227 CATAACTTA
1 CATAACTTA
*
21292236 CATAATTTA
1 CATAACTTA
21292245 CATAACTTA
1 CATAACTTA
21292254 CATAA--TA
1 CATAACTTA
*
21292261 CATAA-ATA
1 CATAACTTA
* * *
21292269 TATATCATA
1 CATAACTTA
21292278 TCATAACTTA
1 -CATAACTTA
21292288 CATAACTTA
1 CATAACTTA
21292297 ATTATACTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
7 7 0.14
8 5 0.10
9 33 0.65
10 6 0.12
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:21292256 original size:34 final size:34
Alignment explanation
Indices: 21292218--21292292 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
21292208 CTTTATGTCG
* * *
21292218 TACATAATGCATAACT-TACATAATTTACATAACT
1 TACATAATACATAAATATACATAATAT-CATAACT
* *
21292252 TACATAATACATAAATATATATCATATCATAACT
1 TACATAATACATAAATATACATAATATCATAACT
21292286 TACATAA
1 TACATAA
21292293 CTTAATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 28 0.80
35 7 0.20
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (34 bp):
TACATAATACATAAATATACATAATATCATAACT
Found at i:21292370 original size:23 final size:23
Alignment explanation
Indices: 21292340--21292387 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21292330 ACTTATTGTC
21292340 AACTTTAGACTTCAAGAACAACA
1 AACTTTAGACTTCAAGAACAACA
21292363 AACTTTAGACTTCAAGAACAACA
1 AACTTTAGACTTCAAGAACAACA
21292386 AA
1 AA
21292388 AGGGTAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (23 bp):
AACTTTAGACTTCAAGAACAACA
Found at i:21297135 original size:17 final size:19
Alignment explanation
Indices: 21297115--21297152 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21297105 TTCTTTCAAA
21297115 TATT-AATAA-ATTTCTAC
1 TATTAAATAATATTTCTAC
*
21297132 TATTAAATAATATTTTTAC
1 TATTAAATAATATTTCTAC
21297151 TA
1 TA
21297153 CTTTATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTAAATAATATTTCTAC
Found at i:21298063 original size:31 final size:31
Alignment explanation
Indices: 21298025--21298090 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
21298015 TATATTTTTT
* *
21298025 ATGCTATATTTACTGTTTTTGGTTGGATTTC
1 ATGCTATATTTACTGTTTTTGGTTGAATTTA
*
21298056 ATGCTATATTTGCTGTTTTTGGTTGAATTTA
1 ATGCTATATTTACTGTTTTTGGTTGAATTTA
21298087 ATGC
1 ATGC
21298091 AGGGAGGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.18, C:0.09, G:0.20, T:0.53
Consensus pattern (31 bp):
ATGCTATATTTACTGTTTTTGGTTGAATTTA
Found at i:21300191 original size:22 final size:21
Alignment explanation
Indices: 21300161--21300207 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
21300151 ATTTATTTCA
21300161 ATTTAAAAT-CGTTAATAAAAAT
1 ATTTAAAATACGTT--TAAAAAT
*
21300183 ATTTCAAATAGCGTTTAAAAAT
1 ATTTAAAATA-CGTTTAAAAAT
21300205 ATT
1 ATT
21300208 AAATTTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 18 0.82
24 4 0.18
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (21 bp):
ATTTAAAATACGTTTAAAAAT
Found at i:21300918 original size:3 final size:3
Alignment explanation
Indices: 21300910--21300945 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
21300900 TGGTAGCTGC
21300910 TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA
21300946 CTTGTTCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21308264 original size:48 final size:45
Alignment explanation
Indices: 21308186--21308399 Score: 141
Period size: 48 Copynumber: 4.6 Consensus size: 45
21308176 GGACCACACA
* * *
21308186 TCGATGCCATATCCCAAATATGATCTTATACAAGATCTCATATCAG
1 TCGATGCCATGTCCCAGATATGGTCTTATACAAGATCTCATATC-G
* * ** *
21308232 TACCGATGCCATGTCCCAGACATGGTCCTATACGGGACCTCATAT--
1 T--CGATGCCATGTCCCAGATATGGTCTTATACAAGATCTCATATCG
* * *
21308277 T-GATGCCATGTCCCAGATATGGTCTTATACCAA-ATCACTTAACG
1 TCGATGCCATGTCCCAGATATGGTCTTATA-CAAGATCTCATATCG
* * **
21308321 ATGCCGACGCCATATCCTTGATATGGTCTTATACAAGATCTCA-ACTCGATG
1 -T--CGATGCCATGTCCCAGATATGGTCTTATACAAGATCTCATA-TC---G
* *
21308372 TCGATGCCATGTCCCAGACATGTTCTTA
1 TCGATGCCATGTCCCAGATATGGTCTTA
21308400 CACGGGATCT
Statistics
Matches: 125, Mismatches: 29, Indels: 26
0.69 0.16 0.14
Matches are distributed among these distances:
42 31 0.25
43 1 0.01
45 2 0.02
46 1 0.01
47 4 0.03
48 84 0.67
50 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (45 bp):
TCGATGCCATGTCCCAGATATGGTCTTATACAAGATCTCATATCG
Found at i:21308333 original size:90 final size:90
Alignment explanation
Indices: 21308149--21308337 Score: 204
Period size: 90 Copynumber: 2.1 Consensus size: 90
21308139 GGGTGCCAAA
* *
21308149 GCCATATCGCAGACATGGTCTCTTATGGGACCACACATCGATGCCATATCCCAAATATGATCTTA
1 GCCATATCCCAGACATGGTCTCTTACGGGACCACACATCGATGCCATATCCCAAATATGATCTTA
* * *
21308214 TACAAGATCTCATATCAGTACCGAT
66 TACAAGATCACATAACAGTACCGAC
* * * * * * *
21308239 GCCATGTCCCAGACATGGTC-CTATACGGGACCTCATATTGATGCCATGTCCCAGATATGGTCTT
1 GCCATATCCCAGACATGGTCTCT-TACGGGACCACACATCGATGCCATATCCCAAATATGATCTT
* *
21308303 ATACCAA-ATCACTTAAC-GATGCCGAC
65 ATA-CAAGATCACATAACAG-TACCGAC
21308329 GCCATATCC
1 GCCATATCC
21308338 TTGATATGGT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
89 3 0.04
90 75 0.93
91 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (90 bp):
GCCATATCCCAGACATGGTCTCTTACGGGACCACACATCGATGCCATATCCCAAATATGATCTTA
TACAAGATCACATAACAGTACCGAC
Found at i:21318516 original size:16 final size:16
Alignment explanation
Indices: 21318497--21318529 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21318487 GCAAAATCCT
21318497 GAAATGCCAAAAAGTC
1 GAAATGCCAAAAAGTC
21318513 GAAATGCCAAAAAGTC
1 GAAATGCCAAAAAGTC
21318529 G
1 G
21318530 GAGGTTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.12
Consensus pattern (16 bp):
GAAATGCCAAAAAGTC
Found at i:21318785 original size:28 final size:27
Alignment explanation
Indices: 21318745--21318818 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 27
21318735 ATTGCATAAC
*
21318745 TATGAATGTGATTAGGGCTGATGGG-TCA
1 TATGAATGTGATT-GGGCTAATGGGCT-A
21318773 TATGAATGTGATTTGGGCCTAATGGGCTA
1 TATGAATGTGA-TTGGG-CTAATGGGCTA
*
21318802 TATGAATGAGATTGGGC
1 TATGAATGTGATTGGGC
21318819 CTAAAGAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 1 0.02
28 19 0.46
29 20 0.49
30 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.34, T:0.32
Consensus pattern (27 bp):
TATGAATGTGATTGGGCTAATGGGCTA
Found at i:21318807 original size:29 final size:29
Alignment explanation
Indices: 21318745--21318822 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
21318735 ATTGCATAAC
* *
21318745 TATGAATGTGATTAGGG-CTGATGGGTCA
1 TATGAATGTGATTTGGGCCTAATGGGTCA
21318773 TATGAATGTGATTTGGGCCTAATGGG-CTA
1 TATGAATGTGATTTGGGCCTAATGGGTC-A
*
21318802 TATGAATGAGA-TTGGGCCTAA
1 TATGAATGTGATTTGGGCCTAA
21318823 AGAGGCCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 27 0.60
29 18 0.40
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGTCA
Found at i:21318835 original size:29 final size:29
Alignment explanation
Indices: 21318774--21318837 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
21318764 GATGGGTCAT
* * * *
21318774 ATGAATGTGATTTGGGCCTAATGGGCTAT
1 ATGAATGAGATTTGGGCCTAAAGGGCCAA
21318803 ATGAATGAGA-TTGGGCCTAAAGAGGCCAA
1 ATGAATGAGATTTGGGCCTAAAG-GGCCAA
21318832 ATGAAT
1 ATGAAT
21318838 AAGTATGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (29 bp):
ATGAATGAGATTTGGGCCTAAAGGGCCAA
Found at i:21320661 original size:48 final size:49
Alignment explanation
Indices: 21320580--21320813 Score: 255
Period size: 48 Copynumber: 4.8 Consensus size: 49
21320570 AAAAGGGTAA
*
21320580 AATGTCGATGCCATG-TCCTAAACATGGTCTTACACTGGC-CTACATAAC
1 AATGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTACATAAC
* *
21320628 AATGCCGATGCCATGTTCCAAACATGGTGTTACACTGGCT-TACATATC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTACATAAC
* * * *
21320676 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATATC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTACATA-A-C
** * * * * *
21320726 GGTGCCGATGCCATGTCCCTAATAGGGTCTTACACTAGCTCTTAC--AAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-TACATAAC
*
21320774 AATGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCT
21320814 AACATATAAC
Statistics
Matches: 155, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
48 112 0.72
49 5 0.03
50 36 0.23
51 1 0.01
52 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTACATAAC
Found at i:21320786 original size:98 final size:97
Alignment explanation
Indices: 21320580--21320813 Score: 269
Period size: 98 Copynumber: 2.4 Consensus size: 97
21320570 AAAAGGGTAA
* *
21320580 AATGTCGATGCCATGTCCTAAACATGGTCTTACACTGGC-CTACATAACAATGCCGATGCCATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTACATAACAATGCCGATGCCATGT
* * *
21320644 TCCAAACATGGTGTTACACTGGCTTACATATC
66 CCCAAACAGGGTCTTACACTGGCTTACATATC
* * * **
21320676 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATATCGGTGCCGATGCCAT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTACATA-A-CAATGCCGATGCCAT
* * *
21320740 GTCCCTAATAGGGTCTTACACTAGCTCTTACA-A-C
64 GTCCCAAACAGGGTCTTACACT-G-GCTTACATATC
* *
21320774 AATGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
21320814 AACATATAAC
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
96 38 0.33
97 3 0.03
98 66 0.57
99 2 0.02
100 6 0.05
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (97 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTACATAACAATGCCGATGCCATGT
CCCAAACAGGGTCTTACACTGGCTTACATATC
Found at i:21323910 original size:19 final size:19
Alignment explanation
Indices: 21323886--21323923 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21323876 GGAGCTTCAG
21323886 TCAACAATGCCTTTAGTTT
1 TCAACAATGCCTTTAGTTT
21323905 TCAACAATGCCTTTAGTTT
1 TCAACAATGCCTTTAGTTT
21323924 CTCGAAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (19 bp):
TCAACAATGCCTTTAGTTT
Found at i:21324955 original size:48 final size:49
Alignment explanation
Indices: 21324884--21325118 Score: 246
Period size: 48 Copynumber: 4.9 Consensus size: 49
21324874 GGGTAAAATA
* *
21324884 CCGATGCCAAGTCCCAGACATGGTCTTACACTGGC-CTACATAAT-AATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAATCAATG
* * * * *
21324932 CCGATGCTATGTTCCAAACATGGTCTTACACTGGC-CACAT-ATCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATCAATG
* * **
21324979 CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATATATCGGTG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-ATCAATG
* * * * * *
21325029 TCGATGCCATGTCCCAGATAGGGTCTTACACTAGCTCTCACAA-CAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATCAATG
* *
21325077 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA
21325119 TAACCCTAGT
Statistics
Matches: 153, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
46 2 0.01
47 36 0.24
48 73 0.48
49 1 0.01
50 41 0.27
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATCAATG
Found at i:21346225 original size:30 final size:30
Alignment explanation
Indices: 21346191--21346251 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21346181 TCCTTAACTC
21346191 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
21346221 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
21346251 A
1 A
21346252 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:21349835 original size:68 final size:63
Alignment explanation
Indices: 21349688--21349867 Score: 175
Period size: 68 Copynumber: 2.8 Consensus size: 63
21349678 ATATAGTTCG
21349688 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTA
* ** * *
21349751 GCTCTCTTGT-CTACATGGTGTACACAT-AGTGTCACCCATGTGACCTATCTACATCATATTGTC
1 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGC--CA--AT-TTATC
*
21349814 TTGTA
59 TCGTA
* ** * **
21349819 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGC
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGC
21349868 TACATACTAT
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 41 0.44
64 1 0.01
65 2 0.02
67 3 0.03
68 45 0.48
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTA
Found at i:21352329 original size:55 final size:55
Alignment explanation
Indices: 21352270--21352413 Score: 155
Period size: 55 Copynumber: 2.6 Consensus size: 55
21352260 ATGCAAGCCC
* ** * * *
21352270 CACGCTCGTGTTAATTTGACAGGTTCGACCACGGGTGTTAGACACGGGTGTGT-G
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACAAGGGTGTGTCG
* * * * *
21352324 ACACGCCCGTGCTGTTTTAACAGGTTCGTCCACGGTTCTTCCACAAGGGTGTGTCG
1 -CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACAAGGGTGTGTCG
* *
21352380 CACGCCCGTGTTGTTTTGGCAGGCTCGACCACGG
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGG
21352414 CCATGTCGCA
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
55 71 0.99
56 1 0.01
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.27
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACAAGGGTGTGTCG
Found at i:21352427 original size:13 final size:13
Alignment explanation
Indices: 21352409--21352434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21352399 CAGGCTCGAC
21352409 CACGGCCATGTCG
1 CACGGCCATGTCG
21352422 CACGGCCATGTCG
1 CACGGCCATGTCG
21352435 TTTTATCGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
CACGGCCATGTCG
Found at i:21366139 original size:12 final size:13
Alignment explanation
Indices: 21366115--21366144 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
21366105 GAAAAAGAAG
21366115 AATTAGTAATAAA
1 AATTAGTAATAAA
21366128 AATTAG-AATAAA
1 AATTAGTAATAAA
21366140 AATTA
1 AATTA
21366145 AATTGCAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
AATTAGTAATAAA
Found at i:21369234 original size:21 final size:20
Alignment explanation
Indices: 21369205--21369243 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21369195 TTGTGAAAAT
21369205 GTTACTATGATAATGACATAGC
1 GTTACTATGA-AATG-CATAGC
21369227 GTTA-TATGAAATGCATA
1 GTTACTATGAAATGCATA
21369244 TGTGTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 5 0.29
22 4 0.24
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (20 bp):
GTTACTATGAAATGCATAGC
Found at i:21369844 original size:15 final size:15
Alignment explanation
Indices: 21369820--21369857 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21369810 GTATCTTGGA
21369820 TTCCTCTATTTCGGAT
1 TTCCT-TATTTCGGAT
*
21369836 TTCCTTATTTTGGAT
1 TTCCTTATTTCGGAT
21369851 TT-CTTAT
1 TTCCTTAT
21369858 CATCTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 11 0.52
16 5 0.24
ACGTcount: A:0.13, C:0.18, G:0.11, T:0.58
Consensus pattern (15 bp):
TTCCTTATTTCGGAT
Found at i:21381066 original size:22 final size:22
Alignment explanation
Indices: 21381041--21381096 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
21381031 TTTGTTCTCT
* *
21381041 ATGTTGCGACATTGGATATCCC
1 ATGTTGCGACATCGGATAGCCC
*
21381063 ATGTTGCGACATCGGATCGCCC
1 ATGTTGCGACATCGGATAGCCC
*
21381085 ATGTTGCAACAT
1 ATGTTGCGACAT
21381097 AGTGTCCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (22 bp):
ATGTTGCGACATCGGATAGCCC
Found at i:21402326 original size:42 final size:44
Alignment explanation
Indices: 21402280--21402470 Score: 140
Period size: 48 Copynumber: 4.2 Consensus size: 44
21402270 TGTCCCCAAC
*
21402280 ATGGTCTTACAT-AGATCTACAT-AT-CGATGCCATATCCCAGAT
1 ATGGTCTTACATGAAATC-ACATCATGCGATGCCATATCCCAGAT
* * * * * * * *
21402322 ATGGTTTTATACGAAGTCTCATGTCGGTGGCGATGCCATGTCCCAGAC
1 ATGGTCTTACATGAAATCACA--TC-AT-GCGATGCCATATCCCAGAT
* * * *
21402370 ATGGTCTTACATGAAATCGCAT-GT-CAACGCCATATCCCAGAT
1 ATGGTCTTACATGAAATCACATCATGCGATGCCATATCCCAGAT
*
21402412 ATGGTCTTACATGAAATCACATACCAATGCCGATGCCATATCCTAGAT
1 ATGGTCTTACATGAAATCACAT--C-ATG-CGATGCCATATCCCAGAT
21402460 ATGGTCTTACA
1 ATGGTCTTACA
21402471 CTGGCACACA
Statistics
Matches: 113, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
42 46 0.41
43 3 0.03
44 3 0.03
46 3 0.03
48 58 0.51
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATGGTCTTACATGAAATCACATCATGCGATGCCATATCCCAGAT
Found at i:21402446 original size:90 final size:90
Alignment explanation
Indices: 21402266--21402470 Score: 216
Period size: 90 Copynumber: 2.3 Consensus size: 90
21402256 TACCCCACAA
* * * *
21402266 GCCATGTCCCCA-ACATGGTCTTACATAGATCTACATATCGATGCCATATCCCAGATATGGTTTT
1 GCCATGT-CCCAGACATGGTCTTACATAAATCTACATATCAACGCCATATCCCAGATATGGTCTT
* * * ** ** *
21402330 ATACGAAGTCTCATGTCGGTGGCGAT
65 ACACGAAATCACATACCAATGCCGAT
* *
21402356 GCCATGTCCCAGACATGGTCTTACATGAAATC-GCATGTCAACGCCATATCCCAGATATGGTCTT
1 GCCATGTCCCAGACATGGTCTTACAT-AAATCTACATATCAACGCCATATCCCAGATATGGTCTT
*
21402420 ACATGAAATCACATACCAATGCCGAT
65 ACACGAAATCACATACCAATGCCGAT
* * *
21402446 GCCATATCCTAGATATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
21402471 CTGGCACACA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
89 4 0.04
90 87 0.92
91 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (90 bp):
GCCATGTCCCAGACATGGTCTTACATAAATCTACATATCAACGCCATATCCCAGATATGGTCTTA
CACGAAATCACATACCAATGCCGAT
Found at i:21402567 original size:48 final size:48
Alignment explanation
Indices: 21402352--21402573 Score: 208
Period size: 48 Copynumber: 4.8 Consensus size: 48
21402342 ATGTCGGTGG
** * *
21402352 CGATGCCATGTCCCAGACATGGTCTTACA-TGAAATCGCATGTCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCACATATCAACGC
* ** * *
21402400 C-AT---A--TCCCAGATATGGTCTTACA-TGAAATCACATACCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCACATATCAACGC
* * * * * *
21402442 CGATGCCATATCCTAGATATGGTCTTACACTGGCACACATATTAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
*
21402490 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
* *
21402538 TGATGTCATGTCCCAGACATGGTCTTACACTGGCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
21402574 TCATTTTGGA
Statistics
Matches: 144, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
42 34 0.24
43 2 0.01
44 1 0.01
46 1 0.01
47 2 0.01
48 102 0.71
49 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
Found at i:21402610 original size:49 final size:48
Alignment explanation
Indices: 21402460--21402615 Score: 161
Period size: 48 Copynumber: 3.2 Consensus size: 48
21402450 TATCCTAGAT
* * * * *
21402460 ATGGTCTTACACTGGCACACATATTAACACCGATGCCATGT-CTCAGAC
1 ATGGTCTTACACTGGCTCACATATCAACGCTGATGCCAAGTAC-CAGAC
* * *
21402508 ATGGTCTTACACTGGCTCACATATCAACGCTGATGTCATGTCCCAGAC
1 ATGGTCTTACACTGGCTCACATATCAACGCTGATGCCAAGTACCAGAC
* * ** * *
21402556 ATGGTCTTACACTGGCTCTCATTTTGGATGTTGATGCCAAGTACCAGAC
1 ATGGTCTTACACTGGCTCACA-TATCAACGCTGATGCCAAGTACCAGAC
21402605 ATGGTCTTACA
1 ATGGTCTTACA
21402616 TGGGATCTCA
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
48 61 0.66
49 31 0.34
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGGTCTTACACTGGCTCACATATCAACGCTGATGCCAAGTACCAGAC
Found at i:21409904 original size:48 final size:48
Alignment explanation
Indices: 21409824--21409969 Score: 186
Period size: 48 Copynumber: 3.0 Consensus size: 48
21409814 TATCAACGAT
** * * *
21409824 ATATCCCAGATATGGTCTTACA-TGAAATCACATACCAACGCTGAAGCC
1 ATATCCCAGATATGGTCTTACACTGGCA-CACATATCAACGCCGATGCC
*
21409872 ATATCCCAGATATGGTCTTACACTGGCACACATATCAACCCCGATGCC
1 ATATCCCAGATATGGTCTTACACTGGCACACATATCAACGCCGATGCC
* * * *
21409920 ATGTCCCAAACATGGTCTTACACTGGCTCACATATCAACGCCGATGCC
1 ATATCCCAGATATGGTCTTACACTGGCACACATATCAACGCCGATGCC
21409968 AT
1 AT
21409970 GTCACAGAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 83 0.97
49 3 0.03
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (48 bp):
ATATCCCAGATATGGTCTTACACTGGCACACATATCAACGCCGATGCC
Found at i:21409986 original size:48 final size:48
Alignment explanation
Indices: 21409827--21409986 Score: 180
Period size: 48 Copynumber: 3.3 Consensus size: 48
21409817 CAACGATATA
* ** * * * *
21409827 TCCCAGATATGGTCTTACA-TGAAATCACATACCAACGCTGAAGCCATA
1 TCCCAGAAATGGTCTTACACTG-GCTCACATATCAACGCCGATGCCATG
* * *
21409875 TCCCAGATATGGTCTTACACTGGCACACATATCAACCCCGATGCCATG
1 TCCCAGAAATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATG
21409923 TCCCA-AACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATG
1 TCCCAGAA-ATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATG
* *
21409971 TCACAGAAATAGTCTT
1 TCCCAGAAATGGTCTT
21409987 TAATAGCCCG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 91 0.95
49 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.24
Consensus pattern (48 bp):
TCCCAGAAATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATG
Found at i:21410698 original size:20 final size:20
Alignment explanation
Indices: 21410673--21410713 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21410663 AAGGGCTATT
21410673 TTGTAAA-GTTGTAAAATAAG
1 TTGTAAATG-TGTAAAATAAG
*
21410693 TTGTAAATGTGTGAAATAAG
1 TTGTAAATGTGTAAAATAAG
21410713 T
1 T
21410714 GAAATTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGTAAATGTGTAAAATAAG
Found at i:21411456 original size:46 final size:46
Alignment explanation
Indices: 21411406--21411534 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 46
21411396 CCACATTATG
* *
21411406 AGAGCCAGTGTAAAACATGTCTAGGACATGCATCGGCATTGAGACA
1 AGAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCATCGAGACA
* * * *
21411452 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA
1 AGAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCATCGAGACA
*
21411498 TGCAAGCCAGTGTAAGAAC-TGTCTGGGACATGGCATC
1 AG--AGCCAGTGTAA-AACATGTCTGGGACAT-GCATC
21411535 AACACCGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 41 0.59
48 22 0.31
49 7 0.10
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
AGAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCATCGAGACA
Found at i:21411608 original size:49 final size:49
Alignment explanation
Indices: 21411366--21411682 Score: 210
Period size: 49 Copynumber: 6.6 Consensus size: 49
21411356 TATGTGTGCT
* * * *
21411366 AGTGTAAGACATGTCTTGGACAT-GCATCGACCAC-AT-TAT-GAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATGTATGGA-AGCC
* * * * * ** *
21411412 AGTGTAAAACATGTCTAGGACAT-GCATCGGCATTGA-G-A-CAAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATGTATGGA-AGCC
* *
21411458 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGA-GATATGCAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATG-TATGGAAGCC
* ** ** * *
21411506 AGTGTAAGAACTGTCTGGGACATGGCATCAACAC-CGATAAATGGGACCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATGTATGGAAGCC
* **
21411555 AGTGTATGACCTGTCTGGGACATGGCATCGGCCTCGATGTATGGAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATGTATGGAAGCC
* * * * *
21411604 AGTGTAAGACCTATCTGGGACATGGCATCGACTTAGATGTGT-G-AGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATGTATGGAAGCC
* * *
21411651 AATGTAAGACCATGTTTGGAACATGGCATCGG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGG
21411683 TATCGTACCC
Statistics
Matches: 213, Mismatches: 47, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
46 67 0.31
47 13 0.06
48 43 0.20
49 89 0.42
50 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATGTATGGAAGCC
Found at i:21413986 original size:18 final size:17
Alignment explanation
Indices: 21413953--21413986 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21413943 CGGTAATAAT
*
21413953 ATAAATCATTCATAAAG
1 ATAAATCATCCATAAAG
21413970 ATAAATCATACCATAAA
1 ATAAATCAT-CCATAAA
21413987 ACATGCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAATCATCCATAAAG
Found at i:21416231 original size:14 final size:15
Alignment explanation
Indices: 21416214--21416242 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21416204 TCACGAAAAT
21416214 TTCACACAT-ATAAA
1 TTCACACATAATAAA
21416228 TTCACACATAATAAA
1 TTCACACATAATAAA
21416243 AACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:21421288 original size:27 final size:26
Alignment explanation
Indices: 21421240--21421299 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
21421230 GGGAGACTGC
*
21421240 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
21421267 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
21421293 CAGATAT
1 CAGATAT
21421300 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21421386 original size:27 final size:26
Alignment explanation
Indices: 21421338--21421389 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21421328 GCGAGGCTGC
*
21421338 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
21421364 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
21421390 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21430461 original size:40 final size:40
Alignment explanation
Indices: 21430392--21430616 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
21430382 AAACCAAGTA
* * *
21430392 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
21430431 CCTTCGGGGCTTAACCCAGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * * *
21430471 CCTTAGGGTCTTAGCCTGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21430511 CCTTCGGGACTTAGCTCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
* *
21430554 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21430594 ACTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
21430617 CATCCGAATA
Statistics
Matches: 151, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 11 0.07
40 104 0.69
42 1 0.01
43 35 0.23
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21438850 original size:40 final size:40
Alignment explanation
Indices: 21438781--21438997 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 40
21438771 AAACCAAGTA
* * *
21438781 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21438820 CCTTCGGGACTTAACCCGGATATAGTAACTCACACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
21438860 ACTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21438900 CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
* *
21438943 ----C----CTTAGCCCGGATATAGTAACTTGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21438975 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
21438998 CATCCGAATA
Statistics
Matches: 142, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
32 11 0.08
34 1 0.01
35 16 0.11
36 1 0.01
39 13 0.09
40 88 0.62
43 12 0.08
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21445250 original size:11 final size:11
Alignment explanation
Indices: 21445234--21445258 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21445224 AACTCATTGA
21445234 GTAGGAATTAT
1 GTAGGAATTAT
21445245 GTAGGAATTAT
1 GTAGGAATTAT
21445256 GTA
1 GTA
21445259 ACCTGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (11 bp):
GTAGGAATTAT
Found at i:21445283 original size:34 final size:34
Alignment explanation
Indices: 21445188--21445294 Score: 115
Period size: 40 Copynumber: 3.0 Consensus size: 34
21445178 CTATGAATAT
*
21445188 TGAAATCGACATAACGAGTAGGAATTATGTAACC
1 TGAAATTGACATAACGAGTAGGAATTATGTAACC
* * **
21445222 TGAACTCATTGAGTAGGAATTATGTAGGAATTATGTAACC
1 TGAA---ATTGA-CA-TAACGA-GTAGGAATTATGTAACC
21445262 TGAAATTGACATAACGAGTAGGAATTATGTAAC
1 TGAAATTGACATAACGAGTAGGAATTATGTAAC
21445295 GACAAAAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
34 20 0.34
35 3 0.05
36 1 0.02
37 9 0.16
38 1 0.02
39 3 0.05
40 21 0.36
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (34 bp):
TGAAATTGACATAACGAGTAGGAATTATGTAACC
Found at i:21445433 original size:45 final size:43
Alignment explanation
Indices: 21445371--21445461 Score: 137
Period size: 45 Copynumber: 2.1 Consensus size: 43
21445361 CACTAGGAAT
*
21445371 TATGTAACCTGAACTCATTGAGTTGTTGTCTAAGTTCATGATA
1 TATGTAACCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATA
* *
21445414 TATGTAACATCTGAACTCATTGAGTTGTGGTCTGAGTTCGTGATA
1 TATGTAAC--CTGAACTCATTGAGTTGTGGTCTAAGTTCATGATA
21445459 TAT
1 TAT
21445462 TTGACACATG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 8 0.19
45 35 0.81
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (43 bp):
TATGTAACCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATA
Found at i:21453391 original size:11 final size:10
Alignment explanation
Indices: 21453374--21453403 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
21453364 GAAAGGCTGT
21453374 AAAAATAATA
1 AAAAATAATA
21453384 ATAAAATAATA
1 A-AAAATAATA
21453395 AAAAATAAT
1 AAAAATAAT
21453404 CCCAATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAATAATA
Found at i:21468289 original size:49 final size:49
Alignment explanation
Indices: 21468234--21468571 Score: 514
Period size: 47 Copynumber: 7.1 Consensus size: 49
21468224 ATGTACAAGA
21468234 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
21468283 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGGGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* ** *
21468330 TATG--TGTGTGATAAGGCCGAATGGAAAATGTGATGAATGTGAAGGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
21468377 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
21468426 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
21468475 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTA
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
21468522 TATGTATA--TGATAAGGCCAAATGGTCAATGTGATGGAA-GTGGAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTG
21468569 TAT
1 TAT
21468572 AACTGTGATA
Statistics
Matches: 269, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
47 168 0.62
48 3 0.01
49 98 0.36
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.28
Consensus pattern (49 bp):
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:21468387 original size:27 final size:27
Alignment explanation
Indices: 21468357--21468439 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
21468347 CGAATGGAAA
21468357 ATGTGATGAATGTGAAGGTGTATGTAT
1 ATGTGATGAATGTGAAGGTGTATGTAT
* * *
21468384 ATGTGAT-AAGGCCGAA--TG---GCCA-
1 ATGTGATGAATG-TGAAGGTGTATG-TAT
21468406 ATGTGATGAATGTGAAGGTGTATGTAT
1 ATGTGATGAATGTGAAGGTGTATGTAT
21468433 ATGTGAT
1 ATGTGAT
21468440 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.33
Consensus pattern (27 bp):
ATGTGATGAATGTGAAGGTGTATGTAT
Done.