Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 74 of 171
Found at i:25855818 original size:25 final size:25
Alignment explanation
Indices: 25855776--25855828 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
25855766 AATATAAAGC
* *
25855776 AATATAAAGCAGACCAAAGAAAAAT
1 AATATAAAGCAAAACAAAGAAAAAT
* *
25855801 AATATAAAGCAAAACAAAGTAATAT
1 AATATAAAGCAAAACAAAGAAAAAT
25855826 AAT
1 AAT
25855829 GCCAGGACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.17
Consensus pattern (25 bp):
AATATAAAGCAAAACAAAGAAAAAT
Found at i:25858062 original size:3 final size:3
Alignment explanation
Indices: 25858023--25858047 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25858013 ATAAACCTAT
25858023 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
25858048 AGAGCACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25867563 original size:25 final size:24
Alignment explanation
Indices: 25867506--25867564 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
25867496 AAAAATAGGT
* *
25867506 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
25867529 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
25867553 TATTTTAATAAT
1 TATATT-ATAAT
25867565 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:25867586 original size:58 final size:56
Alignment explanation
Indices: 25867524--25867683 Score: 166
Period size: 58 Copynumber: 2.8 Consensus size: 56
25867514 ATTTTTCTAA
*
25867524 TATTATATATTATA-ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATAT
1 TATTA-ATATTATATATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATAT
* * *
25867582 TATTAA-ATTATATATTATTTTATTAAATTGTATTTAATAAGAATTATGTTAAAATAT
1 TATTAATATTATATA-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
*
25867639 AATTAAACTAATTA-ATATTTTTATTAAATTATATTTAATAATAAT
1 TATT-AA-T-ATTATATATTTTTATTAAATTATATTTAATAATAAT
25867684 CATTAAAATT
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
56 6 0.07
57 12 0.14
58 49 0.56
59 9 0.10
60 7 0.08
61 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (56 bp):
TATTAATATTATATATTTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
Found at i:25867881 original size:16 final size:16
Alignment explanation
Indices: 25867862--25867906 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
25867852 GATTACAGTC
*
25867862 CTATTTCATTACAACT
1 CTATTCCATTACAACT
*
25867878 CTATTCCATTACACCT
1 CTATTCCATTACAACT
*
25867894 CTATTCTATTACA
1 CTATTCCATTACA
25867907 GCGAACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (16 bp):
CTATTCCATTACAACT
Found at i:25867999 original size:14 final size:14
Alignment explanation
Indices: 25867977--25868015 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25867967 TAGAATTTTG
*
25867977 ATTTGAATTTCAAA
1 ATTTTAATTTCAAA
*
25867991 ATTTTAATTTCGAA
1 ATTTTAATTTCAAA
25868005 ATTTATAATTT
1 ATTT-TAATTT
25868016 TTGAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (14 bp):
ATTTTAATTTCAAA
Found at i:25868015 original size:15 final size:15
Alignment explanation
Indices: 25867982--25868030 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
25867972 TTTTGATTTG
*
25867982 AATTTCAAAATTT-T
1 AATTTCGAAATTTAT
25867996 AATTTCGAAATTTAT
1 AATTTCGAAATTTAT
*
25868011 AATTTTTG-AATTTAT
1 AA-TTTCGAAATTTAT
25868026 AATTT
1 AATTT
25868031 TTAAATTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 15 0.48
15 12 0.39
16 4 0.13
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (15 bp):
AATTTCGAAATTTAT
Found at i:25868031 original size:15 final size:15
Alignment explanation
Indices: 25867989--25868037 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
25867979 TTGAATTTCA
**
25867989 AAATTT-TAATTTCG
1 AAATTTATAATTTTT
25868003 AAATTTATAATTTTT
1 AAATTTATAATTTTT
*
25868018 GAATTTATAATTTTT
1 AAATTTATAATTTTT
25868033 AAATT
1 AAATT
25868038 CTTCATTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 6 0.20
15 24 0.80
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (15 bp):
AAATTTATAATTTTT
Found at i:25868870 original size:182 final size:182
Alignment explanation
Indices: 25868485--25869068 Score: 948
Period size: 182 Copynumber: 3.2 Consensus size: 182
25868475 AATACAATTG
* * * * *
25868485 CGCACTAAATTCCTGCTATGTATTATTGCAGTAATCACGTTTTATATGTTCGCAAAGAATGAACA
1 CGCACTAAATTCCTGCTTTGCATTGTTGCAGTAATCACCTTTTATATGTTCACAAAGAATGAACA
25868550 CGTTGGCTTGGTTACCACTCAACTACTAGA----TTAATTTCTGTACAGTCTCTTTTTCTGACGC
66 CGTTGGCTTGGTTACCACTCAACTACTAGACTGTTTAATTTCTGTACAGTCTC-TTTTCTGACGC
*
25868611 CTCATACCATTCGACTGCACTATCAGTTTCATAGACGGTCAATGGAGAAATCA
130 CTCATACCACTCGACTGCACTATCAGTTTCATAGACGGTCAATGGAGAAATCA
25868664 CGCACTAAATTCCTGCTTTGCATTGTTGCAGTAATCACCTTTTATATGTTCACAAAGAATGAACA
1 CGCACTAAATTCCTGCTTTGCATTGTTGCAGTAATCACCTTTTATATGTTCACAAAGAATGAACA
*
25868729 CGCTGGCTTGGTTACCACTCAACTACTAGACTGTTTAATTTCTGTACAGTCTCTTTTCCTGACGC
66 CGTTGGCTTGGTTACCACTCAACTACTAGACTGTTTAATTTCTGTACAGTCTCTTTT-CTGACGC
25868794 CTCATA-CACTCGACTGCACTATCAGTTTCATAGACGGTCAATGGAGAAATCA
130 CTCATACCACTCGACTGCACTATCAGTTTCATAGACGGTCAATGGAGAAATCA
* *
25868846 CGCACGAAATTCCTGCTTTGCATTGTTGCAGTAATCACGTTTTATATGTTCACAAAGAATGAACA
1 CGCACTAAATTCCTGCTTTGCATTGTTGCAGTAATCACCTTTTATATGTTCACAAAGAATGAACA
*
25868911 CGTTGGCTTGGTTACCACTCAACTACTAGACTGTTTAATTTCTGTACAGTCTCTTTTCTGACGCT
66 CGTTGGCTTGGTTACCACTCAACTACTAGACTGTTTAATTTCTGTACAGTCTCTTTTCTGACGCC
* * *
25868976 TCATACCACTCGACTGCACTATCAGTTTCGT--ACGTGATCAATGAAGAAATAA
131 TCATACCACTCGACTGCACTATCAGTTTCATAGACG-G-TCAATGGAGAAATCA
* *
25869028 CGCACTAACTTCCTGCTTTCCATTGTTGCAGTAATCACCTT
1 CGCACTAAATTCCTGCTTTGCATTGTTGCAGTAATCACCTT
25869069 GGTATCAATG
Statistics
Matches: 379, Mismatches: 18, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
179 89 0.23
180 3 0.01
181 13 0.03
182 242 0.64
183 32 0.08
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (182 bp):
CGCACTAAATTCCTGCTTTGCATTGTTGCAGTAATCACCTTTTATATGTTCACAAAGAATGAACA
CGTTGGCTTGGTTACCACTCAACTACTAGACTGTTTAATTTCTGTACAGTCTCTTTTCTGACGCC
TCATACCACTCGACTGCACTATCAGTTTCATAGACGGTCAATGGAGAAATCA
Found at i:25877747 original size:20 final size:20
Alignment explanation
Indices: 25877722--25877767 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
25877712 CTATATAGAG
*
25877722 ATATTATATTACTTTTCTTT
1 ATATTATATTACTTTGCTTT
* *
25877742 ATATTATTTTGCTTTGCTTT
1 ATATTATATTACTTTGCTTT
25877762 ATATTA
1 ATATTA
25877768 CTTTTCTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (20 bp):
ATATTATATTACTTTGCTTT
Found at i:25877780 original size:20 final size:20
Alignment explanation
Indices: 25877738--25877781 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25877728 TATTACTTTT
*
25877738 CTTTATATTATTTTGCTTTG
1 CTTTATATTATTTTGCTTCG
25877758 CTTTATATTACTTTT-CTTCG
1 CTTTATATTA-TTTTGCTTCG
25877778 CTTT
1 CTTT
25877782 TCTTTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.14, C:0.16, G:0.07, T:0.64
Consensus pattern (20 bp):
CTTTATATTATTTTGCTTCG
Found at i:25878088 original size:26 final size:27
Alignment explanation
Indices: 25878031--25878091 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
25878021 ATAGGTGAAT
*
25878031 TTAATT-TATTTAATTATTATTTTTAA
1 TTAATTATATTTAATTATTAGTTTTAA
25878057 TTTAATTATATTTATATTATT-GTTTTAA
1 -TTAATTATATTTA-ATTATTAGTTTTAA
25878085 -TAATTAT
1 TTAATTAT
25878092 TTTTCCCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 7 0.23
27 6 0.19
28 12 0.39
29 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
TTAATTATATTTAATTATTAGTTTTAA
Found at i:25878741 original size:17 final size:17
Alignment explanation
Indices: 25878718--25878763 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
25878708 ACTGACAAAT
25878718 AATTTAATTTTTTAGT-
1 AATTTAATTTTTTAGTG
*
25878734 ACATTTAA--TATTAGTG
1 A-ATTTAATTTTTTAGTG
25878750 AATTTAATTTTTTA
1 AATTTAATTTTTTA
25878764 TTGTATTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
15 12 0.50
16 2 0.08
17 10 0.42
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (17 bp):
AATTTAATTTTTTAGTG
Found at i:25882148 original size:15 final size:15
Alignment explanation
Indices: 25882132--25882219 Score: 57
Period size: 15 Copynumber: 6.2 Consensus size: 15
25882122 ATTTCTTTGT
25882132 TTTGCTTTATATTG-
1 TTTGCTTTATATTGC
**
25882146 TTTTATATTACT-TTGC
1 TTTGCT-TTA-TATTGC
25882162 TTTGCTTTATATTGC
1 TTTGCTTTATATTGC
25882177 TTTGC----T-TTGC
1 TTTGCTTTATATTGC
25882187 TTTGCTTTATATTAG-
1 TTTGCTTTATATT-GC
* *
25882202 TTTGCTTTGTTTTGC
1 TTTGCTTTATATTGC
25882217 TTT
1 TTT
25882220 ATATTCCTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 21
0.68 0.07 0.25
Matches are distributed among these distances:
10 9 0.16
11 1 0.02
14 7 0.12
15 34 0.60
16 6 0.11
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTGCTTTATATTGC
Found at i:25882160 original size:25 final size:23
Alignment explanation
Indices: 25882132--25882300 Score: 112
Period size: 25 Copynumber: 6.9 Consensus size: 23
25882122 ATTTCTTTGT
*
25882132 TTTGCTTTATATTGTTTTATATTAC
1 TTTGCTTT-T-TTGCTTTATATTAC
*
25882157 TTTGC---TTTGCTTTATATTGC
1 TTTGCTTTTTTGCTTTATATTAC
*
25882177 TTTGCTTTGCTTTGCTTTATATTAG
1 TTTGCTTT--TTTGCTTTATATTAC
*
25882202 TTTGCTTTGTTTTGCTTTATATTCC
1 TTTGC-TT-TTTTGCTTTATATTAC
* *
25882227 TTTGCTTTGCTTTACTTTATATT-G
1 TTTGCTTT--TTTGCTTTATATTAC
**
25882251 TTGTGCTTTGGCTTTGCTTTATATTGT
1 TT-TGCTTT---TTTGCTTTATATTAC
25882278 TTTGCTTTGCTTTGCTTTATATT
1 TTTGCTTT--TTTGCTTTATATT
25882301 GTTTTATATT
Statistics
Matches: 122, Mismatches: 10, Indels: 24
0.78 0.06 0.15
Matches are distributed among these distances:
20 17 0.14
21 1 0.01
23 1 0.01
24 4 0.03
25 74 0.61
26 22 0.18
27 3 0.02
ACGTcount: A:0.11, C:0.12, G:0.14, T:0.62
Consensus pattern (23 bp):
TTTGCTTTTTTGCTTTATATTAC
Found at i:25882166 original size:5 final size:5
Alignment explanation
Indices: 25882156--25882295 Score: 78
Period size: 5 Copynumber: 27.8 Consensus size: 5
25882146 TTTTATATTA
* *
25882156 CTTTG CTTTG CTTT- ATATTG CTTTG CTTTG CTTTG CTTT- ATATTAG
1 CTTTG CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CTTTG CT-TT-G
* * * * *
25882202 -TTTG CTTTG TTTTG CTTT- ATATTC CTTTG CTTTG CTTTA CTTT- ATATTG
1 CTTTG CTTTG CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CTTTG CT-TTG
* *
25882251 -TTGTG CTTTGG CTTTG CTTT- ATATTG TTTTG CTTTG CTTTG CTTT
1 CTT-TG CTTT-G CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CTTT
25882296 ATATTGTTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
4 7 0.07
5 89 0.83
6 11 0.10
ACGTcount: A:0.09, C:0.14, G:0.16, T:0.61
Consensus pattern (5 bp):
CTTTG
Found at i:25882170 original size:20 final size:20
Alignment explanation
Indices: 25882147--25882189 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
25882137 TTTATATTGT
25882147 TTTATATTACTTTGCTTTGC
1 TTTATATTACTTTGCTTTGC
*
25882167 TTTATATTGCTTTGCTTTGC
1 TTTATATTACTTTGCTTTGC
25882187 TTT
1 TTT
25882190 GCTTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.63
Consensus pattern (20 bp):
TTTATATTACTTTGCTTTGC
Found at i:25882180 original size:50 final size:49
Alignment explanation
Indices: 25882126--25882290 Score: 172
Period size: 50 Copynumber: 3.3 Consensus size: 49
25882116 TATTACATTT
* * *
25882126 CTTTGTTTTGCTTTATATTGTTTTATATTACTTTGCTTTGCTTTATATTG
1 CTTTGCTTTGCTTTATATTATATTAT-TTACTTTGCTTTGCTTTATATTG
* * * *
25882176 CTTTGCTTTGCTTTGCT-TTATATTAGTTTGCTTTGTTTTGCTTTATATTC
1 CTTTGCTTTGCTTT-ATATTATATTA-TTTACTTTGCTTTGCTTTATATTG
* *
25882226 CTTTGCTTTGCTTTACT-TTATATTGTTGTGCTTTGGCTTTGCTTTATATTG
1 CTTTGCTTTGCTTTA-TATTATATTATT-TACTTT-GCTTTGCTTTATATTG
*
25882277 TTTTGCTTTGCTTT
1 CTTTGCTTTGCTTT
25882291 GCTTTATATT
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
49 2 0.02
50 67 0.68
51 29 0.30
ACGTcount: A:0.10, C:0.13, G:0.15, T:0.62
Consensus pattern (49 bp):
CTTTGCTTTGCTTTATATTATATTATTTACTTTGCTTTGCTTTATATTG
Found at i:25882301 original size:25 final size:25
Alignment explanation
Indices: 25882156--25882305 Score: 221
Period size: 25 Copynumber: 6.0 Consensus size: 25
25882146 TTTTATATTA
*
25882156 CTTTGCTTTGCTTTATATTGCTTTG
1 CTTTGCTTTGCTTTATATTGTTTTG
25882181 CTTTGCTTTGCTTTATATTAG-TTTG
1 CTTTGCTTTGCTTTATATT-GTTTTG
* **
25882206 CTTTGTTTTGCTTTATATTCCTTTG
1 CTTTGCTTTGCTTTATATTGTTTTG
* *
25882231 CTTTGCTTTACTTTATATTGTTGTG
1 CTTTGCTTTGCTTTATATTGTTTTG
25882256 CTTTGGCTTTGCTTTATATTGTTTTG
1 CTTT-GCTTTGCTTTATATTGTTTTG
25882282 CTTTGCTTTGCTTTATATTGTTTT
1 CTTTGCTTTGCTTTATATTGTTTT
25882306 ATATTACTTC
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
25 89 0.79
26 24 0.21
ACGTcount: A:0.09, C:0.13, G:0.15, T:0.62
Consensus pattern (25 bp):
CTTTGCTTTGCTTTATATTGTTTTG
Found at i:25882539 original size:24 final size:24
Alignment explanation
Indices: 25882508--25882590 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
25882498 AGGTTATGGA
25882508 TTTTATTATTAATCTTTTTTTCCT
1 TTTTATTATTAATCTTTTTTTCCT
* * ** ***
25882532 TTTTATTACTACACCATTAATTAATGGA
1 TTTTATTATTA-ATC-TT--TTTTTCCT
25882560 TTTTATTATTAATCTTTTTTTCCT
1 TTTTATTATTAATCTTTTTTTCCT
25882584 TTTTATT
1 TTTTATT
25882591 GCTACCTCAT
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
24 20 0.49
25 2 0.05
26 4 0.10
27 2 0.05
28 13 0.32
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTATTATTAATCTTTTTTTCCT
Found at i:25882562 original size:52 final size:52
Alignment explanation
Indices: 25882503--25882608 Score: 187
Period size: 52 Copynumber: 2.0 Consensus size: 52
25882493 AGATCAGGTT
25882503 ATGGATTTTATTATTAATCTTTTTTTCCTTTTTATTACTACAC-CATTAATTA
1 ATGGATTTTATTATTAATCTTTTTTTCCTTTTTATTACTAC-CTCATTAATTA
*
25882555 ATGGATTTTATTATTAATCTTTTTTTCCTTTTTATTGCTACCTCATTAATTA
1 ATGGATTTTATTATTAATCTTTTTTTCCTTTTTATTACTACCTCATTAATTA
25882607 AT
1 AT
25882609 TTAATGTCCT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 1 0.02
52 51 0.98
ACGTcount: A:0.25, C:0.13, G:0.05, T:0.57
Consensus pattern (52 bp):
ATGGATTTTATTATTAATCTTTTTTTCCTTTTTATTACTACCTCATTAATTA
Found at i:25883411 original size:20 final size:20
Alignment explanation
Indices: 25883386--25883433 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25883376 TGTCAACATG
* *
25883386 TTGCTTTTCTTTGCTGTGTT
1 TTGCTTTTCTGTGCTGTGCT
* *
25883406 TTGCTTTGCTGTGTTGTGCT
1 TTGCTTTTCTGTGCTGTGCT
25883426 TTGCTTTT
1 TTGCTTTT
25883434 ATATTACCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.23, T:0.62
Consensus pattern (20 bp):
TTGCTTTTCTGTGCTGTGCT
Found at i:25883414 original size:15 final size:15
Alignment explanation
Indices: 25883390--25883430 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
25883380 AACATGTTGC
25883390 TTTT-CTTTGCTGTG
1 TTTTGCTTTGCTGTG
25883404 TTTTGCTTTGCTGTG
1 TTTTGCTTTGCTGTG
*
25883419 TTGTGCTTTGCT
1 TTTTGCTTTGCT
25883431 TTTATATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.00, C:0.15, G:0.24, T:0.61
Consensus pattern (15 bp):
TTTTGCTTTGCTGTG
Found at i:25883472 original size:27 final size:27
Alignment explanation
Indices: 25883442--25883555 Score: 88
Period size: 27 Copynumber: 4.6 Consensus size: 27
25883432 TTATATTACC
*
25883442 TTGCTTTGTTTTTTATATTATTTTGCT
1 TTGCTTTGTTTTTTATATTGTTTTGCT
*
25883469 TTGC------TTTTATATTGCTTTGC-
1 TTGCTTTGTTTTTTATATTGTTTTGCT
*
25883489 TT--TT-CT-TTTTATATTGTTTTGCT
1 TTGCTTTGTTTTTTATATTGTTTTGCT
* *
25883512 TTGCTTTGCTTTTTATATTGTTTTTCT
1 TTGCTTTGTTTTTTATATTGTTTTGCT
25883539 TTGCTTTGCTTTGTTTA
1 TTGCTTTG-TTT-TTTA
25883556 GCTCTACTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
20 2 0.03
21 14 0.20
22 15 0.22
23 2 0.03
25 2 0.03
27 28 0.41
28 2 0.03
29 4 0.06
ACGTcount: A:0.09, C:0.11, G:0.12, T:0.68
Consensus pattern (27 bp):
TTGCTTTGTTTTTTATATTGTTTTGCT
Found at i:25883475 original size:43 final size:43
Alignment explanation
Indices: 25883422--25883518 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
25883412 TGCTGTGTTG
25883422 TGCTTTGCTTTTATATTACCTTGCTTTGT-TTTTTATATTATTT
1 TGCTTTGCTTTTATATTACCTTGCTTT-TCTTTTTATATTATTT
* * *
25883465 TGCTTTGCTTTTATATTGCTTTGCTTTTCTTTTTATATTGTTT
1 TGCTTTGCTTTTATATTACCTTGCTTTTCTTTTTATATTATTT
25883508 TGCTTTGCTTT
1 TGCTTTGCTTT
25883519 GCTTTTTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 1 0.02
43 49 0.98
ACGTcount: A:0.10, C:0.12, G:0.11, T:0.66
Consensus pattern (43 bp):
TGCTTTGCTTTTATATTACCTTGCTTTTCTTTTTATATTATTT
Found at i:25883483 original size:16 final size:16
Alignment explanation
Indices: 25883459--25883492 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25883449 GTTTTTTATA
*
25883459 TTATTTTGCTTTGCTT
1 TTATATTGCTTTGCTT
25883475 TTATATTGCTTTGCTT
1 TTATATTGCTTTGCTT
25883491 TT
1 TT
25883493 CTTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.68
Consensus pattern (16 bp):
TTATATTGCTTTGCTT
Found at i:25883543 original size:22 final size:22
Alignment explanation
Indices: 25883417--25883545 Score: 118
Period size: 22 Copynumber: 5.7 Consensus size: 22
25883407 TGCTTTGCTG
*
25883417 TGTTGTGCTTTGC-TTTTATAT
1 TGTTTTGCTTTGCTTTTTATAT
*** *
25883438 TACCTTGCTTTGTTTTTTATAT
1 TGTTTTGCTTTGCTTTTTATAT
*
25883460 TATTTTGCTTTGC-TTTTATAT
1 TGTTTTGCTTTGCTTTTTATAT
* *
25883481 TGCTTTGCTTTTCTTTTTATAT
1 TGTTTTGCTTTGCTTTTTATAT
25883503 TGTTTTGCTTTGCTTTGCTTTTTATAT
1 TG---T--TTTGCTTTGCTTTTTATAT
*
25883530 TGTTTTTCTTTGCTTT
1 TGTTTTGCTTTGCTTT
25883546 GCTTTGTTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
21 26 0.30
22 40 0.46
24 1 0.01
27 20 0.23
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.67
Consensus pattern (22 bp):
TGTTTTGCTTTGCTTTTTATAT
Found at i:25883551 original size:32 final size:27
Alignment explanation
Indices: 25883480--25883550 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
25883470 TGCTTTTATA
*
25883480 TTGCTTTGCTTTTCTTTTTATATTGTT
1 TTGCTTTGCTTTGCTTTTTATATTGTT
25883507 TTGCTTTGCTTTGCTTTTTATATTGTT
1 TTGCTTTGCTTTGCTTTTTATATTGTT
*
25883534 TTTCTTTGCTTTGCTTT
1 TTGCTTTGCTTTGCTTT
25883551 GTTTAGCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.06, C:0.13, G:0.13, T:0.69
Consensus pattern (27 bp):
TTGCTTTGCTTTGCTTTTTATATTGTT
Found at i:25891144 original size:17 final size:17
Alignment explanation
Indices: 25891122--25891154 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25891112 ATTTTTCGTA
25891122 ATAAATCTTTC-TAACCT
1 ATAAAT-TTTCTTAACCT
25891139 ATAAATTTTCTTAACC
1 ATAAATTTTCTTAACC
25891155 AAAGCTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATTTTCTTAACCT
Found at i:25893270 original size:8 final size:8
Alignment explanation
Indices: 25893252--25893290 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
25893242 TATATATATA
*
25893252 TTTTTTAT
1 TTTTTTCT
*
25893260 TTTCTTCT
1 TTTTTTCT
25893268 TTTTTTCT
1 TTTTTTCT
25893276 ATTTTTTCT
1 -TTTTTTCT
25893285 TTTTTT
1 TTTTTT
25893291 TATAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:25893284 original size:17 final size:17
Alignment explanation
Indices: 25893252--25893293 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
25893242 TATATATATA
25893252 TTTTTTATTTTCTTCTT
1 TTTTTTATTTTCTTCTT
25893269 TTTTTCTATTTT-TTCTT
1 TTTTT-TATTTTCTTCTT
25893286 TTTTTTAT
1 TTTTTTAT
25893294 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.12
17 15 0.62
18 6 0.25
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTATTTTCTTCTT
Found at i:25898175 original size:42 final size:43
Alignment explanation
Indices: 25898121--25898211 Score: 166
Period size: 42 Copynumber: 2.1 Consensus size: 43
25898111 TAACATCATA
25898121 GCGCTTGTGGAGAAAGCGCCGCTAAAAAACATGG-CTTTAGCG
1 GCGCTTGTGGAGAAAGCGCCGCTAAAAAACATGGCCTTTAGCG
*
25898163 GCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTTAGCG
1 GCGCTTGTGGAGAAAGCGCCGCTAAAAAACATGGCCTTTAGCG
25898206 GCGCTT
1 GCGCTT
25898212 TTTCGCATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 33 0.70
43 14 0.30
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (43 bp):
GCGCTTGTGGAGAAAGCGCCGCTAAAAAACATGGCCTTTAGCG
Found at i:25905562 original size:32 final size:30
Alignment explanation
Indices: 25905497--25905583 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 30
25905487 TCCTTCATCA
*
25905497 AGATTTCGTTCTGCTTTTTGGATTTTATCC
1 AGATTTTGTTCTGCTTTTTGGATTTTATCC
*
25905527 AGATTTTGTTTCTGCTTTTTGGGATTTTATTC
1 AGATTTTG-TTCTGCTTTTT-GGATTTTATCC
* *
25905559 AGATTTTGGTCTGCTCTTTGGATTT
1 AGATTTTGTTCTGCTTTTTGGATTT
25905584 CCTTAGGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
30 13 0.25
31 20 0.39
32 18 0.35
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.55
Consensus pattern (30 bp):
AGATTTTGTTCTGCTTTTTGGATTTTATCC
Found at i:25905794 original size:21 final size:21
Alignment explanation
Indices: 25905764--25905852 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
25905754 AACTCACAAA
* *
25905764 AAAAAAAGAAGTGAGTTAGAC
1 AAAAAAAGAAGTAACTTAGAC
* * *
25905785 AAAAAGAGAAGCAACTTGGAC
1 AAAAAAAGAAGTAACTTAGAC
25905806 AAAAAGAA-AAGTAACTTAGAC
1 AAAAA-AAGAAGTAACTTAGAC
*
25905827 AAAAAAAACGAAGTGACTTAGAC
1 -AAAAAAA-GAAGTAACTTAGAC
25905850 AAA
1 AAA
25905853 TCTTTTTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
21 34 0.62
22 9 0.16
23 12 0.22
ACGTcount: A:0.58, C:0.10, G:0.19, T:0.12
Consensus pattern (21 bp):
AAAAAAAGAAGTAACTTAGAC
Found at i:25912130 original size:22 final size:23
Alignment explanation
Indices: 25912105--25912150 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25912095 GTTGATAAGT
25912105 TACCAAACTAG-AAAAAAAACAA
1 TACCAAACTAGAAAAAAAAACAA
25912127 TACCAAACTAGAAAAAAAAACAA
1 TACCAAACTAGAAAAAAAAACAA
25912150 T
1 T
25912151 CATTTGCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.67, C:0.17, G:0.04, T:0.11
Consensus pattern (23 bp):
TACCAAACTAGAAAAAAAAACAA
Found at i:25913155 original size:20 final size:20
Alignment explanation
Indices: 25913132--25913171 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25913122 ATAATAAAAT
* *
25913132 AAAATAAAACTAAAACTAAA
1 AAAATAAAAATAAAAATAAA
25913152 AAAATAAAAATAAAAATAAA
1 AAAATAAAAATAAAAATAAA
25913172 TGTACTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAATAAAAATAAAAATAAA
Found at i:25915939 original size:14 final size:14
Alignment explanation
Indices: 25915922--25915971 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
25915912 ATAAAAGGGA
25915922 AAAAATTAAAATAT
1 AAAAATTAAAATAT
25915936 AAAAATT-AAAT-T
1 AAAAATTAAAATAT
**
25915948 AAAAATGCAAATA-
1 AAAAATTAAAATAT
*
25915961 AAAAAATAAAA
1 AAAAATTAAAA
25915972 AATGGCTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
12 7 0.23
13 16 0.53
14 7 0.23
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAAATTAAAATAT
Found at i:25919916 original size:25 final size:26
Alignment explanation
Indices: 25919766--25919925 Score: 225
Period size: 26 Copynumber: 6.2 Consensus size: 26
25919756 GAAGCAAAGT
25919766 GATATACTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
25919792 GATATACTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
*
25919818 GATATACTTAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
25919844 GATATACTGAACTGGCTCGTAA-AGC
1 GATATACTGAACTGGCTCGTAAGAGC
* **
25919869 GATATACTGAACTGGTTTATAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
** * * *
25919895 GATATTTTG-GCTGGTTCGTAAGAGT
1 GATATACTGAACTGGCTCGTAAGAGC
25919920 GATATA
1 GATATA
25919926 TTGTCTGGGC
Statistics
Matches: 121, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
25 39 0.32
26 82 0.68
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (26 bp):
GATATACTGAACTGGCTCGTAAGAGC
Found at i:25924398 original size:26 final size:26
Alignment explanation
Indices: 25924348--25924642 Score: 274
Period size: 26 Copynumber: 11.5 Consensus size: 26
25924338 TAAGAAGTGA
* *
25924348 AGCGATATACTAAATTGGCTCGTAAG
1 AGCGATATACTGAACTGGCTCGTAAG
* * *
25924374 AGTGATATACTGAACTGACTTGTAAG
1 AGCGATATACTGAACTGGCTCGTAAG
* * * *
25924400 AGAGATATATTGAACTAGCTCGTTAG
1 AGCGATATACTGAACTGGCTCGTAAG
* *
25924426 AGCGATATACTAAACTGGCTCGTAGG
1 AGCGATATACTGAACTGGCTCGTAAG
* * *
25924452 AGTGATATATTGAACTGGCTTGTAAG
1 AGCGATATACTGAACTGGCTCGTAAG
* * *
25924478 AACAATATACTGAACTGGCTCGTGAG
1 AGCGATATACTGAACTGGCTCGTAAG
25924504 AGCGATATACTGAACTGGCTCGTAAG
1 AGCGATATACTGAACTGGCTCGTAAG
* * *
25924530 AGCGATATAC-GTAACAGACTAGTAAG
1 AGCGATATACTG-AACTGGCTCGTAAG
* *
25924556 AGCGATATACTTAACTGGCTCAT-AG
1 AGCGATATACTGAACTGGCTCGTAAG
* * * *
25924581 AG-GTTATACTGAATTGCCTCATAAG
1 AGCGATATACTGAACTGGCTCGTAAG
* * ** *
25924606 AGCAATATCCT-AGTTGGCTTGTAAG
1 AGCGATATACTGAACTGGCTCGTAAG
25924631 AGCGATATACTG
1 AGCGATATACTG
25924643 TTTGGGCACG
Statistics
Matches: 212, Mismatches: 52, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
24 16 0.08
25 28 0.13
26 168 0.79
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (26 bp):
AGCGATATACTGAACTGGCTCGTAAG
Found at i:25926426 original size:21 final size:23
Alignment explanation
Indices: 25926397--25926440 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
25926387 ACTTTCATCA
*
25926397 TTAAGCCTTAAT-TAACCTATTT
1 TTAAGCCTTAATAAAACCTATTT
25926419 TTAA-CCTTAATAAAACCTATTT
1 TTAAGCCTTAATAAAACCTATTT
25926441 ATACTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.43
Consensus pattern (23 bp):
TTAAGCCTTAATAAAACCTATTT
Found at i:25940930 original size:20 final size:20
Alignment explanation
Indices: 25940905--25940943 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25940895 TATCGATACA
25940905 AGTGACAGATCTACCGATAT
1 AGTGACAGATCTACCGATAT
* *
25940925 AGTGACTGTTCTACCGATA
1 AGTGACAGATCTACCGATA
25940944 CATGTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (20 bp):
AGTGACAGATCTACCGATAT
Found at i:25945558 original size:89 final size:87
Alignment explanation
Indices: 25945413--25945582 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 87
25945403 TATAAACTCG
* * *
25945413 GATTCAATGAAGAAGTACCTCACCTAAAAAAATAAAAAAAGAGAGGTCGAAATGAAAACCCACAA
1 GATTCAATGAAGAAGTACCTCACCAAAAAAAAAAAAAAAAGAGAGATCGAAATGAAAACCCACAA
25945478 AAGACATCTTGAAACCAACTTA
66 AAGACATCTTGAAACCAACTTA
* * **
25945500 GATTCAGTGAAGAAGTACTTCACCAAAAAAAAAAAGAAAAAAGAGAGATCGAAATGAAAACCCGT
1 GATTCAATGAAGAAGTACCTCACC-AAAAAAAAAA-AAAAAAGAGAGATCGAAATGAAAACCCAC
* *
25945565 AAAGGGCATCTTGAAACC
64 AAAAGACATCTTGAAACC
25945583 TAAGAAGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 22 0.31
88 8 0.11
89 42 0.58
ACGTcount: A:0.51, C:0.17, G:0.16, T:0.15
Consensus pattern (87 bp):
GATTCAATGAAGAAGTACCTCACCAAAAAAAAAAAAAAAAGAGAGATCGAAATGAAAACCCACAA
AAGACATCTTGAAACCAACTTA
Found at i:25946562 original size:101 final size:100
Alignment explanation
Indices: 25946375--25946839 Score: 345
Period size: 101 Copynumber: 4.6 Consensus size: 100
25946365 AAATCTTATA
* ** *
25946375 TCCCTGAAGTTGTAGTGCAATGGAGTGAAGTTACAACACTAAATCCTATATCCCTGAAGTTGTAA
1 TCCCTGAAGTTGTAGTGGAAT-GAGTGAAGCCACAACACCAAATCCTATATCCCTGAAGTTGTAA
* *
25946440 GGATCAAATTAAAACTAACAGTAATAGATCTCAATC
65 GGATCAAATTAAAACTAACAGTAACAAATCTCAATC
* * *
25946476 TCCCTGAAGTTGCAGTGGAATAGAGTGAAGCCACAACACCAAATCATATATCCTTGAAGTTGTAG
1 TCCCTGAAGTTGTAGTGGAAT-GAGTGAAGCCACAACACCAAATCCTATATCCCTGAAGTTGTA-
** ** *
25946541 AGGATCGGATTAAGGCT-ACAGTAGCAAATCTCAATC
64 AGGATCAAATTAAAACTAACAGTAACAAATCTCAATC
* * * *
25946577 TCCCTAAAGTTGTTA-TGGAATGAAGTGAAGCCATAATACCAAATCCTATATCCCTGAAGTTGCA
1 TCCCTGAAGTTG-TAGTGGAATG-AGTGAAGCCACAACACCAAATCCTATATCCCTGAAGTTGTA
* * * ** * **
25946641 ATGGATCAGACTAAAA-TGATGGTAGCAAATCTTTATC
64 A-GGATCAAATTAAAACTAACAGTAACAAATCTCAATC
** * * *
25946678 TCTTTGAAGTTGTAATAGAGCAA-G-GTGAAGCTACAACACCAAATCCTATATCCTTGAAGTTG-
1 TCCCTGAAGTTGTAGT-G-G-AATGAGTGAAGCCACAACACCAAATCCTATATCCCTGAAGTTGT
* ** * *
25946740 CAGGATATCGGATTAAAACT-ACAATAGCAAATCTCATAT-
63 AAGG--ATCAAATTAAAACTAACAGTAACAAATCTCA-ATC
* ** * ** * * *
25946779 ACCC-GAAGTTACAGTGGAATGGAGTGAAGCTACAATGCTAAGTCCTATATTCCTGAAGTTG
1 TCCCTGAAGTTGTAGTGGAAT-GAGTGAAGCCACAACACCAAATCCTATATCCCTGAAGTTG
25946840 CAGCACGTTA
Statistics
Matches: 291, Mismatches: 57, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
97 2 0.01
98 1 0.00
99 4 0.01
100 46 0.16
101 216 0.74
102 18 0.06
103 2 0.01
104 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (100 bp):
TCCCTGAAGTTGTAGTGGAATGAGTGAAGCCACAACACCAAATCCTATATCCCTGAAGTTGTAAG
GATCAAATTAAAACTAACAGTAACAAATCTCAATC
Found at i:25946645 original size:50 final size:50
Alignment explanation
Indices: 25946476--25946645 Score: 116
Period size: 50 Copynumber: 3.4 Consensus size: 50
25946466 GATCTCAATC
* * * *
25946476 TCCCTGAAGTTGCAGTGGAAT-AGAGTGAAGCCACAACACCAAATCATATA
1 TCCCTGAAGTTGCAATGGAATGA-AGTGAAGCCATAATACCAAATCCTATA
* * * * * * * *
25946526 TCCTTGAAGTTGTAGA-GG-ATCGGA-TTAAGGC-TACAGTAGCAAATCTCAATC
1 TCCCTGAAGTTGCA-ATGGAAT-GAAGTGAAGCCATA-A-TACCAAATC-CTATA
* **
25946577 TCCCTAAAGTTGTTATGGAATGAAGTGAAGCCATAATACCAAATCCTATA
1 TCCCTGAAGTTGCAATGGAATGAAGTGAAGCCATAATACCAAATCCTATA
25946627 TCCCTGAAGTTGCAATGGA
1 TCCCTGAAGTTGCAATGGA
25946646 TCAGACTAAA
Statistics
Matches: 86, Mismatches: 24, Indels: 20
0.66 0.18 0.15
Matches are distributed among these distances:
48 1 0.01
49 8 0.09
50 42 0.49
51 25 0.29
52 8 0.09
53 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (50 bp):
TCCCTGAAGTTGCAATGGAATGAAGTGAAGCCATAATACCAAATCCTATA
Found at i:25948437 original size:25 final size:25
Alignment explanation
Indices: 25948385--25948438 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
25948375 GTCCCTACAT
*
25948385 TTTATATTTTATTTAAATTTGATCC
1 TTTATATTTTATTTAAATTTGATAC
* *
25948410 TTTATATTCTTTTTTTAATTT-ATAC
1 TTTATATT-TTATTTAAATTTGATAC
25948435 TTTA
1 TTTA
25948439 AGTTTTGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTATATTTTATTTAAATTTGATAC
Found at i:25948501 original size:4 final size:4
Alignment explanation
Indices: 25948492--25948531 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
25948482 CTTTCCTCAT
*
25948492 TTTA TTTA TTTA TTTG TTTA TTCTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTT
25948532 TAACATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:25948676 original size:29 final size:28
Alignment explanation
Indices: 25948644--25948698 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
25948634 TATTTCATGC
25948644 CATTTATATTCTCACCCTTTAAATTATAT
1 CATTTATATTCTCACCCTTT-AATTATAT
* * *
25948673 CATTTTTATTTTCATCCTTTAATTAT
1 CATTTATATTCTCACCCTTTAATTAT
25948699 TATTTTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (28 bp):
CATTTATATTCTCACCCTTTAATTATAT
Found at i:25954730 original size:29 final size:30
Alignment explanation
Indices: 25954687--25954848 Score: 128
Period size: 30 Copynumber: 5.5 Consensus size: 30
25954677 ACCCAGGGGC
*
25954687 AAAATGGTAATTTTTGGTGAAA-TAGGGGTT
1 AAAATGGTAA-TTTTGGTGAAAGTCGGGGTT
*
25954717 AAAAATGG-AATTTT-G-GAAAGTTCGGGCTT
1 -AAAATGGTAATTTTGGTGAAAG-TCGGGGTT
* *
25954746 AAAATGGTAATTTGTGGT-AAAATCGGGGTG
1 AAAATGGTAATTT-TGGTGAAAGTCGGGGTT
*
25954776 AAAATGG-AATTTT-G-GAAAGTTCGGGGGT
1 AAAATGGTAATTTTGGTGAAAG-TCGGGGTT
* * *
25954804 AAAATGGTAATTTTTGGTAAAACT-GGAGTT
1 AAAATGGTAA-TTTTGGTGAAAGTCGGGGTT
25954834 AAAATGG-AATTTTGG
1 AAAATGGTAATTTTGG
25954849 AAAGTTTAGG
Statistics
Matches: 107, Mismatches: 12, Indels: 27
0.73 0.08 0.18
Matches are distributed among these distances:
27 8 0.07
28 28 0.26
29 24 0.22
30 31 0.29
31 13 0.12
32 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTGGTGAAAGTCGGGGTT
Found at i:25954759 original size:28 final size:28
Alignment explanation
Indices: 25954711--25954854 Score: 148
Period size: 30 Copynumber: 5.0 Consensus size: 28
25954701 TGGTGAAATA
25954711 GGGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGTT-AAAATGGAATTTTGGAAAGTTC
* *
25954740 GGGCTTAAAATGGTAATTTGTGGTAAA-ATC
1 GGGGTTAAAATGG-AATTT-TGG-AAAGTTC
*
25954770 GGGGTGAAAATGGAATTTTGGAAAGTTC
1 GGGGTTAAAATGGAATTTTGGAAAGTTC
* **
25954798 GGGGGTAAAATGGTAATTTTTGGTAAAACT-
1 GGGGTTAAAATGG-AA-TTTTGG-AAAGTTC
*
25954828 GGAGTTAAAATGGAATTTTGGAAAGTT
1 GGGGTTAAAATGGAATTTTGGAAAGTT
25954855 TAGGGGCAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
27 7 0.07
28 29 0.31
29 19 0.20
30 33 0.35
31 7 0.07
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (28 bp):
GGGGTTAAAATGGAATTTTGGAAAGTTC
Found at i:25954786 original size:58 final size:58
Alignment explanation
Indices: 25954687--25954876 Score: 249
Period size: 58 Copynumber: 3.3 Consensus size: 58
25954677 ACCCAGGGGC
* * *
25954687 AAAATGGTAATTTTTGGTGAAATAGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGCTT
1 AAAATGGTAATTTTTGGTAAAATCGGGG-TAAAAATGGAATTTTGGAAAGTTCGGGCGT
* * *
25954746 AAAATGGTAATTTGTGGTAAAATCGGGGTGAAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTAAAAATGGAATTTTGGAAAGTTCGGGCGT
* * * *
25954804 AAAATGGTAATTTTTGGTAAAA-CTGGAGTTAAAATGGAATTTTGGAAAGTTTAGGG-GC
1 AAAATGGTAATTTTTGGTAAAATC-GGGGTAAAAATGGAATTTTGGAAAG-TTCGGGCGT
25954862 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
25954877 AGATAGTCCA
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
57 1 0.01
58 87 0.74
59 30 0.25
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTAAAATCGGGGTAAAAATGGAATTTTGGAAAGTTCGGGCGT
Found at i:25955595 original size:11 final size:12
Alignment explanation
Indices: 25955572--25955600 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
25955562 AAGGCTTCCC
25955572 TTCTTTTTCTCT
1 TTCTTTTTCTCT
25955584 TTCTTTTT-TCT
1 TTCTTTTTCTCT
25955595 TTCTTT
1 TTCTTT
25955601 CTTTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTTTTTCTCT
Found at i:25955953 original size:9 final size:9
Alignment explanation
Indices: 25955934--25956009 Score: 64
Period size: 9 Copynumber: 8.0 Consensus size: 9
25955924 TATTACTAAA
25955934 AATATTTATT
1 AATA-TTATT
*
25955944 ATTATTATT
1 AATATTATT
25955953 AATATTATT
1 AATATTATT
25955962 AATATTAATT
1 AATATT-ATT
*
25955972 AATGTTATT
1 AATATTATT
*
25955981 AAAGCATTATT
1 -AA-TATTATT
*
25955992 GCAT-TTATT
1 -AATATTATT
25956001 AATATTATT
1 AATATTATT
25956010 TTATAATTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
8 2 0.04
9 32 0.60
10 13 0.25
11 6 0.11
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (9 bp):
AATATTATT
Found at i:25955956 original size:19 final size:19
Alignment explanation
Indices: 25955916--25955974 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
25955906 ATATATATAT
* **
25955916 ATATTTATTATTACTAAAA
1 ATATTTATTATTATTATTA
25955935 ATATTTATTATTATTATTA
1 ATATTTATTATTATTATTA
*
25955954 ATA-TTATTAATATTAATTA
1 ATATTTATTATTATT-ATTA
25955973 AT
1 AT
25955975 GTTATTAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.29
19 25 0.71
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATTATTATTATTA
Found at i:25956054 original size:3 final size:3
Alignment explanation
Indices: 25956048--25956086 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
25956038 TATAGTCAGA
* *
25956048 AAT AAT AAT AAT AAT AAT AAAT AAT AAT GAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
25956087 GTATAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:25956071 original size:19 final size:19
Alignment explanation
Indices: 25956047--25956086 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25956037 TTATAGTCAG
*
25956047 AAATAATAATAATAATAAT
1 AAATAATAATAATAACAAT
*
25956066 AAATAATAATGATAACAAT
1 AAATAATAATAATAACAAT
25956085 AA
1 AA
25956087 GTATAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AAATAATAATAATAACAAT
Found at i:25956829 original size:17 final size:17
Alignment explanation
Indices: 25956809--25956877 Score: 90
Period size: 17 Copynumber: 4.2 Consensus size: 17
25956799 TGTTTAAACC
*
25956809 TAAATTTAAAGTAAATT
1 TAAATTTAAAATAAATT
*
25956826 TAAA--T-AAGTAAATT
1 TAAATTTAAAATAAATT
*
25956840 TAAATTTAAAATAAACT
1 TAAATTTAAAATAAATT
25956857 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
25956874 TAAA
1 TAAA
25956878 ACCCATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.28
15 1 0.02
16 1 0.02
17 31 0.67
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:25956836 original size:14 final size:14
Alignment explanation
Indices: 25956817--25956844 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25956807 CCTAAATTTA
25956817 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
25956831 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
25956845 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:25956868 original size:7 final size:6
Alignment explanation
Indices: 25956809--25956877 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
25956799 TGTTTAAACC
* * * *
25956809 TAAATT TAAA-G TAAATT TAAATAAG TAAATT TAAATT TAAA-A TAAACT
1 TAAATT TAAATT TAAATT TAAAT--T TAAATT TAAATT TAAATT TAAATT
*
25956857 TAAATT TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAA
25956878 ACCCATTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
5 12 0.24
6 32 0.65
8 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:25956878 original size:11 final size:11
Alignment explanation
Indices: 25956809--25956878 Score: 52
Period size: 11 Copynumber: 6.0 Consensus size: 11
25956799 TGTTTAAACC
*
25956809 TAAATTTAAAG
1 TAAATTTAAAA
25956820 TAAATTTAAATAA
1 TAAATTT-AA-AA
*
25956833 GTAAATTTAAATT
1 -TAAATTTAAA-A
* *
25956846 TAAA-ATAAACT
1 TAAATTTAAA-A
25956857 TAAATTTAAAA
1 TAAATTTAAAA
25956868 TAAATTTAAAA
1 TAAATTTAAAA
25956879 CCCATTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
11 27 0.56
12 11 0.23
13 3 0.06
14 7 0.15
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:25957285 original size:30 final size:31
Alignment explanation
Indices: 25957242--25957311 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
25957232 TAAGAAAGGT
*
25957242 AAAATTATAATTTAGCTCC-TTAAAAATAATA
1 AAAATTATAATTTA-ATCCTTTAAAAATAATA
* * *
25957273 AAAATT-TGATTTAATCCTTTAAAAGTTATA
1 AAAATTATAATTTAATCCTTTAAAAATAATA
25957303 AAAA-TATAA
1 AAAATTATAA
25957312 GCTATTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 4 0.12
30 22 0.69
31 6 0.19
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.37
Consensus pattern (31 bp):
AAAATTATAATTTAATCCTTTAAAAATAATA
Found at i:25961251 original size:21 final size:20
Alignment explanation
Indices: 25961196--25961252 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
25961186 ATTCGTATTT
*
25961196 TTATAT-TTTCAAATATATA
1 TTATATATTTCAATTATATA
*
25961215 TTATATTGAATCTCAATTATATA
1 TTATA-T--ATTTCAATTATATA
25961238 TATATATATTTCAAT
1 T-TATATATTTCAAT
25961253 CATACCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 5 0.17
20 1 0.03
21 7 0.23
23 13 0.43
24 4 0.13
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATATATTTCAATTATATA
Found at i:25963569 original size:14 final size:15
Alignment explanation
Indices: 25963550--25963589 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
25963540 AAGAATGAAC
25963550 AAATATACGAA-AAT
1 AAATATACGAATAAT
25963564 AAATATGA-GAATAAT
1 AAATAT-ACGAATAAT
25963579 AAA-ATACGAAT
1 AAATATACGAAT
25963590 TATGAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 15 0.65
15 7 0.30
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (15 bp):
AAATATACGAATAAT
Found at i:25963620 original size:19 final size:18
Alignment explanation
Indices: 25963598--25963639 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
25963588 ATTATGAATC
25963598 AAAATAAATGAGAAAATAA
1 AAAATAAATGA-AAAATAA
* *
25963617 AAAATTAATTAAAAATAA
1 AAAATAAATGAAAAATAA
25963635 AAAAT
1 AAAAT
25963640 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATAAATGAAAAATAA
Found at i:25963733 original size:28 final size:28
Alignment explanation
Indices: 25963702--25964038 Score: 204
Period size: 30 Copynumber: 11.6 Consensus size: 28
25963692 AGTTTCGAAG
*
25963702 AGTTTGGGGTTAAAATGTAATTTTGGAA
1 AGTTTGGGGTAAAAATGTAATTTTGGAA
* *
25963730 AGTTTTAGGGTAAAAATGTCATTTTGGGAA
1 AG-TTTGGGGTAAAAATGTAATTTT-GGAA
* *
25963760 A-TTTGGGGGCAAAACATG-ATTTTTGG-A
1 AGTTT-GGGGTAAAA-ATGTAATTTTGGAA
* *
25963787 AGTTTGGAGGCAAAAATGTATTTTTGG-A
1 AGTTTGG-GGTAAAAATGTAATTTTGGAA
**
25963815 AGTACGAGGGTAAAAATGTAATTTTTGG-A
1 AGTTTG-GGGTAAAAATGTAA-TTTTGGAA
* *
25963844 AGTTTGAGGGCAAAAATGTAATTTTTGATA
1 AGTTTG-GGGTAAAAATGTAATTTTGGA-A
* *
25963874 AGTTTGGGGGT-CAAATGTATTTTTTGG-A
1 AGTTT-GGGGTAAAAATGTA-ATTTTGGAA
* *
25963902 AGTTCAGGGGTAAAAATGTAATTTTTGAGA
1 AGTT-TGGGGTAAAAATGTAATTTTGGA-A
* * *
25963932 AGTTTAGGGTAAAAATATAATTTTTTGAGA
1 AGTTTGGGGTAAAAATGTAA-TTTTGGA-A
* * * *
25963962 ATTTTAAGGGTCAAAATGTGATTTTGGAAA
1 AGTTT-GGGGTAAAAATGTAATTTTGG-AA
* *
25963992 AGTTTAAGGGTCAAAATAG-AATTTTGGAAA
1 AGTTT-GGGGTAAAAAT-GTAATTTTGG-AA
*
25964022 AGTTTAGGGGTTAAAAT
1 AGTTT-GGGGTAAAAAT
25964039 ATGATTTTTA
Statistics
Matches: 253, Mismatches: 35, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
27 7 0.03
28 61 0.24
29 83 0.33
30 87 0.34
31 15 0.06
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (28 bp):
AGTTTGGGGTAAAAATGTAATTTTGGAA
Found at i:25963879 original size:30 final size:30
Alignment explanation
Indices: 25963713--25964007 Score: 215
Period size: 29 Copynumber: 10.1 Consensus size: 30
25963703 GTTTGGGGTT
* * *
25963713 AAAATGTAATTTTGGA-AAGTTTTAGGGTA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGCA
* * * *
25963742 AAAATGTCA-TTTTGGGAAATTTGGGGGCA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGCA
25963771 AAACATG--ATTTTTG-GAAGTTTG-GAGGCA
1 AAA-ATGTAATTTTTGAGAAGTTTGAG-GGCA
** *
25963799 AAAATGT-ATTTTTG-GAAGTACGAGGGTA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGCA
25963827 AAAATGTAATTTTTG-GAAGTTTGAGGGCA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGCA
* *
25963856 AAAATGTAATTTTTGATAAGTTTGGGGGTC-
1 AAAATGTAATTTTTGAGAAGTTTGAGGG-CA
* * *
25963886 -AAATGTATTTTTTG-GAAG-TTCAGGGGTA
1 AAAATGTAATTTTTGAGAAGTTTGA-GGGCA
*
25963914 AAAATGTAATTTTTGAGAAGTTT-AGGGTA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGCA
* * *
25963943 AAAATATAATTTTTTGAGAATTTTAAGGGTC-
1 AAAATGTAA-TTTTTGAGAAGTTTGAGGG-CA
* * * *
25963974 AAAATGTGATTTTGGAAAAGTTTAAGGGTCA
1 AAAATGTAATTTTTGAGAAGTTTGAGGG-CA
25964005 AAA
1 AAA
25964008 TAGAATTTTG
Statistics
Matches: 218, Mismatches: 30, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
27 6 0.03
28 48 0.22
29 98 0.45
30 49 0.22
31 17 0.08
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAGTTTGAGGGCA
Found at i:25964038 original size:60 final size:60
Alignment explanation
Indices: 25963722--25964046 Score: 168
Period size: 58 Copynumber: 5.6 Consensus size: 60
25963712 TAAAATGTAA
* * * *
25963722 TTTTGG-AAAGTTTTA-GGGTAAAAATGTCATTTTGGGAAA-TTTGGGGGCAAAACAT-G-AT
1 TTTTGGAAAAG-TTTAGGGGTAAAAATGTGATTTTGGAAAAGTTT-AGGGTAAAA-ATAGAAT
* **
25963780 TTTTGG--AAGTTT-GGAGGCAAAAATGT-ATTTTTGG--AAGTACGAGGGTAAAAAT-GTAAT
1 TTTTGGAAAAGTTTAGG-GGTAAAAATGTGA-TTTTGGAAAAGT-TTAGGGTAAAAATAG-AAT
* * * * * * *
25963837 TTTTGG--AAGTTT-GAGGGCAAAAATGTAATTTTTGATAAGTTTGGGGGT-CAAAT-GTATT
1 TTTTGGAAAAGTTTAG-GGGTAAAAATGTGATTTTGGAAAAGTTT-AGGGTAAAAATAG-AAT
* * * * *
25963895 TTTTGG--AAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTAGGGTAAAAATATAAT
1 TTTTGGAAAAGTTTAGGGGTAAAAATGTGATTTTGGAAAAGTTTAGGGTAAAAATAGAAT
* * * * * *
25963953 TTTTTGAGAATTTTAAGGGTCAAAATGTGATTTTGGAAAAGTTTAAGGGTCAAAATAGAA-
1 TTTTGGAAAAGTTTAGGGGTAAAAATGTGATTTTGGAAAAGTTT-AGGGTAAAAATAGAAT
* *
25964013 TTTTGGAAAAGTTTAGGGGTTAAAATATGATTTT
1 TTTTGGAAAAGTTTAGGGGTAAAAATGTGATTTT
25964047 TAAACAGTTC
Statistics
Matches: 215, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
55 5 0.02
56 13 0.06
57 54 0.25
58 64 0.30
59 9 0.04
60 57 0.27
61 13 0.06
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (60 bp):
TTTTGGAAAAGTTTAGGGGTAAAAATGTGATTTTGGAAAAGTTTAGGGTAAAAATAGAAT
Found at i:25965510 original size:34 final size:34
Alignment explanation
Indices: 25965472--25965551 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
25965462 TTTTATGTAT
25965472 TGATTTTGAATGATAAAAAAGTAACCCTCACAAC
1 TGATTTTGAATGATAAAAAAGTAACCCTCACAAC
*
25965506 TGATTTTGAATAATAAAAAAGTAACCCTCACAAC
1 TGATTTTGAATGATAAAAAAGTAACCCTCACAAC
25965540 TGATTTTGAATG
1 TGATTTTGAATG
25965552 CTTTTTTCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (34 bp):
TGATTTTGAATGATAAAAAAGTAACCCTCACAAC
Found at i:25966029 original size:17 final size:17
Alignment explanation
Indices: 25965991--25966040 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
25965981 AACAAATTTC
*
25965991 AAATTTAAAATTTGAAAT
1 AAATTTAAAA-TTAAAAT
*
25966009 -AATTTAAACTTAAAAT
1 AAATTTAAAATTAAAAT
*
25966025 AAATTAAAAATTAAAA
1 AAATTTAAAATTAAAA
25966041 ATTGGGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
AAATTTAAAATTAAAAT
Found at i:25966608 original size:39 final size:37
Alignment explanation
Indices: 25966504--25966610 Score: 97
Period size: 39 Copynumber: 2.8 Consensus size: 37
25966494 CCGGGCTCGG
*
25966504 GGTAAGAGATCGAATGGTTGCAATCTGTCCCAAGCTCGA
1 GGTAAGAGATCGAATGGTTGCAATCTG--CCAAGCTCAA
* * ** * * **
25966543 GGTAAAAGATTGGCTGATGGTGATCTGCCATAGGCTCAA
1 GGTAAGAGATCGAATGGTTGCAATCTGCCA-A-GCTCAA
25966582 GGTAAGAGATCGAATGGTTGCAATCTGCC
1 GGTAAGAGATCGAATGGTTGCAATCTGCC
25966611 CCAAGAGATT
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
37 3 0.06
38 1 0.02
39 45 0.92
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (37 bp):
GGTAAGAGATCGAATGGTTGCAATCTGCCAAGCTCAA
Found at i:25966733 original size:39 final size:38
Alignment explanation
Indices: 25966647--25967299 Score: 400
Period size: 39 Copynumber: 16.8 Consensus size: 38
25966637 CCCTAGGCTT
* * *
25966647 TGCAATCTACCCTAGGCTCGGGGTAAGAGATTTGCTGATGA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGA--T-CGGATGA
* * *
25966688 TG--ATCTGCCCCAGGCTCAGGGTAAAAGATCGAATGA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
* * *
25966724 CTGCAATCTGCCCCAGGCTCGGGGTAAAAGATCAGATGGC
1 -TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGAT-GA
* * *
25966764 TGCAATCT-ACCCAGGCTCGGGGTAAGAGATTGGCTGA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
** * *
25966801 TGGTGATCTACCTCAGGCTCGGGGTAAGAGATCGGATGGA
1 T-GCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGAT-GA
* * * * *
25966841 TGCAATTTGCCTCAGGCTCAGGGTAAGAGATTGGCTGA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
** * * * *
25966879 TGGTGATCTGCCTCAGGTTCGGGGTAAAAGATCGGATGGT
1 T-GCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGAT-GA
* * * *
25966919 TACAATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
** * * *
25966957 TGGTGATCTGCCCCAAGCTCGGTGTAAAAGATC-GACTGA
1 T-GCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGA-TGA
* * *
25966996 CTGCAATTTG-CCCAGGCTCGGGGTAAGAGATTGGCTGA
1 -TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
** * * * *
25967034 TGGTGATCT-CCCCAGGCTCGAGGTAAAAGATCGAATGGC
1 T-GCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGAT-GA
* * * *
25967073 TGCAATCTGCCTCAGGCTCAGGGTAAGAGATTGGCTGA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
** * * * * *
25967111 TAGTGATCTGCCCCAAGTTGGGGGTAAGAGATCGAATGGC
1 T-GCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGAT-GA
* * * * *
25967151 TACAATCTGTCCCAGGCTCGGGGTAAGAGATTGGCTTA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
** * * ** * * *
25967189 TGGTGATTTGCCCCAAGCTTAGGGTAAAAGATCAGATGGC
1 T-GCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGAT-GA
* * * *
25967229 TGCAAGCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAA
1 TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
** *
25967267 TGGTGATCTGCCCCAAGCTCGGGGTAAGAGATC
1 T-GCAATCTGCCCCAGGCTCGGGGTAAGAGATC
25967300 AAAATCTTCA
Statistics
Matches: 451, Mismatches: 139, Indels: 46
0.71 0.22 0.07
Matches are distributed among these distances:
36 5 0.01
37 6 0.01
38 88 0.20
39 340 0.75
40 10 0.02
41 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (38 bp):
TGCAATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA
Found at i:25966904 original size:78 final size:77
Alignment explanation
Indices: 25966729--25967299 Score: 750
Period size: 78 Copynumber: 7.4 Consensus size: 77
25966719 AATGACTGCA
* *
25966729 ATCTGCCCCAGGCTCGGGGTAAAAGATCAGATGGCTGCAATCTACCCAGGCTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCAGGCTCGGGGTAAGAGAT
25966794 TGGCTGATGGTG
66 TGGCTGATGGTG
* * * * * *
25966806 ATCTACCTCAGGCTCGGGGTAAGAGATCGGATGGATGCAATTTGCCTCAGGCTCAGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCC-CAGGCTCGGGGTAAGAGA
25966871 TTGGCTGATGGTG
65 TTGGCTGATGGTG
* * * *
25966884 ATCTGCCTCAGGTTCGGGGTAAAAGATCGGATGGTTACAATCTGCCCTAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCC-AGGCTCGGGGTAAGAGA
25966949 TTGGCTGATGGTG
65 TTGGCTGATGGTG
* * * *
25966962 ATCTGCCCCAAGCTCGGTGTAAAAGATC-GACTGACTGCAATTTGCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGA-TGGCTGCAATCTGCCCAGGCTCGGGGTAAGAGA
25967026 TTGGCTGATGGTG
65 TTGGCTGATGGTG
* * *
25967039 ATCT-CCCCAGGCTCGAGGTAAAAGATCGAATGGCTGCAATCTGCCTCAGGCTCAGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCC-CAGGCTCGGGGTAAGAGA
*
25967103 TTGGCTGATAGTG
65 TTGGCTGATGGTG
* * * * * *
25967116 ATCTGCCCCAAGTTGGGGGTAAGAGATCGAATGGCTACAATCTGTCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTG-CCCAGGCTCGGGGTAAGAGA
*
25967181 TTGGCTTATGGTG
65 TTGGCTGATGGTG
* * ** * *
25967194 ATTTGCCCCAAGCTTAGGGTAAAAGATCAGATGGCTGCAAGCTGCCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTG-CCCAGGCTCGGGGTAAGAGA
*
25967259 TTGGCTAATGGTG
65 TTGGCTGATGGTG
* *
25967272 ATCTGCCCCAAGCTCGGGGTAAGAGATC
1 ATCTGCCCCAGGCTCGGGGTAAAAGATC
25967300 AAAATCTTCA
Statistics
Matches: 432, Mismatches: 55, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
76 33 0.08
77 110 0.25
78 287 0.66
79 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.23
Consensus pattern (77 bp):
ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCAGGCTCGGGGTAAGAGAT
TGGCTGATGGTG
Found at i:25967140 original size:310 final size:310
Alignment explanation
Indices: 25966729--25967299 Score: 835
Period size: 310 Copynumber: 1.8 Consensus size: 310
25966719 AATGACTGCA
* *
25966729 ATCTGCCCCAGGCTCGGGGTAAAAGATCAGATGGCTGCAATCTACCCAGGCTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCAGATGGCTGCAATCTACCCAGGCTCAGGGTAAGAGAT
* * * * * *
25966794 TGGCTGATGGTGATCTACCTCAGGCTCGGGGTAAGAGATCGGATGGATGCAATTTG-CCTCAGGC
66 TGGCTGATAGTGATCTACCCCAAGCTCGGGGTAAGAGATCGAATGGATACAATCTGTCC-CAGGC
* * * * *
25966858 TCAGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AGGTTCGGGGTAAAAGATCGGATGGTTAC
130 TCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTT-AGGGTAAAAGATCAGATGGCTAC
* * * *
25966922 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGTGTAAAAG
194 AAGCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
25966987 ATCGACTGACTGCAATTTGCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
259 ATCGACTGACTGCAATTTGCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
*
25967039 ATCT-CCCCAGGCTCGAGGTAAAAGATC-GAATGGCTGCAATCTGCCTCAGGCTCAGGGTAAGAG
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCAG-ATGGCTGCAATCTACC-CAGGCTCAGGGTAAGAG
* * * *
25967102 ATTGGCTGATAGTGATCTGCCCCAAGTTGGGGGTAAGAGATCGAATGGCTACAATCTGTCCCAGG
64 ATTGGCTGATAGTGATCTACCCCAAGCTCGGGGTAAGAGATCGAATGGATACAATCTGTCCCAGG
* * * *
25967167 CTCGGGGTAAGAGATTGGCTTATGGTGATTTGCCCCAAGCTTAGGGTAAAAGATCAGATGGCTGC
129 CTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTTAGGGTAAAAGATCAGATGGCTAC
*
25967232 AAGCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
194 AAGCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
25967297 ATC
259 ATC
25967300 AAAATCTTCA
Statistics
Matches: 230, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
308 1 0.00
309 37 0.16
310 186 0.81
311 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.23
Consensus pattern (310 bp):
ATCTGCCCCAGGCTCGAGGTAAAAGATCAGATGGCTGCAATCTACCCAGGCTCAGGGTAAGAGAT
TGGCTGATAGTGATCTACCCCAAGCTCGGGGTAAGAGATCGAATGGATACAATCTGTCCCAGGCT
CAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTTAGGGTAAAAGATCAGATGGCTACAA
GCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGCTCGGGGTAAAAGAT
CGACTGACTGCAATTTGCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:25967618 original size:50 final size:50
Alignment explanation
Indices: 25967564--25968005 Score: 231
Period size: 50 Copynumber: 9.0 Consensus size: 50
25967554 TCTTGTTTTC
* *
25967564 TAAGGTATCGGGTTCGCCGTTGCAGCCTCAACCTTTCCCATCATATCTTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTT
* * ** ** * * *
25967614 TAAGGTACCAGGTTCGCTATTGTAGCCTCAACCTTTCCCTTAAAATCTTCG
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTT-T
* ** * * * *
25967665 T--GGTACCGAATTCGTCATTGCGGCCTCAACCTTTCTCATCACA--TTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTT
* * * * * * * * * *
25967711 CATGGTATCAGATTCGCCGTTACGGTCTTAATCTTTCCCATCACATCGTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTT
* * * * * *
25967761 TGAGGTATTGGGTTTGCCGTTGCGGCCTCAACATCTCCCTTCAAATC-TT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTT
* * ** * * *
25967810 CATGGTA-CTGGGTTCATCGTTGCGGTCTCAACCTTTCCTATC--ACCTTT
1 TAAGGTATC-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTT
* * *** * *
25967858 CATGGTATCAAATTCGTCG-TGCGGCCTCAATCTTTCCC-TCAAAATC-TT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATC-AAATCTTT
* ** ** * * *
25967906 CATAGGTATCGGGTTCATCGTTGTAGCCTTAACCTTTCCCGTCACATCTTT
1 TA-AGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTT
* * * *
25967957 TAAGGTACCGGGTTCGCCGTTGCGGTCTTAACCTTTCCCGTCAAATCTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTT
25968006 CATGTTTTTC
Statistics
Matches: 290, Mismatches: 87, Indels: 30
0.71 0.21 0.07
Matches are distributed among these distances:
46 2 0.01
47 20 0.07
48 51 0.18
49 77 0.27
50 134 0.46
51 6 0.02
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (50 bp):
TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTT
Found at i:25975076 original size:15 final size:15
Alignment explanation
Indices: 25975048--25975089 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
25975038 TCAAACGTTT
25975048 TAATAATAAATAGTAC
1 TAATAAT-AATAGTAC
**
25975064 TAATAATAATAGTGT
1 TAATAATAATAGTAC
25975079 TAATAATAATA
1 TAATAATAATA
25975090 AATATGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (15 bp):
TAATAATAATAGTAC
Found at i:25976334 original size:29 final size:29
Alignment explanation
Indices: 25976302--25976489 Score: 163
Period size: 29 Copynumber: 6.4 Consensus size: 29
25976292 TAAACTTTTT
*
25976302 AAAATTCCATTTTAACCACAAATTTTCCA
1 AAAATTCCATTTTAACCCCAAATTTTCCA
* **
25976331 AAAATTACATTTTAACCCCAAAACTTCCA
1 AAAATTCCATTTTAACCCCAAATTTTCCA
* * *
25976360 AGAATTACCATTTT-ACCCTCGAACTTTCC-
1 AAAATT-CCATTTTAACCC-CAAATTTTCCA
* * *
25976389 AAAATTCCATTTTTAACCTC-GATTTCACCA
1 AAAATTCCA-TTTTAACCCCAAATTT-TCCA
*
25976419 AAAATTACCATTTT-ACCCCTAAACTTTCC-
1 AAAATT-CCATTTTAACCCC-AAATTTTCCA
*
25976448 AAAATTCCATTTTAACCCCAAATTTTCCT
1 AAAATTCCATTTTAACCCCAAATTTTCCA
25976477 AAAATAT-CATTTT
1 AAAAT-TCCATTTT
25976490 TGCCACTAAG
Statistics
Matches: 128, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
28 21 0.16
29 72 0.56
30 29 0.23
31 6 0.05
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTCCATTTTAACCCCAAATTTTCCA
Found at i:25976393 original size:58 final size:56
Alignment explanation
Indices: 25976263--25976469 Score: 168
Period size: 59 Copynumber: 3.6 Consensus size: 56
25976253 AAAGGTCCCT
* * * * ** *
25976263 AAACTGTCCAAAAGTTATATTTTGACCCCTAAACTTTTTAAAATT-CCATTTTAACCAC
1 AAACTTTCCAAAA-TTACATTTTAACCCCAAAAC-TTCCAAAATTACCATTTT-ACCCC
*
25976321 AAATTTTCCAAAAATTACATTTTAACCCCAAAACTTCCAAGAATTACCATTTTACCCTC
1 AAACTTTCC-AAAATTACATTTTAACCCCAAAACTTCCAA-AATTACCATTTTACCC-C
* * * * *
25976380 GAACTTTCCAAAATTCCATTTTTAACCTC--GATTTCACCAAAAATTACCATTTTACCCC
1 AAACTTTCCAAAATTACA-TTTTAACCCCAAAACTT--CC-AAAATTACCATTTTACCCC
*
25976438 TAAACTTTCCAAAATTCCATTTTAACCCCAAA
1 -AAACTTTCCAAAATTACATTTTAACCCCAAA
25976470 TTTTCCTAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 20
0.77 0.11 0.13
Matches are distributed among these distances:
57 7 0.06
58 49 0.40
59 63 0.52
60 2 0.02
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.34
Consensus pattern (56 bp):
AAACTTTCCAAAATTACATTTTAACCCCAAAACTTCCAAAATTACCATTTTACCCC
Found at i:25976481 original size:88 final size:87
Alignment explanation
Indices: 25976259--25976490 Score: 228
Period size: 88 Copynumber: 2.6 Consensus size: 87
25976249 CCTTAAAGGT
* **
25976259 CCCTAAACTGTCCAAAAGTTATATTTTGACCCCTAAACTTTT--TAAAATTCCA-TTTTAACCAC
1 CCCTAAACTTTCCAAAA-TTCCATTTT-ACCCC-AAA-TTTTCCTAAAATTCCATTTTTAACCAC
*
25976321 AAATTTTCCAAAAATTACATTTTAAC
62 AAATTTACCAAAAATTACATTTTAAC
* * * *
25976347 CCCAAAAC-TTCCAAGAATTACCATTTTACCCTCGAACTTTCC-AAAATTCCATTTTTAACCTC-
1 CCCTAAACTTTCCAA-AATT-CCATTTTACCC-CAAATTTTCCTAAAATTCCATTTTTAACCACA
*
25976409 GATTTCACCAAAAATTACCATTTT-AC
63 AATTT-ACCAAAAATTA-CATTTTAAC
25976435 CCCTAAACTTTCCAAAATTCCATTTTAACCCCAAATTTTCCTAAAATAT-CATTTTT
1 CCCTAAACTTTCCAAAATTCCATTTT-ACCCCAAATTTTCCTAAAAT-TCCATTTTT
25976491 GCCACTAAGA
Statistics
Matches: 120, Mismatches: 12, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
86 3 0.03
87 41 0.34
88 63 0.52
89 13 0.11
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (87 bp):
CCCTAAACTTTCCAAAATTCCATTTTACCCCAAATTTTCCTAAAATTCCATTTTTAACCACAAAT
TTACCAAAAATTACATTTTAAC
Found at i:25982008 original size:22 final size:21
Alignment explanation
Indices: 25981980--25982044 Score: 80
Period size: 20 Copynumber: 3.1 Consensus size: 21
25981970 CGGATACAAT
*
25981980 AAAGAAAAAAATGAAGAAAGAA
1 AAAGAAAAAAAGGAA-AAAGAA
25982002 AAAGAAAAAAAGGAAAAAGAA
1 AAAGAAAAAAAGGAAAAAGAA
*
25982023 AATAG--AAAAACGAAAAAGAA
1 AA-AGAAAAAAAGGAAAAAGAA
25982043 AA
1 AA
25982045 GGAGAGGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.40
21 8 0.20
22 16 0.40
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAAAGGAAAAAGAA
Found at i:25982018 original size:7 final size:6
Alignment explanation
Indices: 25981986--25982044 Score: 55
Period size: 7 Copynumber: 8.7 Consensus size: 6
25981976 CAATAAAGAA
25981986 AAAAATG AAGAAAG AAAAAG AAAAAAAGG AAAAAG AAAATAG AAAAACG
1 AAAAA-G AA-AAAG AAAAAG --AAAAA-G AAAAAG AAAA-AG AAAAA-G
25982035 AAAAAG AAAA
1 AAAAAG AAAA
25982045 GGAGAGGTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
6 15 0.33
7 22 0.48
8 8 0.17
9 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:25982039 original size:15 final size:14
Alignment explanation
Indices: 25981996--25982039 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
25981986 AAAAATGAAG
25981996 AAAGAAAAAGAAAA
1 AAAGAAAAAGAAAA
25982010 AAAGGAAAAAG-AAA
1 AAA-GAAAAAGAAAA
*
25982024 ATAGAAAAACGAAAA
1 AAAGAAAAA-GAAAA
25982039 A
1 A
25982040 GAAAAGGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 6 0.23
14 9 0.35
15 11 0.42
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAGAAAA
Found at i:25983432 original size:98 final size:97
Alignment explanation
Indices: 25983255--25983688 Score: 447
Period size: 98 Copynumber: 4.4 Consensus size: 97
25983245 CAGGTTTGAC
* * * * *
25983255 AGGGAAATATCTAAGCCACGACGGTGGATCCAGTATCACAAAAACACGACGGGAAATATCTAAGA
1 AGGGAAAGATCTAAGCCACAACGGTGGATCCAGTACCACAAAAACAC-AAGGGAAAGATCTAAGA
* * * * *
25983320 CCATAACGGTGGATCTAGTACCGCGAAGATATA
65 CCACAACGGCGGATCCAGTACCACGAAGACATA
* *
25983353 AGGGAAAGATCTAAGCCACGACGGTGGATCCAGTACCATAAAAACACAACGGGAAAGATCTAAGA
1 AGGGAAAGATCTAAGCCACAACGGTGGATCCAGTACCACAAAAACACAA-GGGAAAGATCTAAGA
* * * * *
25983418 CCGCAATGGCGGATCTAGTACCGCGAAGATATA
65 CCACAACGGCGGATCCAGTACCACGAAGACATA
* * * * * *
25983451 AGAGAAAGATCTAAGACCGCAACGGTAGATCTAGTACCACAAAGATACAGAAGGGAAAAATCTAA
1 AGGGAAAGATCTAAG-CCACAACGGTGGATCCAGTACCACAAA-A-ACACAAGGGAAAGATCTAA
* * * *
25983516 GACCGCAACGGCAGATCCAGTACCACAAAGTTACAGA
63 GACCACAACGGCGGATCCAGTACCACGAAG--ACATA
** *
25983553 AGGGAAAGATCTAAGACCACAACGGTGGATCCAGTACCATGAAGACACAAGGGAAAGATCTAAG-
1 AGGGAAAGATCTAAG-CCACAACGGTGGATCCAGTACCACAAAAACACAAGGGAAAGATCTAAGA
** * *
25983617 CCATGACGACGGATCCAGTACCACGAAGACACA
65 CCACAACGGCGGATCCAGTACCACGAAGACATA
* * * *
25983650 AGGGAAAGATCTAAGTCGCAACGGTAGATCTAGTACCAC
1 AGGGAAAGATCTAAGCCACAACGGTGGATCCAGTACCAC
25983689 GAAGATTTGA
Statistics
Matches: 285, Mismatches: 45, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
96 19 0.07
97 20 0.07
98 101 0.35
99 44 0.15
100 56 0.20
101 5 0.02
102 40 0.14
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (97 bp):
AGGGAAAGATCTAAGCCACAACGGTGGATCCAGTACCACAAAAACACAAGGGAAAGATCTAAGAC
CACAACGGCGGATCCAGTACCACGAAGACATA
Found at i:25983959 original size:100 final size:101
Alignment explanation
Indices: 25983812--25984065 Score: 447
Period size: 100 Copynumber: 2.5 Consensus size: 101
25983802 AAATCAAAAC
*
25983812 AACAATAGCAAGTCTTTATCTCTTTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAAT
1 AACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAAT
*
25983877 TCCTATCCTCTTGAAGTTGCAGTAAAGTTAGATT-A
66 TCCTATCCTCTTGAACTTGCAGTAAAGTTAGATTAA
*
25983912 AACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAACTTCAAACATCAAT
1 AACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAAT
*
25983977 TCCTATCCTCTTGAACTTGCAGTAAAGTTGGATTAAA
66 TCCTATCCTCTTGAACTTGCAGTAAAGTTAGATT-AA
*
25984014 AACAATAGCAAGTTTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
1 AACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
25984066 CTCGACATCA
Statistics
Matches: 146, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
100 95 0.65
102 51 0.35
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (101 bp):
AACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAAT
TCCTATCCTCTTGAACTTGCAGTAAAGTTAGATTAA
Found at i:25984336 original size:78 final size:78
Alignment explanation
Indices: 25984155--25984645 Score: 513
Period size: 78 Copynumber: 6.3 Consensus size: 78
25984145 AGTGAAGTTA
* * ** *
25984155 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGGTTACAGCCATTTGATCTTTTACCCCGA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
* *
25984220 GTCTG-GGGAGAT
66 GCCTGAGGCAGAT
* * *
25984232 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGTGACCATTTAATCTTTTATCCCG-
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
25984296 GACCTGAGGCAGAT
66 G-CCTGAGGCAGAT
* * *
25984310 CATCATCAACCAATCTCTTACCCCGAGCCTTGGGTAGATTGTAACCATTTGATCTTTTACCCCAA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
** *
25984375 GGTTGGGGCAGAT
66 GCCTGAGGCAGAT
* * * ** ** * * *
25984388 CATCGTCAACCAATATCTTACCCCGAGCCAGGGGCAGATTACAGTCATTCGATCTCTTACCCCAA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
25984453 GCCT-AGGGCAGAT
66 GCCTGA-GGCAGAT
* * *
25984466 CATCATCAGCCAATCTCTTACCTTC-AGCTTGGGGCAGATTGTAACCATTTGATCTTTTACCCCG
1 CATCATCAACCAATCTCTTACC-CCGAGCCTGGGGCAGATTGTAACCATTTGATCTTTTACCCCG
*
25984530 AGCCTGGGGCAGAT
65 AGCCTGAGGCAGAT
* * * * ** * * * *
25984544 CATCGTTAACCAATCTCTTACCCCGAGCCAGGGGTAGATTACAGCCATTCGATCTCTTACCCCAA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
* * * *
25984609 GCCCGGGGAAGCT
66 GCCTGAGGCAGAT
*
25984622 CACCATCAACCAATCTCCTTACCC
1 CATCATCAACCAATCT-CTTACCC
25984646 TGATCACGGA
Statistics
Matches: 340, Mismatches: 66, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
76 1 0.00
77 60 0.18
78 270 0.79
79 9 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (78 bp):
CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
GCCTGAGGCAGAT
Found at i:25984463 original size:156 final size:155
Alignment explanation
Indices: 25984155--25984645 Score: 616
Period size: 156 Copynumber: 3.1 Consensus size: 155
25984145 AGTGAAGTTA
* ** *
25984155 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGGTTACAGCCATTTGATCTTTTACCCCGA
1 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
* * ** *
25984220 -GTCTGGGG-AGATCATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATT-GTGACCATTT
66 GGT-TGGGGCAGATCATCGTCAACCAATCTCTTACCCCGAGCCAGGGGCAGATTACAG-CCATTC
* * * *
25984282 AATCTTTTATCCC-GGACCTGAGGCAGAT
129 GATCTCTTACCCCAAG-CCTG-GGCAGAT
* *
25984310 CATCATCAACCAATCTCTTACCCCGAGCCTT-GGGTAGATTGTAACCATTTGATCTTTTACCCCA
1 CATCATCAACCAATCTCTTACCCCGAG-CTTGGGGCAGATTGTAACCATTTGATCTTTTACCCCG
* *
25984374 AGGTTGGGGCAGATCATCGTCAACCAATATCTTACCCCGAGCCAGGGGCAGATTACAGTCATTCG
65 AGGTTGGGGCAGATCATCGTCAACCAATCTCTTACCCCGAGCCAGGGGCAGATTACAGCCATTCG
25984439 ATCTCTTACCCCAAGCCTAGGGCAGAT
130 ATCTCTTACCCCAAGCCT-GGGCAGAT
* *
25984466 CATCATCAGCCAATCTCTTACCTTC-AGCTTGGGGCAGATTGTAACCATTTGATCTTTTACCCCG
1 CATCATCAACCAATCTCTTACC-CCGAGCTTGGGGCAGATTGTAACCATTTGATCTTTTACCCCG
** * *
25984530 AGCCTGGGGCAGATCATCGTTAACCAATCTCTTACCCCGAGCCAGGGGTAGATTACAGCCATTCG
65 AGGTTGGGGCAGATCATCGTCAACCAATCTCTTACCCCGAGCCAGGGGCAGATTACAGCCATTCG
* * *
25984595 ATCTCTTACCCCAAGCCCGGGGAAGCT
130 ATCTCTTACCCCAAG-CCTGGGCAGAT
*
25984622 CACCATCAACCAATCTCCTTACCC
1 CATCATCAACCAATCT-CTTACCC
25984646 TGATCACGGA
Statistics
Matches: 293, Mismatches: 33, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
155 63 0.22
156 218 0.74
157 12 0.04
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (155 bp):
CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
GGTTGGGGCAGATCATCGTCAACCAATCTCTTACCCCGAGCCAGGGGCAGATTACAGCCATTCGA
TCTCTTACCCCAAGCCTGGGCAGAT
Found at i:25984565 original size:39 final size:39
Alignment explanation
Indices: 25984155--25984645 Score: 247
Period size: 39 Copynumber: 12.6 Consensus size: 39
25984145 AGTGAAGTTA
* * *
25984155 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGGT
1 CATCGTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* * **** * *
25984194 TA-CAGCCATTTGATCTTTTACCCCGAGTCTGGGG-AGAT
1 CATC-GTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
*
25984232 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
1 CATCGTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
** * *** * * *
25984271 TGT-GACCATTTAATCTTTTATCCCG-GACCTGAGGCAGAT
1 CATCG-TCAACCAATCTCTTACCCCGAG-CCTGGGGCAGAT
* * *
25984310 CATCATCAACCAATCTCTTACCCCGAGCCTTGGGTAGAT
1 CATCGTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* * **
25984349 --T-GT-AACCATTTGATCTTTTACCCCAAGGTTGGGGCAGAT
1 CATCGTCAACCA----ATCTCTTACCCCGAGCCTGGGGCAGAT
* *
25984388 CATCGTCAACCAATATCTTACCCCGAGCCAGGGGCAGAT
1 CATCGTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* ** * * *
25984427 TA-CAGTCATTCGATCTCTTACCCCAAGCCTAGGGCAGAT
1 CATC-GTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* * * *
25984466 CATCATCAGCCAATCTCTTACCTTC-AGCTTGGGGCAGAT
1 CATCGTCAACCAATCTCTTACC-CCGAGCCTGGGGCAGAT
*
25984505 --T-GT-AACCATTTGATCTTTTACCCCGAGCCTGGGGCAGAT
1 CATCGTCAACCA----ATCTCTTACCCCGAGCCTGGGGCAGAT
* * *
25984544 CATCGTTAACCAATCTCTTACCCCGAGCCAGGGGTAGAT
1 CATCGTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* * ** * * * * *
25984583 TA-CAGCCATTCGATCTCTTACCCCAAGCCCGGGGAAGCT
1 CATC-GTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* *
25984622 CACCATCAACCAATCTCCTTACCC
1 CATCGTCAACCAATCT-CTTACCC
25984646 TGATCACGGA
Statistics
Matches: 327, Mismatches: 95, Indels: 59
0.68 0.20 0.12
Matches are distributed among these distances:
35 9 0.03
36 2 0.01
37 2 0.01
38 31 0.09
39 256 0.78
40 11 0.03
41 2 0.01
42 4 0.01
43 10 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (39 bp):
CATCGTCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
Found at i:25985027 original size:201 final size:200
Alignment explanation
Indices: 25984675--25985199 Score: 724
Period size: 201 Copynumber: 2.6 Consensus size: 200
25984665 GATTATCCAT
* * * *
25984675 AAGTGAGACGGTCATCTTCCTGATGAGATACCGAGAGGTATACCAACTCAAGGCTCAAAGAGAGC
1 AAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAA-CGAGC
* * * * *
25984740 AAATCTTCGAACACCAGTTTCCTGATTAGATACTGAGAAGCA-GGTCGAAGCAATAAAATGGTTA
65 AAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGGT-GAAGCAATAAAAAGGTTA
* * ** * *
25984804 GCTTCCTGATAAGATGCTGAGAAGTGGACCAAATTCGCCTTCCTGGTAAGATATAGAGAAGCGAA
129 GCTTCCTGATAAGATACTGAGAAGTAGACCAAATTCGCCTTCCTAATAAGATACAGAGAAACGAA
25984869 TTGAAAC
194 TTGAAAC
*
25984876 AAGTGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAACTGAGC
1 AAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAC-GAGC
* *
25984941 AAATCTTCGAACCCCGGCTTCCTGATGAGATACTAAGAAACAGGGTGAAGCAATAAAAAGGTTAG
65 AAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGGTGAAGCAATAAAAAGGTTAG
* * * *
25985006 CTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTAATGAGGTACAGAGAAACGAAT
130 CTTCCTGATAAGATACTGAGAAGTAGACCAAATTCGCCTTCCTAATAAGATACAGAGAAACGAAT
25985071 TGAAAC
195 TGAAAC
* * *
25985077 AAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTAT-CCAACTCAA---T---GCGAACA
1 AAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAACGAGCA
* *
25985135 AATCTTCGAACCCTAGCTTCCTGATGAGATACTAAGAAGCAGGGCGAAGCAATAAAAAGGTTAGC
66 AATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGGTGAAGCAATAAAAAGGTTAGC
25985200 ACCAGCACCA
Statistics
Matches: 292, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
193 65 0.22
194 1 0.00
197 1 0.00
200 9 0.03
201 213 0.73
202 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (200 bp):
AAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAACGAGCA
AATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGGTGAAGCAATAAAAAGGTTAGC
TTCCTGATAAGATACTGAGAAGTAGACCAAATTCGCCTTCCTAATAAGATACAGAGAAACGAATT
GAAAC
Found at i:25985658 original size:14 final size:15
Alignment explanation
Indices: 25985639--25985671 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25985629 GGATTTACTT
25985639 TCAAAAA-AGGAAAA
1 TCAAAAACAGGAAAA
*
25985653 TCAAAAACAGGAAGA
1 TCAAAAACAGGAAAA
25985668 TCAA
1 TCAA
25985672 TGTCCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.64, C:0.12, G:0.15, T:0.09
Consensus pattern (15 bp):
TCAAAAACAGGAAAA
Found at i:25986489 original size:29 final size:29
Alignment explanation
Indices: 25986443--25986732 Score: 188
Period size: 29 Copynumber: 9.9 Consensus size: 29
25986433 CCTTAAAGGT
* *
25986443 CCCTAAA-TTGTCCAAAAATTATATTTTGA
1 CCCTAAACTT-TCCAAAAATTACATTTTAA
25986472 CCCTCAAACTTTCC-AAAATT-CTATTTTAA
1 CCCT-AAACTTTCCAAAAATTAC-ATTTTAA
* *
25986501 CAACGAAA-TTTCCAAAAATTACATTTTAA
1 C-CCTAAACTTTCCAAAAATTACATTTTAA
*
25986530 CCCTAAAAC-TTCCAAAAATTACCATTTTAG
1 CCCT-AAACTTTCCAAAAATTA-CATTTTAA
** *
25986560 CCCTAAACTTTCCAAAAATCCCATTTTGA
1 CCCTAAACTTTCCAAAAATTACATTTTAA
* * *
25986589 -CCTTAATTTTACCAAAAATTACCGTTTT-A
1 CCCTAAACTTT-CCAAAAATTA-CATTTTAA
* *
25986618 CCCTTAAACTTT-CTAAAATTCCATTTTAA
1 CCC-TAAACTTTCCAAAAATTACATTTTAA
** * *
25986647 CCC-CGATTTTACCAAAAATTACCATTTTAC
1 CCCTAAACTTT-CCAAAAATTA-CATTTTAA
*
25986677 CCCTAAACTTTCC-AAAATTCCATTCTTAA
1 CCCTAAACTTTCCAAAAATTACATT-TTAA
** * *
25986706 CTGTAAATTTTCCTAAAA-TATCATTTT
1 CCCTAAACTTTCCAAAAATTA-CATTTT
25986733 TGCCCCAGAG
Statistics
Matches: 203, Mismatches: 36, Indels: 44
0.72 0.13 0.16
Matches are distributed among these distances:
27 4 0.02
28 23 0.11
29 108 0.53
30 56 0.28
31 12 0.06
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAAATTACATTTTAA
Found at i:25986585 original size:59 final size:59
Alignment explanation
Indices: 25986509--25986732 Score: 237
Period size: 58 Copynumber: 3.8 Consensus size: 59
25986499 AACAACGAAA
* **
25986509 TTTCCAAAAATTACATTTTAACCCTAAAACTT-CCAAAAATTACCATTTTAGCCCTAAAC
1 TTTCCAAAAATTCCATTTTAACCCTAAATTTTACCAAAAATTACCATTTTA-CCCTAAAC
* * * *
25986568 TTTCCAAAAATCCCATTTTGA-CCTTAATTTTACCAAAAATTACCGTTTTACCCTTAAAC
1 TTTCCAAAAATTCCATTTTAACCCTAAATTTTACCAAAAATTACCATTTTACCC-TAAAC
* **
25986627 TTT-CTAAAATTCCATTTTAACCC-CGATTTTACCAAAAATTACCATTTTACCCCTAAAC
1 TTTCCAAAAATTCCATTTTAACCCTAAATTTTACCAAAAATTACCATTTTA-CCCTAAAC
** * *
25986685 TTTCC-AAAATTCCATTCTTAACTGTAAATTTT-CCTAAAA-TATCATTTT
1 TTTCCAAAAATTCCATT-TTAACCCTAAATTTTACCAAAAATTACCATTTT
25986733 TGCCCCAGAG
Statistics
Matches: 139, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
58 74 0.53
59 60 0.43
60 5 0.04
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (59 bp):
TTTCCAAAAATTCCATTTTAACCCTAAATTTTACCAAAAATTACCATTTTACCCTAAAC
Found at i:25993895 original size:15 final size:15
Alignment explanation
Indices: 25993856--25993914 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
25993846 ATTGTTTATA
25993856 TTTGTTTATTTA-TT
1 TTTGTTTATTTATTT
* **
25993870 TTAGCAT-TTTATTT
1 TTTGTTTATTTATTT
25993884 TTTGTTTATTTATTT
1 TTTGTTTATTTATTT
25993899 TGTTG-TTATTTATTT
1 T-TTGTTTATTTATTT
25993914 T
1 T
25993915 CATGATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
13 4 0.11
14 10 0.28
15 19 0.53
16 3 0.08
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (15 bp):
TTTGTTTATTTATTT
Found at i:25993914 original size:28 final size:29
Alignment explanation
Indices: 25993850--25993914 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
25993840 ATTTTTATTG
25993850 TTTATATTTGTTTATTTATTTTAGCATTTTA
1 TTTAT-TTTGTTTATTTATTTTAG-ATTTTA
25993881 -TT-TTTTGTTTATTTATTTT-G-TTGTTA
1 TTTATTTTGTTTATTTATTTTAGATT-TTA
25993907 TTTATTTT
1 TTTATTTT
25993915 CATGATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
25 2 0.06
26 3 0.10
27 3 0.10
28 20 0.65
29 1 0.03
30 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.74
Consensus pattern (29 bp):
TTTATTTTGTTTATTTATTTTAGATTTTA
Found at i:25997672 original size:15 final size:13
Alignment explanation
Indices: 25997648--25997686 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
25997638 TGCATATGCA
25997648 TACATGCATTCAT
1 TACATGCATTCAT
25997661 TAGCATTGCATTTCAT
1 TA-CA-TGCA-TTCAT
25997677 TACATGCATT
1 TACATGCATT
25997687 AAATTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 6 0.26
16 7 0.30
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (13 bp):
TACATGCATTCAT
Found at i:25997710 original size:3 final size:3
Alignment explanation
Indices: 25997702--25997750 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
25997692 TCATAAAATG
25997702 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25997750 A
1 A
25997751 ATAAATAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:26002948 original size:52 final size:51
Alignment explanation
Indices: 26002868--26003055 Score: 286
Period size: 52 Copynumber: 3.6 Consensus size: 51
26002858 GAAAAAGGTC
26002868 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGATT
1 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAG-TT
* *
26002920 CAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGGT
1 CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGTT
* * *
26002971 CTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTC
1 C-GATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGA-GTT
* *
26003024 CGGTGGCTATGTGTCATCGTGAGTATATGAAT
1 CGATGACTATGTGTCATCGTGAGTATATGAAT
26003056 GAAATGAAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
51 2 0.02
52 120 0.97
53 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (51 bp):
CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGTT
Found at i:26005563 original size:20 final size:21
Alignment explanation
Indices: 26005516--26005563 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
26005506 CTTTTGATTG
* *
26005516 ATGTTTGCTACTTTTTTATCG
1 ATGTTTGCTACTTTTTTACCA
**
26005537 ACATTTGCTA-TTTTTTACCA
1 ATGTTTGCTACTTTTTTACCA
26005557 ATGTTTG
1 ATGTTTG
26005564 TAATCTTTGG
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (21 bp):
ATGTTTGCTACTTTTTTACCA
Found at i:26013427 original size:28 final size:28
Alignment explanation
Indices: 26013391--26013610 Score: 174
Period size: 28 Copynumber: 7.8 Consensus size: 28
26013381 CACTTGTCAT
* * * *
26013391 CTTAAACATATGCGTTTACGCTCGCTAG
1 CTTATACATACGCGTTTACGCTCACCAG
** *
26013419 CTT-TCACATATTCGTTTACGCTCACCAA
1 CTTAT-ACATACGCGTTTACGCTCACCAG
*** ** *
26013447 CTTATACATTTACGTTTACGCTCGTCAA
1 CTTATACATACGCGTTTACGCTCACCAG
* *
26013475 CTTATGTATATACGCATTTACGCTCACCAG
1 CTTA--TACATACGCGTTTACGCTCACCAG
* * * *
26013505 CTTATATATACGTGTTTGCGCTCACCAA
1 CTTATACATACGCGTTTACGCTCACCAG
* * *
26013533 CTT-TCACATATGTGTTTACGCTCGCCAG
1 CTTAT-ACATACGCGTTTACGCTCACCAG
*
26013561 CTTATACATACGCGTTTACGCTCTCCAG
1 CTTATACATACGCGTTTACGCTCACCAG
*
26013589 CTTATACATACGGGTTTACGCT
1 CTTATACATACGCGTTTACGCT
26013611 TGCCAACTTA
Statistics
Matches: 156, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.01
28 133 0.85
29 2 0.01
30 20 0.13
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (28 bp):
CTTATACATACGCGTTTACGCTCACCAG
Found at i:26013507 original size:86 final size:84
Alignment explanation
Indices: 26013391--26013619 Score: 198
Period size: 86 Copynumber: 2.7 Consensus size: 84
26013381 CACTTGTCAT
* * * * * *
26013391 CTTAAACATATGCGTTTACGCTCGCTAGCTTTCACATATTC-GTTTACGCTCACCAACTTAT-AC
1 CTTATACATACGCATTTACGCTCACCAGCTTT-ACATATACGGTTTACGCTCACCAACTT-TCAC
* *
26013454 ATTTACGTTTACGCTCGTCAA
64 ATATACGTTTACGCTCGCCAA
* * *
26013475 CTTATGTATATACGCATTTACGCTCACCAGC-TTATATATACGTGTTTGCGCTCACCAACTTTCA
1 CTTA--TACATACGCATTTACGCTCACCAGCTTTACATATACG-GTTTACGCTCACCAACTTTCA
** *
26013539 CATATGTGTTTACGCTCGCCAG
63 CATATACGTTTACGCTCGCCAA
* * **
26013561 CTTATACATACGCGTTTACGCTCTCCAGCTTATAC--ATACGGGTTTACGCTTGCCAACTT
1 CTTATACATACGCATTTACGCTCACCAGCTT-TACATATAC-GGTTTACGCTCACCAACTT
26013620 ATGATCTTTG
Statistics
Matches: 116, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
84 51 0.44
85 5 0.04
86 60 0.52
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.35
Consensus pattern (84 bp):
CTTATACATACGCATTTACGCTCACCAGCTTTACATATACGGTTTACGCTCACCAACTTTCACAT
ATACGTTTACGCTCGCCAA
Found at i:26015515 original size:59 final size:59
Alignment explanation
Indices: 26015452--26016062 Score: 469
Period size: 59 Copynumber: 10.3 Consensus size: 59
26015442 GACTCTCGAG
** *
26015452 GGGTAAAAATGGTAATTTTATGAAAG-TTTGGGGTTAAAAATAAAATTTTAGATA-TTTGA
1 GGGTAAAAAT-GTAATTTT-TGAAAGTTTTAAGGTTAAAAATAAAATTTTAGAAAGTTTGA
** ** * * * * *
26015511 GGGTAAAACGGTAATTTTTAGAAA--AATCAGGATCAAAAATAGAATTTTTAGACA--TTCA
1 GGGTAAAAATGTAATTTTT-GAAAGTTTTAAGG-TTAAAAATA-AAATTTTAGAAAGTTTGA
* * * * *
26015569 GGGGT-AAAATGGTAATTTTTTAAAGTTTTAAGGTCAAAAATGGAACTTTT-GGAAGTTTGA
1 -GGGTAAAAAT-GTAATTTTTGAAAGTTTTAAGGTTAAAAAT-AAAATTTTAGAAAGTTTGA
* ** * * *
26015629 GGGT-AAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAATAAAATTTT-GGAATTTTTA
1 GGGTAAAAAT-GTAATTTTTGAAAGTTTTAAGGTTAAAAATAAAATTTTAGAAAGTTTGA
* * * * ** *
26015687 GGGTAAAGATGTAATTTTAGGAAGTTTTGAGGTTAAAAATGGAATTTTGGAAAGTTT-A
1 GGGTAAAAATGTAATTTTTGAAAGTTTTAAGGTTAAAAATAAAATTTTAGAAAGTTTGA
* * ** * *
26015745 GGGGTAAAAATCTAATTTTTGGAAGTTTTAAGGTTAAAAATGGAATTTTTGTAAGTTTGA
1 -GGGTAAAAATGTAATTTTTGAAAGTTTTAAGGTTAAAAATAAAATTTTAGAAAGTTTGA
* * ** * *
26015805 GGGTAAAAATGTAATTTTTGGTAA-TTTTAAGGTCAAAAATGGAATTTTGGAAAGTTTAA
1 GGGTAAAAATGTAATTTTT-GAAAGTTTTAAGGTTAAAAATAAAATTTTAGAAAGTTTGA
* * *
26015864 GGGTAAAAATGTAATTTTTAAAAGTTTCAAGGTTAAAAATATAATTTTAGAGAAGTTTG-
1 GGGTAAAAATGTAATTTTTGAAAGTTTTAAGGTTAAAAATAAAATTTTAGA-AAGTTTGA
* * * *
26015923 GGGTTAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAAATAGAATTTT-GAAAAGTTT-A
1 GGGTAAAAATGTAATTTTTGAAAGTTTTAAGGTTAAAAATAAAATTTTAG-AAAGTTTGA
** * * *
26015981 GAGGTAAAAATGTAATTTTCAAAAGTTTTAGGGTTAAAAATATAATTTTAGAGAAGTTTTGG
1 G-GGTAAAAATGTAATTTTTGAAAGTTTTAAGGTTAAAAATAAAATTTTAGA-AAG-TTTGA
* *
26016043 GGGTCAAAATATAATTTTTG
1 GGGTAAAAATGTAATTTTTG
26016063 GATAGTTTAG
Statistics
Matches: 455, Mismatches: 73, Indels: 46
0.79 0.13 0.08
Matches are distributed among these distances:
57 4 0.01
58 94 0.21
59 317 0.70
60 21 0.05
61 18 0.04
62 1 0.00
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTTGAAAGTTTTAAGGTTAAAAATAAAATTTTAGAAAGTTTGA
Found at i:26015636 original size:29 final size:29
Alignment explanation
Indices: 26015570--26016074 Score: 305
Period size: 29 Copynumber: 17.1 Consensus size: 29
26015560 AGACATTCAG
** *
26015570 GGGT-AAAATGGTAATTTTTTAAAGTTTTA
1 GGGTAAAAATGG-AATTTTTGGAAGTTTGA
* *
26015599 AGGTCAAAAATGGAACTTTTGGAAGTTTGA
1 GGGT-AAAAATGGAATTTTTGGAAGTTTGA
26015629 GGGT-AAAATGGTAATTTTTGGAAGTTTTG-
1 GGGTAAAAATGG-AATTTTTGGAAG-TTTGA
* * * *
26015658 GGGTTAAAAAT-AAAATTTTGGAATTTTTA
1 GGG-TAAAAATGGAATTTTTGGAAGTTTGA
* * *
26015687 GGGTAAAGATGTAATTTTAGGAAGTTTTGA
1 GGGTAAAAATGGAATTTTTGGAAG-TTTGA
*
26015717 GGTTAAAAATGGAA-TTTTGGAAAGTTT-A
1 GGGTAAAAATGGAATTTTTGG-AAGTTTGA
** *
26015745 GGGGTAAAAATCTAATTTTTGGAAGTTTTAA
1 -GGGTAAAAATGGAATTTTTGGAAG-TTTGA
* *
26015776 GGTTAAAAATGGAATTTTTGTAAGTTTGA
1 GGGTAAAAATGGAATTTTTGGAAGTTTGA
* *
26015805 GGGTAAAAATGTAATTTTTGGTAA-TTTTA
1 GGGTAAAAATGGAATTTTTGG-AAGTTTGA
* *
26015834 AGGTCAAAAATGGAA-TTTTGGAAAGTTTAA
1 GGGT-AAAAATGGAATTTTTGG-AAGTTTGA
* ** *
26015864 GGGTAAAAATGTAATTTTTAAAAGTTTCAA
1 GGGTAAAAATGGAATTTTTGGAAGTTT-GA
* ** *
26015894 GGTTAAAAATATAATTTTAGAGAAGTTTG-
1 GGGTAAAAATGGAATTTTTG-GAAGTTTGA
* * * *
26015923 GGGTTAAAATGTAATTTTTGAAAGTTTTA
1 GGGTAAAAATGGAATTTTTGGAAGTTTGA
* *
26015952 GGGTCAAAAATAGAA-TTTTGAAAAGTTT-A
1 GGGT-AAAAATGGAATTTTTG-GAAGTTTGA
* *** *
26015981 GAGGTAAAAATGTAATTTTCAAAAGTTTTA
1 G-GGTAAAAATGGAATTTTTGGAAGTTTGA
** * *
26016011 GGGTTAAAAATATAATTTTAGAGAAGTTTTGG
1 GGG-TAAAAATGGAATTTTTG-GAAG-TTTGA
* **
26016043 GGGTCAAAATATAATTTTTGGATAGTTT-A
1 GGGTAAAAATGGAATTTTTGGA-AGTTTGA
26016072 GGG
1 GGG
26016075 ACCTCTAGAG
Statistics
Matches: 377, Mismatches: 69, Indels: 60
0.75 0.14 0.12
Matches are distributed among these distances:
28 23 0.06
29 160 0.42
30 149 0.40
31 39 0.10
32 6 0.02
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAGTTTGA
Found at i:26017207 original size:9 final size:9
Alignment explanation
Indices: 26017166--26017209 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
26017156 ATAAAAAATT
*
26017166 TTATTAATG
1 TTATTAATA
26017175 TTATTAATTA
1 TTATTAA-TA
*
26017185 TTATTGATTA
1 TTATT-AATA
26017195 TTATTAATA
1 TTATTAATA
26017204 TTATTA
1 TTATTA
26017210 TTAAAAACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 16 0.53
10 13 0.43
11 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (9 bp):
TTATTAATA
Found at i:26018020 original size:6 final size:6
Alignment explanation
Indices: 26017981--26018080 Score: 57
Period size: 6 Copynumber: 17.0 Consensus size: 6
26017971 ATGAACTTTG
* * *
26017981 AATTTA ATTTTA AAGTTTA AGTTTTA AA-TT- -ATTTA AATTTA AA-CTA
1 AATTTA AATTTA AA-TTTA A-ATTTA AATTTA AATTTA AATTTA AATTTA
** * ** *
26018027 AATTTA AATTTA AA-ACA AATTTA TATTTAA AAAATG AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA
26018075 AATTTA
1 AATTTA
26018081 GAAATAAATC
Statistics
Matches: 68, Mismatches: 18, Indels: 16
0.67 0.18 0.16
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 9 0.13
6 43 0.63
7 13 0.19
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:26018033 original size:17 final size:18
Alignment explanation
Indices: 26018011--26018076 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
26018001 GTTTTAAATT
26018011 ATTTAAATTT-AAACTAA
1 ATTTAAATTTAAAACTAA
26018028 ATTTAAATTTAAAAC-AA
1 ATTTAAATTTAAAACTAA
* * *
26018045 ATTTATATTTAAAAAATGA
1 ATTTAAATTT-AAAACTAA
26018064 ATTTAAATTTAAA
1 ATTTAAATTTAAA
26018077 TTTAGAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 21 0.50
18 11 0.26
19 10 0.24
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTTAAATTTAAAACTAA
Found at i:26018588 original size:50 final size:50
Alignment explanation
Indices: 26018494--26019058 Score: 305
Period size: 50 Copynumber: 11.4 Consensus size: 50
26018484 TCCATTGCGA
* * * * *
26018494 CTTAGATCTTTCCCTTCATG-CTTTACGGTACTAGATCCGCCGTTGCGAT
1 CTTAGATCTTTCCCTTCGTGTCTTTATGGTACTGGATCTGCCGTTGCGGT
* * *
26018543 CTTAGATCTTT-CCTGTCGTGTTTTTGTGGTACTGGATCTGCCGTTGTGGT
1 CTTAGATCTTTCCCT-TCGTGTCTTTATGGTACTGGATCTGCCGTTGCGGT
* * *
26018593 CTTAGATCTTTCCCTTCGTGTCTTTGTGGTACTGGATAC-GTCGTCGCGG-
1 CTTAGATCTTTCCCTTCGTGTCTTTATGGTACTGGAT-CTGCCGTTGCGGT
* * * *
26018642 CTTAGATCTTTCCC-T--TGTCTTCACGGTACTGGATCCGCCGTTACGGT
1 CTTAGATCTTTCCCTTCGTGTCTTTATGGTACTGGATCTGCCGTTGCGGT
* * * *
26018689 CTTAGGTCTTTCCCGTT-GTGT-TTTCATGGTATTGGAT-TCGCTGTTGTGGT
1 CTTAGATCTTTCCC-TTCGTGTCTTT-ATGGTACTGGATCT-GCCGTTGCGGT
* * * * *
26018739 CTTAGATCTTTCCCTTCGTGTCTTCTAAGGTACACT-G-TCCGTCGTTTC-GA
1 CTTAGATCTTTCCCTTCGTGTCTT-TATGGT--ACTGGATCTGCCGTTGCGGT
* * *
26018789 CTTAGACCTTTCCCTTTTGTATCTTTATGGTACTGGAT-TCGCCGTTGCGG-
1 CTTAGATCTTTCCC-TTCGTGTCTTTATGGTACTGGATCT-GCCGTTGCGGT
* * * * * * *
26018839 CTTAAATCTTTCCCTTCATGCCTTCTGA-GGTGCAC-GGTTC-ACCGTTAC-GA
1 CTTAGATCTTTCCCTTCGTGTCTT-T-ATGGT--ACTGGATCTGCCGTTGCGGT
* * * *** *
26018889 CTTAGACCTTTCCCTTTTGTATCTTTGCAGTACTGGAT-TCCCCGTTGCGG-
1 CTTAGATCTTTCCC-TTCGTGTCTTTATGGTACTGGATCT-GCCGTTGCGGT
* * * *
26018939 CTTAAATCTTTCCCTTCGTGTCTTT-TGAGGTACACGG-TCCGCCGTTGC-GA
1 CTTAGATCTTTCCCTTCGTGTCTTTAT--GGTAC-TGGATCTGCCGTTGCGGT
* * * ** * *
26018989 CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGATCTACCGTTGCGAT
1 CTTAGATCTTTCCC-TTCGTGTCTTTATGGTACTGGATCTGCCGTTGCGGT
*
26019040 CTTAGATCTTTCCCGTCGT
1 CTTAGATCTTTCCCTTCGT
26019059 ATTTCATGGT
Statistics
Matches: 389, Mismatches: 84, Indels: 85
0.70 0.15 0.15
Matches are distributed among these distances:
45 1 0.00
46 23 0.06
47 13 0.03
48 9 0.02
49 57 0.15
50 221 0.57
51 59 0.15
52 4 0.01
53 2 0.01
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.40
Consensus pattern (50 bp):
CTTAGATCTTTCCCTTCGTGTCTTTATGGTACTGGATCTGCCGTTGCGGT
Found at i:26018699 original size:96 final size:97
Alignment explanation
Indices: 26018570--26018754 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 97
26018560 GTGTTTTTGT
* ** *
26018570 GGTACTGGATCTGCCGTTGTGGTCTTAGATCTTTCCC-TTCGTGTCTTT-GTGGTACTGGATACG
1 GGTACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGTT-GTGT-TTTCATGGTACTGGATACG
26018633 -TCGTCGCGG-CTTAGATCTTTCCCTTGTCTTCAC
64 CT-GTCGCGGTCTTAGATCTTTCCCTTGTCTTCAC
* * *
26018666 GGTACTGGATCCGCCGTTACGGTCTTAGGTCTTTCCCGTTGTGTTTTCATGGTATTGGATTCGCT
1 GGTACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGTTGTGTTTTCATGGTACTGGATACGCT
* *
26018731 GTTGTGGTCTTAGATCTTTCCCTT
66 GTCGCGGTCTTAGATCTTTCCCTT
26018755 CGTGTCTTCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
95 3 0.04
96 54 0.71
97 19 0.25
ACGTcount: A:0.10, C:0.23, G:0.25, T:0.41
Consensus pattern (97 bp):
GGTACTGGATCCGCCGTTACGGTCTTAGATCTTTCCCGTTGTGTTTTCATGGTACTGGATACGCT
GTCGCGGTCTTAGATCTTTCCCTTGTCTTCAC
Found at i:26018719 original size:146 final size:148
Alignment explanation
Indices: 26018494--26018762 Score: 400
Period size: 146 Copynumber: 1.8 Consensus size: 148
26018484 TCCATTGCGA
* * *
26018494 CTTAGATCTTTCCCTTCATGCTTTACGGTACTAGATCCGCCGTTGCGATCTTAGATCTTTCCTGT
1 CTTAGATCTTTCCCTTCATGCTTCACGGTACTAGATCCGCCGTTACGATCTTAGATCTTTCCCGT
**
26018559 CGTGTTTTTGTGGTACTGGA-TCTGCCGTTGTGGTCTTAGATCTTTCCCTTCGTGTCTTTGTGGT
66 CGTGTTTTCATGGTACTGGATTC-GCCGTTGTGGTCTTAGATCTTTCCCTTCGTGTCTTTGTGGT
26018623 ACTGGATACGTCGTCGCGG
130 ACTGGATACGTCGTCGCGG
* * * *
26018642 CTTAGATCTTTCCCTT-GT-CTTCACGGTACTGGATCCGCCGTTACGGTCTTAGGTCTTTCCCGT
1 CTTAGATCTTTCCCTTCATGCTTCACGGTACTAGATCCGCCGTTACGATCTTAGATCTTTCCCGT
* * *
26018705 TGTGTTTTCATGGTATTGGATTCGCTGTTGTGGTCTTAGATCTTTCCCTTCGTGTCTT
66 CGTGTTTTCATGGTACTGGATTCGCCGTTGTGGTCTTAGATCTTTCCCTTCGTGTCTT
26018763 CTAAGGTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
146 89 0.82
147 3 0.03
148 16 0.15
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (148 bp):
CTTAGATCTTTCCCTTCATGCTTCACGGTACTAGATCCGCCGTTACGATCTTAGATCTTTCCCGT
CGTGTTTTCATGGTACTGGATTCGCCGTTGTGGTCTTAGATCTTTCCCTTCGTGTCTTTGTGGTA
CTGGATACGTCGTCGCGG
Found at i:26019011 original size:100 final size:100
Alignment explanation
Indices: 26018593--26019058 Score: 450
Period size: 100 Copynumber: 4.7 Consensus size: 100
26018583 CCGTTGTGGT
* * * * * * * *
26018593 CTTAGATCTTTCCC-TTCGTGTCTTTGTGGTACTGGATACGTCGTCGCGGCTTAGATCTTTCCC-
1 CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCT
* *
26018656 T--TGTCTTC--ACGGTAC-TGGATCCGCCGTTACGGT
66 TCGTGTCTTCTGA-GGTACACGG-TCCGCCGTTAC-GA
** * * * * * *
26018689 CTTAGGTCTTTCCC-GTTGTGT-TTT-CATGGTATTGGATTCGCTGTTGTGGTCTTAGATCTTTC
1 CTTAGACCTTTCCCTTTTGTATCTTTGC--GGTACTGGATTCGCCGTTGCGG-CTTAAATCTTTC
* * * *
26018751 CCTTCGTGTCTTCTAAGGTACACTGTCCGTCGTTTCGA
63 CCTTCGTGTCTTCTGAGGTACACGGTCCGCCGTTACGA
**
26018789 CTTAGACCTTTCCCTTTTGTATCTTTATGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCT
1 CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCT
* * * * *
26018854 TCATGCCTTCTGAGGTGCACGGTTCACCGTTACGA
66 TCGTGTCTTCTGAGGTACACGGTCCGCCGTTACGA
* *
26018889 CTTAGACCTTTCCCTTTTGTATCTTTGCAGTACTGGATTCCCCGTTGCGGCTTAAATCTTTCCCT
1 CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCT
* *
26018954 TCGTGTCTTTTGAGGTACACGGTCCGCCGTTGCGA
66 TCGTGTCTTCTGAGGTACACGGTCCGCCGTTACGA
* * *
26018989 CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGA-TCTACCGTTGCGATCTTAGATCTTTCC
1 CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGATTC-GCCGTTGCG-GCTTAAATCTTTCC
*
26019053 CGTCGT
64 CTTCGT
26019059 ATTTCATGGT
Statistics
Matches: 307, Mismatches: 49, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
95 3 0.01
96 34 0.11
97 14 0.05
98 1 0.00
99 2 0.01
100 193 0.63
101 55 0.18
102 5 0.02
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (100 bp):
CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCT
TCGTGTCTTCTGAGGTACACGGTCCGCCGTTACGA
Found at i:26026954 original size:10 final size:10
Alignment explanation
Indices: 26026933--26026964 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
26026923 TAAAACGTGA
26026933 GAATGCAATGC
1 GAATG-AATGC
26026944 GAATGAATGC
1 GAATGAATGC
26026954 GAATGAATGC
1 GAATGAATGC
26026964 G
1 G
26026965 TAAATGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (10 bp):
GAATGAATGC
Found at i:26030820 original size:29 final size:29
Alignment explanation
Indices: 26030657--26030944 Score: 102
Period size: 29 Copynumber: 10.0 Consensus size: 29
26030647 TTTTGGATAC
*
26030657 TCGGGGGTAAAATGGTAATTTTT-G-ACT
1 TCGGGGGTAAAATGGTAATTTTTAGAAAT
*
26030684 CTTGGGGGTAAAATGGTAA-TTTTAGGAAAGT
1 -TCGGGGGTAAAATGGTAATTTTTA-GAAA-T
* * * * *
26030715 TTGTGGTTAAAATAG-AA-TTTTAGATAT
1 TCGGGGGTAAAATGGTAATTTTTAGAAAT
* * * *
26030742 TCGAGGATAAAACGGTAATTTTTAGAAAAA
1 TCGGGGGTAAAATGGTAATTTTTAG-AAAT
*** * *
26030772 T-AAAGATCAAAAATGG-AATTTTTAGACAT
1 TCGGGGGT--AAAATGGTAATTTTTAGAAAT
26030801 TCGGGGGTAAAATGGTAATTTTT-GATAAT
1 TCGGGGGTAAAATGGTAATTTTTAGA-AAT
** * * * *
26030830 TATGGGGTCAAAAAT--TAAACTTCTGGAAGT
1 TCGGGGGT--AAAATGGT-AATTTTTAGAAAT
* * *
26030860 TCGAGGGTAAAATGGTAATTTTTGGAAGT
1 TCGGGGGTAAAATGGTAATTTTTAGAAAT
**
26030889 T-TTGGGTCAATAATGG-AATTTTT-GAAACT
1 TCGGGGGT-AA-AATGGTAATTTTTAGAAA-T
26030918 TCGGGGGTAAAAAT-GTAATTTTT-GAAA
1 TCGGGGGT-AAAATGGTAATTTTTAGAAA
26030945 GTTTTAAGGT
Statistics
Matches: 198, Mismatches: 39, Indels: 45
0.70 0.14 0.16
Matches are distributed among these distances:
27 15 0.08
28 44 0.22
29 74 0.37
30 51 0.26
31 14 0.07
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (29 bp):
TCGGGGGTAAAATGGTAATTTTTAGAAAT
Found at i:26030841 original size:59 final size:56
Alignment explanation
Indices: 26030665--26031295 Score: 303
Period size: 58 Copynumber: 10.8 Consensus size: 56
26030655 ACTCGGGGGT
* * * * *
26030665 AAAATGGTAATTTTTG-ACTCTTGGGGGTAAAATGGTAATTTTAGGAAAGTTTGTGGT-T
1 AAAATGG-AATTTTTGAAGT-TCGGGGGTAAAATGGTAATTTT-TGAAA-TTTGGGGTCA
* * * * * * *** *
26030723 AAAATAGAATTTTAGATA-TTCGAGGATAAAACGGTAATTTTTAGAAAAATAAAGATCA
1 AAAATGGAATTTTTGA-AGTTCGGGGGTAAAATGGTAATTTTT-G-AAATTTGGGGTCA
26030781 AAAATGGAATTTTTAGACA-TTCGGGGGTAAAATGGTAATTTTTGATAATTATGGGGTCA
1 AAAATGGAATTTTT-GA-AGTTCGGGGGTAAAATGGTAATTTTTGA-AATT-TGGGGTCA
** * * * * *
26030840 AAAATTAAACTTCTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGTTTTGGGTCA
1 AAAATGGAA-TTTTTGAAGTTCGGGGGTAAAATGGTAATTTTT-GAAATTTGGGGTCA
* * ** *
26030898 ATAATGGAATTTTTGAAACTTCGGGGGTAAAAAT-GTAATTTTTGAAAGTTTTAAGGTTA
1 AAAATGGAATTTTTG-AAGTTCGGGGGT-AAAATGGTAATTTTTGAAA--TTTGGGGTCA
* ** *
26030957 AAAATGGAAGTTTTGGAAGTTTTGGGGTAAAGAT-GTAATTTTTGAACTTTTGGGGTCA
1 AAAATGGAA-TTTTTGAAGTTCGGGGGTAAA-ATGGTAATTTTTGAA-ATTTGGGGTCA
* ** * *
26031015 AAAATGGAATTTTGGAAAGTTTAGGGGTAAAAAT-GTAATTTTTGGAAATTTTAGGGT-G
1 AAAATGGAATTTTTG-AAGTTCGGGGGT-AAAATGGTAATTTTT-GAAA-TTTGGGGTCA
* * * ** * *
26031073 AAAATTGAATTTTTAAAAGTTTGAAGGTAAAAAT-GTAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGAATTTTT-GAAGTTCGGGGGT-AAAATGGTAATTTTT-GAA-ATTTGGGGTCA
* * * * * **
26031132 AAAATGGAATTTTGGAAGTTTGAGGATAAAATTGTAATTTTCAAAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGAAGTTCGGGGGTAAAATGGTAATTTTTGAAA--TTTGGGGTCA
** * * * * * *
26031190 AAAATATAATTTTGGAGAAGTTTGGGGGTCAAAT-GTAATTTTTAGAAGTTTTAGGGTTA
1 AAAATGGAATTTT--TGAAGTTCGGGGGTAAAATGGTAATTTTT-GAA-ATTTGGGGTCA
* ***
26031249 AAAATGGAATTTTGGAAAGTTTAAGGGTAAAAAT-GTAATTTTTGAAA
1 AAAATGGAATTTTTG-AAGTTCGGGGGT-AAAATGGTAATTTTTGAAA
26031296 GTTTCAATGT
Statistics
Matches: 448, Mismatches: 91, Indels: 69
0.74 0.15 0.11
Matches are distributed among these distances:
57 51 0.11
58 198 0.44
59 172 0.38
60 27 0.06
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (56 bp):
AAAATGGAATTTTTGAAGTTCGGGGGTAAAATGGTAATTTTTGAAATTTGGGGTCA
Found at i:26030921 original size:117 final size:116
Alignment explanation
Indices: 26030778--26031360 Score: 540
Period size: 117 Copynumber: 5.0 Consensus size: 116
26030768 AAAATAAAGA
* * * *
26030778 TCAAAAATGGAATTTTTAGACA-TTCGGGGGT-AAAATGGTAATTTTTGATAA-TTATGGGGTCA
1 TCAAAAATGGAATTTTT-GAAAGTTTGGGGGTAAAAAT-GTAATTTTTGA-AAGTTTTAGGGTCA
* *
26030840 AAAATTAAACTTCTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGTTTT-GGG
63 AAAATTAAA-TTTTGGAAGTTTGAGGGTAAAAT-GTAATTTTTGGAAGTTTTGGGG
* * * * *
26030895 TCAATAATGGAATTTTTGAAACTTCGGGGGTAAAAATGTAATTTTTGAAAGTTTTAAGGTTAAAA
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAA
* * *
26030960 ATGGAAGTTTTGGAAGTTTTG-GGGTAAAGATGTAATTTTT-GAACTTTTGGGG
66 AT-TAAATTTTGGAAG-TTTGAGGGTAAA-ATGTAATTTTTGGAAGTTTTGGGG
* * *
26031012 TCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTGGAAA-TTTTAGGGT-GAA
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTT-GAAAGTTTTAGGGTCAAA
* ** *
26031075 AATTGAATTTTTAAAAGTTTGAAGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
65 AATT-AAATTTTGGAAGTTTGAGGGT-AAAATGTAATTTTTGGAAGTTTTGGGG
* * * * * ** *
26031129 TTAAAAATGGAA-TTTTGGAAGTTTGAGGATAAAATTGTAATTTTCAAAAGTTTTGGGGTCAAAA
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAA
* * * *
26031193 A-TATAATTTTGGAGAAGTTTGGGGGTCAAATGTAATTTTTAGAAGTTTTAGGG
66 ATTA-AATTTT-G-GAAGTTTGAGGGTAAAATGTAATTTTTGGAAGTTTTGGGG
* * ** * **
26031246 TTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAAATGTAATTTTTGAAAGTTTCAATGTCAAAA
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAA
* *
26031311 A-TATAATTTTGGAGAAGTTTGGGGGTCAAAATATAATTTTTGGACAGTTT
66 ATTA-AATTTT-G-GAAGTTTGAGGGT-AAAATGTAATTTTTGGA-AGTTT
26031361 AAGGACCTCT
Statistics
Matches: 389, Mismatches: 57, Indels: 37
0.81 0.12 0.08
Matches are distributed among these distances:
115 8 0.02
116 80 0.21
117 189 0.49
118 93 0.24
119 14 0.04
120 5 0.01
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.37
Consensus pattern (116 bp):
TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAA
ATTAAATTTTGGAAGTTTGAGGGTAAAATGTAATTTTTGGAAGTTTTGGGG
Found at i:26030936 original size:58 final size:59
Alignment explanation
Indices: 26030778--26031360 Score: 500
Period size: 58 Copynumber: 9.9 Consensus size: 59
26030768 AAAATAAAGA
* * * * *
26030778 TCAAAAATGGAATTTTTAGACA-TTCGGGGGT-AAAATGGTAATTTTT-GATAATTATGGGG
1 TCAAAAATGGAATTTTT-GAAAGTTTGGGGGTAAAAAT-GTAATTTTTGGA-AGTTTTAGGG
** * * * * *
26030837 TCAAAAATTAAACTTCTGGAAGTTCGAGGGT-AAAATGGTAATTTTTGGAAGTTTT-GGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAAT-GTAATTTTTGGAAGTTTTAGGG
* * * * *
26030895 TCAATAATGGAATTTTTGAAACTTCGGGGGTAAAAATGTAATTTTTGAAAGTTTTAAGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* * * * * * *
26030954 TTAAAAATGGAAGTTTTGGAAGTTTTGGGGTAAAGATGTAATTTTT-GAACTTTTGGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* * *
26031012 TCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTGGAAATTTTAGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* * * ** *
26031071 T-GAAAATTGAATTTTTAAAAGTTTGAAGGTAAAAATGTAATTTTTGGAAGTTTTGGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* * * * * *** *
26031129 TTAAAAATGGAA-TTTTGGAAGTTTGAGGATAAAATTGTAATTTTCAAAAGTTTTGGGG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
** * * *
26031187 TCAAAAATATAATTTTGGAGAAGTTTGGGGGT-CAAATGTAATTTTTAGAAGTTTTAGGG
1 TCAAAAATGGAATTTTTGA-AAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* * ** * * **
26031246 TTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAAATGTAATTTTTGAAAGTTTCAATG
1 TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
** * * *
26031305 TCAAAAATATAATTTTGGAGAAGTTTGGGGGTCAAAATATAATTTTTGGACAGTTT
1 TCAAAAATGGAATTTTTGA-AAGTTTGGGGGTAAAAATGTAATTTTTGGA-AGTTT
26031361 AAGGACCTCT
Statistics
Matches: 424, Mismatches: 89, Indels: 20
0.80 0.17 0.04
Matches are distributed among these distances:
58 199 0.47
59 183 0.43
60 37 0.09
61 5 0.01
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.37
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
Found at i:26030959 original size:29 final size:29
Alignment explanation
Indices: 26030863--26031299 Score: 284
Period size: 29 Copynumber: 15.0 Consensus size: 29
26030853 TGGAAGTTCG
*
26030863 AGGG-TAAAATGGTAATTTTTGGAAGTTTT
1 AGGGTTAAAAT-GTAATTTTTGAAAGTTTT
* * * **
26030892 -GGGTCAATAATGGAATTTTTGAAACTTCG
1 AGGGTTAA-AATGTAATTTTTGAAAGTTTT
* *
26030921 GGGGTAAAAATGTAATTTTTGAAAGTTTT
1 AGGGTTAAAATGTAATTTTTGAAAGTTTT
* * * *
26030950 AAGGTTAAAAATGGAAGTTTTGGAAGTTTT
1 AGGGTT-AAAATGTAATTTTTGAAAGTTTT
* *
26030980 -GGGGTAAAGATGTAATTTTTG-AACTTTT
1 AGGGTTAAA-ATGTAATTTTTGAAAGTTTT
* * * *
26031008 GGGGTCAAAAATGGAATTTTGGAAAG-TTT
1 AGGGT-TAAAATGTAATTTTTGAAAGTTTT
*
26031037 AGGGGTAAAAATGTAATTTTTGGAAA-TTTT
1 A-GGGTTAAAATGTAATTTTT-GAAAGTTTT
* * *
26031067 AGGGTGAAAAT-TGAATTTTTAAAAGTTTG
1 AGGGTTAAAATGT-AATTTTTGAAAGTTTT
* * *
26031096 AAGGTAAAAATGTAATTTTTGGAAGTTTT
1 AGGGTTAAAATGTAATTTTTGAAAGTTTT
* * * *
26031125 GGGGTTAAAAATGGAA-TTTTGGAAGTTTG
1 AGGGTT-AAAATGTAATTTTTGAAAGTTTT
* **
26031154 A-GGATAAAATTGTAATTTTCAAAAGTTTT
1 AGGGTTAAAA-TGTAATTTTTGAAAGTTTT
* * * *
26031183 GGGGTCAAAAATATAATTTTGGAGAAG-TTT
1 AGGGT-TAAAATGTAATTTTTGA-AAGTTTT
* * *
26031213 GGGGGTCAAATGTAATTTTT-AGAAGTTTT
1 AGGGTTAAAATGTAATTTTTGA-AAGTTTT
* * *
26031242 AGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 AGGGTT-AAAATGTAATTTTTGAAAGTTTT
*
26031272 AGGGTAAAAATGTAATTTTTGAAAGTTT
1 AGGGTTAAAATGTAATTTTTGAAAGTTT
26031300 CAATGTCAAA
Statistics
Matches: 315, Mismatches: 70, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
27 4 0.01
28 28 0.09
29 180 0.57
30 95 0.30
31 8 0.03
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
AGGGTTAAAATGTAATTTTTGAAAGTTTT
Found at i:26031310 original size:29 final size:30
Alignment explanation
Indices: 26030922--26031364 Score: 240
Period size: 30 Copynumber: 15.1 Consensus size: 30
26030912 GAAACTTCGG
*
26030922 GGGT-AAAAATGTAATTTTTGAAAGTTTTAA
1 GGGTAAAAAATGTAATTTTGGAAAG-TTTAA
* * **
26030952 -GGTTAAAAATGGAAGTTTTGG-AAGTTTTG
1 GGGTAAAAAATGTAA-TTTTGGAAAGTTTAA
* * * **
26030981 GGGT-AAAGATGTAATTTTTG-AACTTTTG
1 GGGTAAAAAATGTAATTTTGGAAAGTTTAA
* * *
26031009 GGGTCAAAAATGGAATTTTGGAAAGTTTAG
1 GGGTAAAAAATGTAATTTTGGAAAGTTTAA
*
26031039 GGGT-AAAAATGTAATTTTTGGAAA-TTTTA
1 GGGTAAAAAATGTAA-TTTTGGAAAGTTTAA
* * **
26031068 GGGTGAAAATTG-AATTTTTAAAAGTTTGAA
1 GGGTAAAAAATGTAATTTTGGAAAGTTT-AA
**
26031098 -GGT-AAAAATGTAATTTTTGG-AAGTTTTG
1 GGGTAAAAAATGTAA-TTTTGGAAAGTTTAA
* * *
26031126 GGGTTAAAAATGGAATTTTGG-AAGTTTGA
1 GGGTAAAAAATGTAATTTTGGAAAGTTTAA
* * ** **
26031155 GGAT-AAAATTGTAATTTTCAAAAGTTTTG
1 GGGTAAAAAATGTAATTTTGGAAAGTTTAA
* * **
26031184 GGGTCAAAAATATAATTTTGGAGAAGTTTGG
1 GGGTAAAAAATGTAATTTTGGA-AAGTTTAA
* * *
26031215 GGGT--CAAATGTAATTTT-TAGAAGTTTTA
1 GGGTAAAAAATGTAATTTTGGA-AAGTTTAA
* *
26031243 GGGTTAAAAATGGAATTTTGGAAAGTTTAA
1 GGGTAAAAAATGTAATTTTGGAAAGTTTAA
*
26031273 GGGT-AAAAATGTAATTTTTGAAAGTTTCAA
1 GGGTAAAAAATGTAATTTTGGAAAGTTT-AA
* * * **
26031303 -TGTCAAAAATATAATTTTGGAGAAGTTTGG
1 GGGTAAAAAATGTAATTTTGGA-AAGTTTAA
* * *
26031333 GGGT-CAAAATATAATTTTTGGACAGTTTAA
1 GGGTAAAAAATGTAA-TTTTGGAAAGTTTAA
26031363 GG
1 GG
26031365 ACCTCTAAGG
Statistics
Matches: 327, Mismatches: 62, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
28 53 0.16
29 120 0.37
30 122 0.37
31 32 0.10
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
GGGTAAAAAATGTAATTTTGGAAAGTTTAA
Found at i:26031360 original size:30 final size:30
Alignment explanation
Indices: 26030875--26031360 Score: 229
Period size: 29 Copynumber: 16.6 Consensus size: 30
26030865 GGTAAAATGG
*
26030875 TAATTTTTGG-AAGTTTT-GGGTCAATAATG
1 TAATTTTTGGAAAGTTTTGGGGTCAA-AATA
* * ** * *
26030904 GAATTTTT-GAAACTTCGGGGGTAAAAATG
1 TAATTTTTGGAAAGTTTTGGGGTCAAAATA
** *
26030933 TAATTTTT-GAAAGTTTTAAGGTTAAAA-A
1 TAATTTTTGGAAAGTTTTGGGGTCAAAATA
* *
26030961 TGGAAGTTTTGG-AAGTTTTGGGGT-AAAGATG
1 T--AATTTTTGGAAAGTTTTGGGGTCAAA-ATA
*
26030992 TAATTTTT-G-AACTTTTGGGGTCAAAA-A
1 TAATTTTTGGAAAGTTTTGGGGTCAAAATA
* * *
26031019 TGGAA-TTTTGGAAAGTTTAGGGGTAAAAATG
1 T--AATTTTTGGAAAGTTTTGGGGTCAAAATA
* *
26031050 TAATTTTTGGAAA-TTTTAGGGTGAAAAT-
1 TAATTTTTGGAAAGTTTTGGGGTCAAAATA
* * * *
26031078 TGAATTTTT-AAAAG-TTTGAAGGTAAAAATG
1 T-AATTTTTGGAAAGTTTTG-GGGTCAAAATA
*
26031108 TAATTTTTGG-AAGTTTTGGGGTTAAAA-A
1 TAATTTTTGGAAAGTTTTGGGGTCAAAATA
* *
26031136 TGGAA-TTTTGG-AAG-TTTGAGGAT-AAAATTG
1 T--AATTTTTGGAAAGTTTTG-GGGTCAAAA-TA
**
26031166 TAA-TTTTCAAAAGTTTTGGGGTCAAAAATA
1 TAATTTTTGGAAAGTTTTGGGGTC-AAAATA
* *
26031196 TAA-TTTTGGAGAAGTTTGGGGGTC-AAATG
1 TAATTTTTGGA-AAGTTTTGGGGTCAAAATA
* * *
26031225 TAATTTTTAG-AAGTTTTAGGGTTAAAA-A
1 TAATTTTTGGAAAGTTTTGGGGTCAAAATA
** * *
26031253 TGGAA-TTTTGGAAAGTTTAAGGGTAAAAATG
1 T--AATTTTTGGAAAGTTTTGGGGTCAAAATA
****
26031284 TAATTTTT-GAAAGTTTCAATGTCAAAAATA
1 TAATTTTTGGAAAGTTTTGGGGTC-AAAATA
*
26031314 TAA-TTTTGGAGAAGTTTGGGGGTCAAAATA
1 TAATTTTTGGA-AAGTTTTGGGGTCAAAATA
*
26031344 TAATTTTTGGACAGTTT
1 TAATTTTTGGAAAGTTT
26031361 AAGGACCTCT
Statistics
Matches: 352, Mismatches: 64, Indels: 81
0.71 0.13 0.16
Matches are distributed among these distances:
27 1 0.00
28 52 0.15
29 146 0.41
30 117 0.33
31 36 0.10
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.38
Consensus pattern (30 bp):
TAATTTTTGGAAAGTTTTGGGGTCAAAATA
Found at i:26032487 original size:16 final size:16
Alignment explanation
Indices: 26032466--26032503 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
26032456 ATAAAAAAAT
26032466 TTATTAATG-TTATTAA
1 TTATTAATGATTATT-A
*
26032482 TTATTATTGATTATTA
1 TTATTAATGATTATTA
26032498 TTATTA
1 TTATTA
26032504 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TTATTAATGATTATTA
Found at i:26032489 original size:3 final size:3
Alignment explanation
Indices: 26032475--26032509 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
26032465 TTTATTAATG
26032475 TTA TTAA TTA TTA TTGA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TT-A TTA TTA TTA TTA TTA TTA
26032510 AAAACAGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:26032494 original size:10 final size:9
Alignment explanation
Indices: 26032475--26032509 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
26032465 TTTATTAATG
26032475 TTATTAATTA
1 TTATT-ATTA
26032485 TTATTGATTA
1 TTATT-ATTA
26032495 TTATTATTA
1 TTATTATTA
26032504 TTATTA
1 TTATTA
26032510 AAAACAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (9 bp):
TTATTATTA
Found at i:26033370 original size:19 final size:17
Alignment explanation
Indices: 26033314--26033380 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
26033304 GTTTTAAATT
**
26033314 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAAAAAA
* *
26033332 ATTTAAGTTTAAAACAA
1 ATTTAAATTTAAAAAAA
26033349 ATTTAAATTTAAAAAATGA
1 ATTTAAATTTAAAAAA--A
26033368 ATTTAAATTTAAA
1 ATTTAAATTTAAA
26033381 TTTAGAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
17 24 0.57
18 4 0.10
19 14 0.33
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTTAAATTTAAAAAAA
Found at i:26033400 original size:25 final size:25
Alignment explanation
Indices: 26033347--26033400 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
26033337 AGTTTAAAAC
* *
26033347 AAATTTAAATTTAAAAAATGAATTT
1 AAATTTAAATTTAAAAAATAAATTA
*
26033372 AAATTTAAATTT-AGAAATAAATCTA
1 AAATTTAAATTTAAAAAATAAAT-TA
26033397 AAAT
1 AAAT
26033401 AATTTAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
AAATTTAAATTTAAAAAATAAATTA
Found at i:26034019 original size:49 final size:50
Alignment explanation
Indices: 26033962--26034303 Score: 182
Period size: 49 Copynumber: 6.9 Consensus size: 50
26033952 ATTTGAGTAG
* * *
26033962 GGAAAAGATCAAAACCGTGACGGTGAATCTTACACCCTAAAATTGAAA-A
1 GGAAAAGATTAAAGCCGTAACGGTGAATCTTACACCCTAAAATTGAAAGA
* * * *
26034011 GGAAAAGATTAAAGCTGCAATGGTGAACCTTACACCCTAAAATT-AAAGA
1 GGAAAAGATTAAAGCCGTAACGGTGAATCTTACACCCTAAAATTGAAAGA
* * * * *
26034060 GGCACAGATTAAAGTCATAACGGTGAATCTTACACCCTAAAACTG-AAGA
1 GGAAAAGATTAAAGCCGTAACGGTGAATCTTACACCCTAAAATTGAAAGA
* * ***
26034109 -GAGATAGATTAAAGTCGTAACAACGAATAC-TACACCCTAAAATT-AAA-A
1 GGA-AAAGATTAAAGCCGTAACGGTGAAT-CTTACACCCTAAAATTGAAAGA
* * * * * * * * *
26034157 AGAGACAGATTAAAGTCGCAATGATAAATCTTACACCCCTAAAACT-AAAAA
1 GGA-AAAGATTAAAGCCGTAACGGTGAATCTTACA-CCCTAAAATTGAAAGA
* * * * * ** * ***
26034208 GGGACAGGTTAAAGCTGTAATGGCAAATCTTACACCCTTAAACCCAAAGA
1 GGAAAAGATTAAAGCCGTAACGGTGAATCTTACACCCTAAAATTGAAAGA
* * * *
26034258 -GAGATAGTTTAAAGCCGCAAAGGTGAAT-TGTACACCCCTAAAATTG
1 GGA-AAAGATTAAAGCCGTAACGGTGAATCT-TACA-CCCTAAAATTG
26034304 TAGAGGGACA
Statistics
Matches: 227, Mismatches: 53, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
48 6 0.03
49 148 0.65
50 64 0.28
51 9 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (50 bp):
GGAAAAGATTAAAGCCGTAACGGTGAATCTTACACCCTAAAATTGAAAGA
Done.