Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 66 of 211
Found at i:20108051 original size:16 final size:16
Alignment explanation
Indices: 20108014--20108055 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20108004 TTAATCATAT
*
20108014 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
20108030 TT-AAATATATTATAA
1 TTAAAATATATTATAA
20108045 TTAAAATATAT
1 TTAAAATATAT
20108056 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:20108062 original size:14 final size:15
Alignment explanation
Indices: 20108023--20108064 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20108013 TTTAAACATA
*
20108023 ATTATTATTAAATAT
1 ATTATAATTAAATAT
20108038 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
20108052 A-TATAATTTAATA
1 ATTATAATTAAATA
20108065 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:20108147 original size:122 final size:121
Alignment explanation
Indices: 20108012--20108311 Score: 473
Period size: 122 Copynumber: 2.5 Consensus size: 121
20108002 TTTTAATCAT
*
20108012 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
20108077 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCAT-A-ATATATGAAACTAT-AAATGA-AA
20108136 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
20108199 ATTAATTTTCTTATATGAATTTACTCAAATCATAATATATGAAACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGAAACTATAAATGAAA
* * *
20108255 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
20108312 TAAAATAATT
Statistics
Matches: 167, Mismatches: 6, Indels: 10
0.91 0.03 0.05
Matches are distributed among these distances:
119 7 0.04
120 62 0.37
121 3 0.02
122 92 0.55
123 2 0.01
124 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGAAACTATAAATGAAA
Found at i:20108184 original size:14 final size:15
Alignment explanation
Indices: 20108135--20108186 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20108125 GTAAAATATA
20108135 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
20108150 TATTAAATATATTAT
1 AATTAAATATATTAT
20108165 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
20108178 AATTTAATA
1 AATTAAATA
20108187 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:20108236 original size:61 final size:61
Alignment explanation
Indices: 20108049--20108238 Score: 178
Period size: 61 Copynumber: 3.1 Consensus size: 61
20108039 TTATAATTAA
*
20108049 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATTTTCTTATATGAATTTACTCAAATCAT
* * * * * * *
20108110 AATATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T--AAT
1 AATATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAATT-TTCTTATATGAAT-TTACTCAAAT
* *
20108168 TAA
59 CAT
20108171 AATATATAATTTAATAAAATTCTTAATAATTAATTTTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATTTTCTTATATGAATTTACTCAAATCAT
20108232 AATATAT
1 AATATAT
20108239 GAAACTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
57 7 0.07
58 8 0.08
59 11 0.11
60 6 0.06
61 33 0.34
62 6 0.06
63 11 0.11
64 7 0.07
65 7 0.07
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATTTTCTTATATGAATTTACTCAAATCAT
Found at i:20108398 original size:24 final size:25
Alignment explanation
Indices: 20108352--20108399 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
20108342 TATGAATTTG
20108352 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
20108378 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
20108400 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:20111981 original size:25 final size:25
Alignment explanation
Indices: 20111953--20112123 Score: 198
Period size: 25 Copynumber: 7.1 Consensus size: 25
20111943 TTAATAAAAT
20111953 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
* *
20111978 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAAT-TATTG
20112001 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
* *
20112026 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAAT-TATTG
20112049 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
* *
20112074 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAAT-TATTG
20112097 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
20112122 AT
1 AT
20112124 GTAGTTTTTA
Statistics
Matches: 122, Mismatches: 12, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
23 54 0.44
24 12 0.10
25 56 0.46
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (25 bp):
ATTAAAGTCCTTATTTTAATTATTG
Found at i:20111988 original size:23 final size:23
Alignment explanation
Indices: 20111958--20112128 Score: 177
Period size: 23 Copynumber: 7.1 Consensus size: 23
20111948 AAAATATTAA
20111958 AGTCCTTATTTTAATTATTGATT
1 AGTCCTTATTTTAATTATTGATT
* *
20111981 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAAT-TATTGATT
20112004 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAATTATTGATT
* *
20112029 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAAT-TATTGATT
20112052 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAATTATTGATT
* *
20112077 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAAT-TATTGATT
20112100 AAAGTCCTTATTTTAATTATTGATGT
1 --AGTCCTTATTTTAATTATTGAT-T
20112126 AGT
1 AGT
20112129 TTTTAAAATC
Statistics
Matches: 123, Mismatches: 12, Indels: 25
0.77 0.08 0.16
Matches are distributed among these distances:
23 54 0.44
24 15 0.12
25 53 0.43
26 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (23 bp):
AGTCCTTATTTTAATTATTGATT
Found at i:20111993 original size:48 final size:48
Alignment explanation
Indices: 20111941--20112128 Score: 367
Period size: 48 Copynumber: 3.9 Consensus size: 48
20111931 ATTTCTTGAT
20111941 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
20111989 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
20112037 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
20112085 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATGTAGT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT-TAGT
20112129 TTTTAAAATC
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
48 135 0.97
49 4 0.03
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (48 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:20115182 original size:42 final size:42
Alignment explanation
Indices: 20115123--20115202 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
20115113 GAAAAGTTAA
20115123 AAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACATTATG
1 AAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACATTATG
* *
20115165 AAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 AAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
20115203 GCATGGATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (42 bp):
AAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACATTATG
Found at i:20119666 original size:23 final size:23
Alignment explanation
Indices: 20119640--20119726 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 23
20119630 AAGTTAAAAT
20119640 AGTGAAGAGACTTGAATATGAAG
1 AGTGAAGAGACTTGAATATGAAG
* *
20119663 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAG
* * * *
20119686 AGT-TACACAC---ATTATGAAG
1 AGTGAAGAGACTTGAATATGAAG
20119705 AGTGAAGAGACTTGAATATGAA
1 AGTGAAGAGACTTGAATATGAA
20119727 AAGTTATACA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
19 9 0.19
20 4 0.08
22 4 0.08
23 31 0.65
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAG
Found at i:20119715 original size:42 final size:42
Alignment explanation
Indices: 20119656--20119739 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
20119646 GAGACTTGAA
20119656 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
20119698 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
20119740 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:20124413 original size:6 final size:6
Alignment explanation
Indices: 20124402--20124428 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20124392 AAATGAAACA
20124402 TTTAGG TTTAGG TTTAGG TTTAGG TTT
1 TTTAGG TTTAGG TTTAGG TTTAGG TTT
20124429 TTTTTTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (6 bp):
TTTAGG
Found at i:20125150 original size:27 final size:27
Alignment explanation
Indices: 20125108--20125160 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
20125098 ATTATTTTAT
20125108 ATTTTTATATATGTATATATA-ATATG
1 ATTTTTATATATGTATATATATATATG
*
20125134 ATTTTTA-ATATGCGTATGTATATATAT
1 ATTTTTATATAT--GTATATATATATAT
20125161 AATAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.17
26 7 0.30
27 8 0.35
28 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (27 bp):
ATTTTTATATATGTATATATATATATG
Found at i:20126835 original size:587 final size:587
Alignment explanation
Indices: 20125723--20126892 Score: 2340
Period size: 587 Copynumber: 2.0 Consensus size: 587
20125713 TTCAATTCTT
20125723 CTCAATGAATTTAGATGATCAAGTATTCATTTTGGTAAAACCATACAATTTTAAAATAAAGCTTT
1 CTCAATGAATTTAGATGATCAAGTATTCATTTTGGTAAAACCATACAATTTTAAAATAAAGCTTT
20125788 TGAGACTTCAAAATGTTGGATCCTAACTTATTGGATATGATATTTTGTTGTCTCAATTTTAAAAT
66 TGAGACTTCAAAATGTTGGATCCTAACTTATTGGATATGATATTTTGTTGTCTCAATTTTAAAAT
20125853 AAAGGCAATATTTGAGGTTTAAGAATTTCAAGAAATTGAACCCTAACTTACTGGATTCTGATTTC
131 AAAGGCAATATTTGAGGTTTAAGAATTTCAAGAAATTGAACCCTAACTTACTGGATTCTGATTTC
20125918 TCGATTGACTTAAACAATCAAGTAACCTTCTTTAAACTCATGACTTTCATAAAAAAAGAACACAT
196 TCGATTGACTTAAACAATCAAGTAACCTTCTTTAAACTCATGACTTTCATAAAAAAAGAACACAT
20125983 TTAATTTCGAAGATAGAATTGTAACACCCTAACTCACTGGGTGTGATAATTTATTTCTTCGAAAT
261 TTAATTTCGAAGATAGAATTGTAACACCCTAACTCACTGGGTGTGATAATTTATTTCTTCGAAAT
20126048 AAGTGCGTCTTATCATTCAATCTAGTTTATTCAAGTTTTCTCATCAAGGAGCGTATTTTAAAATC
326 AAGTGCGTCTTATCATTCAATCTAGTTTATTCAAGTTTTCTCATCAAGGAGCGTATTTTAAAATC
20126113 TTTTCAAGGTTTCGACATTAAGACATTAAGCAATTAATTCGGTACCAATTTTGGGCGTTATGAGG
391 TTTTCAAGGTTTCGACATTAAGACATTAAGCAATTAATTCGGTACCAATTTTGGGCGTTATGAGG
20126178 GTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACTTATTTTCTCAAAATTTGCAGACCAAAA
456 GTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACTTATTTTCTCAAAATTTGCAGACCAAAA
20126243 TCATTTTTAATGGTGAACCGGTCATACCTTAATAAAAGATCGGTGGCGACTCCATTTTCAAAACA
521 TCATTTTTAATGGTGAACCGGTCATACCTTAATAAAAGATCGGTGGCGACTCCATTTTCAAAACA
20126308 AA
586 AA
20126310 CTCAATGAATTTAGATGATCAAGTATTCATTTTGGTAAAACCATACAATTTTAAAATAAAGCTTT
1 CTCAATGAATTTAGATGATCAAGTATTCATTTTGGTAAAACCATACAATTTTAAAATAAAGCTTT
20126375 TGAGACTTCAAAATGTTGGATCCTAACTTATTGGATATGATATTTTGTTGTCTCAATTTTAAAAT
66 TGAGACTTCAAAATGTTGGATCCTAACTTATTGGATATGATATTTTGTTGTCTCAATTTTAAAAT
20126440 AAAGGCAATATTTGAGGTTTAAGAATTTCAAGAAATTGAACCCTAACTTACTGGATTCTGATTTC
131 AAAGGCAATATTTGAGGTTTAAGAATTTCAAGAAATTGAACCCTAACTTACTGGATTCTGATTTC
20126505 TCGATTGACTTAAACAATCAAGTAACCTTCTTTAAACTCATGACTTTCATAAAAAAAGAACACAT
196 TCGATTGACTTAAACAATCAAGTAACCTTCTTTAAACTCATGACTTTCATAAAAAAAGAACACAT
20126570 TTAATTTCGAAGATAGAATTGTAACACCCTAACTCACTGGGTGTGATAATTTATTTCTTCGAAAT
261 TTAATTTCGAAGATAGAATTGTAACACCCTAACTCACTGGGTGTGATAATTTATTTCTTCGAAAT
20126635 AAGTGCGTCTTATCATTCAATCTAGTTTATTCAAGTTTTCTCATCAAGGAGCGTATTTTAAAATC
326 AAGTGCGTCTTATCATTCAATCTAGTTTATTCAAGTTTTCTCATCAAGGAGCGTATTTTAAAATC
20126700 TTTTCAAGGTTTCGACATTAAGACATTAAGCAATTAATTCGGTACCAATTTTGGGCGTTATGAGG
391 TTTTCAAGGTTTCGACATTAAGACATTAAGCAATTAATTCGGTACCAATTTTGGGCGTTATGAGG
20126765 GTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACTTATTTTCTCAAAATTTGCAGACCAAAA
456 GTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACTTATTTTCTCAAAATTTGCAGACCAAAA
20126830 TCATTTTTAATGGTGAACCGGTCATACCTTAATAAAAGATCGGTGGCGACTCCATTTTCAAAA
521 TCATTTTTAATGGTGAACCGGTCATACCTTAATAAAAGATCGGTGGCGACTCCATTTTCAAAA
20126893 TCGATTCCCA
Statistics
Matches: 583, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
587 583 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (587 bp):
CTCAATGAATTTAGATGATCAAGTATTCATTTTGGTAAAACCATACAATTTTAAAATAAAGCTTT
TGAGACTTCAAAATGTTGGATCCTAACTTATTGGATATGATATTTTGTTGTCTCAATTTTAAAAT
AAAGGCAATATTTGAGGTTTAAGAATTTCAAGAAATTGAACCCTAACTTACTGGATTCTGATTTC
TCGATTGACTTAAACAATCAAGTAACCTTCTTTAAACTCATGACTTTCATAAAAAAAGAACACAT
TTAATTTCGAAGATAGAATTGTAACACCCTAACTCACTGGGTGTGATAATTTATTTCTTCGAAAT
AAGTGCGTCTTATCATTCAATCTAGTTTATTCAAGTTTTCTCATCAAGGAGCGTATTTTAAAATC
TTTTCAAGGTTTCGACATTAAGACATTAAGCAATTAATTCGGTACCAATTTTGGGCGTTATGAGG
GTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACTTATTTTCTCAAAATTTGCAGACCAAAA
TCATTTTTAATGGTGAACCGGTCATACCTTAATAAAAGATCGGTGGCGACTCCATTTTCAAAACA
AA
Found at i:20129159 original size:153 final size:144
Alignment explanation
Indices: 20128915--20129662 Score: 677
Period size: 153 Copynumber: 5.2 Consensus size: 144
20128905 TTTTAAAAAC
* *
20128915 AGAGAAAGTTTAGATTTTAAAAAATAAAAAAAATATGTTTTTTAGTCATTTTAAAGGAAATTTTA
1 AGAGAAAGTTTAGA-TTT--AAAA-AAAAAAAATGTTTTTTTTAGTCATTTTAAAGGAAA-TTTA
* *
20128980 AAATTTTAAAAC-AAAGTTTGATTTTTTTTCAGCTATTTCAAAATAAAAACTTTGATCTTTAAGA
61 AAATTTTAAAACAAAATTTTGA-TTTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGA
20129044 AAAATAGTTTTTTTTTATATAAAA
125 AAAATAG-TTTTTTTT-T-T-AAA
20129068 AGAGAAAGTTTAGATTTAAAAAAAATGAAAACCTGTTTTTTTTAGTCATTTTAAAGGAAAGTTTA
1 AGAGAAAGTTTAGATTTAAAAAAAA--AAAA--TGTTTTTTTTAGTCATTTTAAAGGAAA-TTTA
* *
20129133 AAATTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAATAA
61 AAATTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGAA
*
20129198 AAGTAGTGTTTTTTTTT-AA
126 AAATAGT-TTTTTTTTTAAA
** * **
20129217 AGAGAAAGTTTAGATTTAAAAAAAAAATCTGCTTTTTTTAGTCATTTTAAATTTAAATTT-AAA-
1 AGAGAAAGTTTAGATTTAAAAAAAAAAAATGTTTTTTTTAGTCATTTTAAA-GGAAATTTAAAAT
* *
20129280 TTT-AAA-AAAA--TTGATTTTTTACAACTATTTCAAAATAAAAGA-TTTGATCTTTAACAAAAA
65 TTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAA-ACTTTGATCTTTAAGAAAAA
20129340 TAG--TTTTTTTTAAA
129 TAGTTTTTTTTTTAAA
* * * * **
20129354 AGAGAAAGTTTAGATTTTTAAATAAAAATATG-TTTTTTTAGTTATTTTAAATTTAAA-TT-AAA
1 AGAGAAAGTTTAGA-TTTAAAAAAAAAAAATGTTTTTTTTAGTCATTTTAAA-GGAAATTTAAAA
* **
20129416 TTTT--------TTTTTGATTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAAGAAAAA
64 TTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAAAA
20129473 TAGTTTTTTTTTTAAA
129 TAGTTTTTTTTTTAAA
* ** * * * *
20129489 ATAGAAAGTTTAGATTTCTAAAATAAAAATATGTTTATTAGTCATTTTAAAGGAAAATTTTAGAT
1 AGAGAAAGTTTAGATTTAAAAAAAAAAAATGTTTTTTTTAGTCATTTTAAAGG-AAA-TTTA-A-
** * * ** ** * *
20129554 TTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGTC-TTGATTTTTTTA-AA
62 AATTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAAACTTTGA-TCTTTAAGAA
**
20129617 AAATAGTGATTTTTTT-AA
126 AAATAGTTTTTTTTTTAAA
* * *
20129635 AGA-AAACTTT-GATTTTACAAAAAAAAAT
1 AGAGAAAGTTTAGATTTAAAAAAAAAAAAT
20129663 CCGACCACAG
Statistics
Matches: 507, Mismatches: 56, Indels: 73
0.80 0.09 0.11
Matches are distributed among these distances:
133 49 0.10
134 11 0.02
135 43 0.08
136 13 0.03
137 45 0.09
138 14 0.03
139 49 0.10
140 4 0.01
141 4 0.01
142 3 0.01
143 3 0.01
144 17 0.03
145 30 0.06
146 7 0.01
147 22 0.04
148 33 0.07
149 31 0.06
150 4 0.01
151 5 0.01
152 5 0.01
153 107 0.21
154 8 0.02
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (144 bp):
AGAGAAAGTTTAGATTTAAAAAAAAAAAATGTTTTTTTTAGTCATTTTAAAGGAAATTTAAAATT
TTAAAACAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAAAATA
GTTTTTTTTTTAAA
Found at i:20130714 original size:31 final size:29
Alignment explanation
Indices: 20130632--20130725 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 29
20130622 CCTTAGAAAA
*
20130632 ATTATAAATAATATGTAAGATATTTTTTTAGG
1 ATTATAACTAATATGTAA-ATA--TTTTTAGG
* * *
20130664 GTTTTAAACTAAT-TTTAAATATTTTATAGG
1 ATTAT-AACTAATATGTAAATATTTT-TAGG
20130694 ATTATAATCTAATATGTAAATATTCTTTAGG
1 ATTATAA-CTAATATGTAAATATT-TTTAGG
20130725 A
1 A
20130726 CTTTATTCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
29 6 0.12
30 12 0.24
31 17 0.34
32 9 0.18
33 6 0.12
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (29 bp):
ATTATAACTAATATGTAAATATTTTTAGG
Found at i:20131696 original size:18 final size:19
Alignment explanation
Indices: 20131673--20131709 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20131663 AAGTTAAAGT
20131673 ATTACTTAAACT-AATTAA
1 ATTACTTAAACTAAATTAA
*
20131691 ATTACTTAACCTAAATTAA
1 ATTACTTAAACTAAATTAA
20131710 CTTGATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTACTTAAACTAAATTAA
Found at i:20142928 original size:50 final size:51
Alignment explanation
Indices: 20142834--20142929 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 51
20142824 TGGTTTTGGC
* * *
20142834 GTGTTTCTAGGGGGATGTAAAGCCTACGGGCTCGGCACTTGGTGCCCAAAT
1 GTGTTTCTAGGGGGATGTAAAGCCTACGGGCTAGACACTAGGTGCCCAAAT
*
20142885 GTGTTTCT-GGAGGGATGT-TAGCCTACGGGCTAGACACTAGGTGCC
1 GTGTTTCTAGG-GGGATGTAAAGCCTACGGGCTAGACACTAGGTGCC
20142930 ATGGCATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 25 0.62
51 15 0.38
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (51 bp):
GTGTTTCTAGGGGGATGTAAAGCCTACGGGCTAGACACTAGGTGCCCAAAT
Found at i:20151402 original size:3 final size:3
Alignment explanation
Indices: 20151388--20151428 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
20151378 TCCTCAAGAC
*
20151388 CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
20151429 CTTCTTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (3 bp):
CAT
Found at i:20153397 original size:6 final size:7
Alignment explanation
Indices: 20153382--20153407 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20153372 TAAAGAGCTC
20153382 TTTTCTT
1 TTTTCTT
20153389 TTTTCTT
1 TTTTCTT
20153396 TTTTCTT
1 TTTTCTT
20153403 TTTTC
1 TTTTC
20153408 ATGTATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:20166792 original size:18 final size:18
Alignment explanation
Indices: 20166771--20166813 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
20166761 ATAATTTAAA
20166771 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
20166789 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
20166807 ATGTAAA
1 ATATAAA
20166814 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:20178331 original size:78 final size:78
Alignment explanation
Indices: 20178202--20178361 Score: 257
Period size: 78 Copynumber: 2.1 Consensus size: 78
20178192 GGGAGCAACA
* * *
20178202 AGAAAGTTTTTAGAAGCTTAAGTTCGTGCTAACTCAAGCACCTGTTTTGATCTAGCCTAAGTCTG
1 AGAAAGTTTTTAGAAGCTTAAGTTCGTGCTAACTCAAGCACCTGTTTTGATCCAACCTAAGTCTA
20178267 GGAAGGACTATAT
66 GGAAGGACTATAT
** * *
20178280 AGAAAGTTTTTAGAAGCTTAAGTTCGTTTTGACTCAAGCACCTGTTTTGATCCAACCTGAGTCTA
1 AGAAAGTTTTTAGAAGCTTAAGTTCGTGCTAACTCAAGCACCTGTTTTGATCCAACCTAAGTCTA
20178345 GGAAGGACTATAT
66 GGAAGGACTATAT
20178358 AGAA
1 AGAA
20178362 TACAATGATG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (78 bp):
AGAAAGTTTTTAGAAGCTTAAGTTCGTGCTAACTCAAGCACCTGTTTTGATCCAACCTAAGTCTA
GGAAGGACTATAT
Found at i:20183215 original size:24 final size:22
Alignment explanation
Indices: 20183172--20183225 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 22
20183162 TAATATTTTA
*
20183172 ATTTATAATATTAATTTTAAAT
1 ATTTATAATATTAATATTAAAT
*
20183194 ATTTATAAGTAATTAATATTAATT
1 ATTTATAA-T-ATTAATATTAAAT
20183218 ATTTATAA
1 ATTTATAA
20183226 AATTTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 8 0.29
23 1 0.04
24 19 0.68
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTATAATATTAATATTAAAT
Found at i:20183261 original size:24 final size:22
Alignment explanation
Indices: 20183227--20183278 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
20183217 TATTTATAAA
* *
20183227 ATTTAATTATAATATATAAACTAT
1 ATTTAAATATAAAAT-TAAA-TAT
20183251 ATTTAAATATAAAATTAAATAT
1 ATTTAAATATAAAATTAAATAT
*
20183273 TTTTAA
1 ATTTAA
20183279 TTAGATATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.32
23 4 0.16
24 13 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTAAATATAAAATTAAATAT
Found at i:20186337 original size:142 final size:142
Alignment explanation
Indices: 20186081--20186366 Score: 572
Period size: 142 Copynumber: 2.0 Consensus size: 142
20186071 AAACCATTCT
20186081 GATAAGATAGAAAAACAAAAGCAAAGCAGAGCAAAGCAGCAGAGGCACAAAGCAGTAAAGCAAAA
1 GATAAGATAGAAAAACAAAAGCAAAGCAGAGCAAAGCAGCAGAGGCACAAAGCAGTAAAGCAAAA
20186146 GAGGCACAAAAGCCAAAAATTTCCCTCTTTCAAAGCTATTTTTTTTACTTACCTATAGAAAAGGA
66 GAGGCACAAAAGCCAAAAATTTCCCTCTTTCAAAGCTATTTTTTTTACTTACCTATAGAAAAGGA
20186211 ACTAATTACAGA
131 ACTAATTACAGA
20186223 GATAAGATAGAAAAACAAAAGCAAAGCAGAGCAAAGCAGCAGAGGCACAAAGCAGTAAAGCAAAA
1 GATAAGATAGAAAAACAAAAGCAAAGCAGAGCAAAGCAGCAGAGGCACAAAGCAGTAAAGCAAAA
20186288 GAGGCACAAAAGCCAAAAATTTCCCTCTTTCAAAGCTATTTTTTTTACTTACCTATAGAAAAGGA
66 GAGGCACAAAAGCCAAAAATTTCCCTCTTTCAAAGCTATTTTTTTTACTTACCTATAGAAAAGGA
20186353 ACTAATTACAGA
131 ACTAATTACAGA
20186365 GA
1 GA
20186367 AGAAGAAGAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 144 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.18
Consensus pattern (142 bp):
GATAAGATAGAAAAACAAAAGCAAAGCAGAGCAAAGCAGCAGAGGCACAAAGCAGTAAAGCAAAA
GAGGCACAAAAGCCAAAAATTTCCCTCTTTCAAAGCTATTTTTTTTACTTACCTATAGAAAAGGA
ACTAATTACAGA
Found at i:20205500 original size:21 final size:21
Alignment explanation
Indices: 20205466--20205536 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
20205456 TATGGATTTA
* *
20205466 GGGA-TTATTGTTTAAGGGTT
1 GGGATTTAATGTTTAGGGGTT
20205486 GGGATTTAATGTTTAGGGGTT
1 GGGATTTAATGTTTAGGGGTT
**
20205507 ATGATTTAATGTTTAGGGGTT
1 GGGATTTAATGTTTAGGGGTT
*
20205528 AGGGGTTTA
1 -GGGATTTA
20205537 GGGGTTAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 4 0.10
21 33 0.79
22 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (21 bp):
GGGATTTAATGTTTAGGGGTT
Found at i:20205529 original size:7 final size:7
Alignment explanation
Indices: 20205519--20205567 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
20205509 GATTTAATGT
20205519 TTAGGGG
1 TTAGGGG
20205526 TTAGGGG
1 TTAGGGG
20205533 TTTAGGGG
1 -TTAGGGG
**
20205541 TTAGATG
1 TTAGGGG
20205548 TTAGGGG
1 TTAGGGG
* *
20205555 TTAAGAG
1 TTAGGGG
20205562 TTAGGG
1 TTAGGG
20205568 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:20205537 original size:15 final size:15
Alignment explanation
Indices: 20205517--20205582 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
20205507 ATGATTTAAT
*
20205517 GTTTAGGGGTTAGGG
1 GTTTAGGGGTTAGAG
*
20205532 GTTTAGGGGTTAGAT
1 GTTTAGGGGTTAGAG
20205547 G-TTAGGGGTTA-AG
1 GTTTAGGGGTTAGAG
*
20205560 AG-TTAGGGATTTA-AG
1 -GTTTAGGG-GTTAGAG
20205575 GTTTAGGG
1 GTTTAGGG
20205583 ATTCAGGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
13 1 0.02
14 18 0.41
15 25 0.57
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (15 bp):
GTTTAGGGGTTAGAG
Found at i:20206394 original size:107 final size:106
Alignment explanation
Indices: 20206172--20206889 Score: 353
Period size: 107 Copynumber: 6.3 Consensus size: 106
20206162 TAAAAACCAA
*
20206172 AATAGCAAAACGGCGTCACTTTGTTCAAAATGAAATAGCGGCGTTTTTAATAAAAACGCTGCAAA
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAATAGCGGCGTTTTTAATAAAAACGCTGCAAA
*
20206237 AAATAAATCAATATATAAAAAAATAAAATAAAAAATTTTAG
66 AAATAAATCAAAATATAAAAAAATAAAATAAAAAATTTTAG
* * *
20206278 CATAGCAAAACAGCGTCAATTTGTTCAAAAT-AAATAGCGGCGTTTTTTTTATAAAAACGCCT-C
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAATAGCGGCG--TTTTTAATAAAAACG-CTGC
* *
20206341 AAAAAAATAAATCAAAATAT-AAAAAA-CAGATAAAAAAATTTTAG
63 -AAAAAATAAATCAAAATATAAAAAAATAAAAT-AAAAAATTTTAG
* * * * * *
20206385 AATAGCAAAACGGCTTCATTTTGTTAAAAATGAAAAAATTTTGTGGCGTTTTT-CTCAAAAACGC
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATG---AAA--TAGCGGCGTTTTTAAT-AAAAA---
** * *
20206449 CGCTAAAGGTAAGCAATAGAAAATAAATCAATTTATAAAAAATTAAAATATAAAATTTTTAG
57 CGC------T--GC-A-A-AAAATAAATCAAAATATAAAAAAATAAAATA-AAAAATTTTAG
* * * * * * *
20206511 CATAGCAAAACGGCGACATTTTGTTCCAAATGAAAATTTTTTTGTCAATAGTG-GCGTTTTTATA
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATG-AAA-----TAG-C----G-GCG-TTTTTAATA
* ** *
20206575 AAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAAATAAAA-AAAAAATTTAAG
53 AA-AACGCTGCAAAAAATAAATCAAAATA-TAAAAAAATAAAATAAAAAATTTTAG
* * ** * * * ** * *
20206630 CATAACAAAACGGTATCATTTTGTTTAAAGTGAAATAGCGGCGTTTTTTTTAAAAACTCCGC--A
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAATAGCGGCGTTTTTAATAAAAACGCTGCAAA
** *
20206693 AAATAAATCAATTTATAAAAAAA-AAATAAAAAAAATTTTAG
66 AAATAAATCAAAATATAAAAAAATAAA-ATAAAAAATTTTAG
* * *
20206734 AATAGCAAAACGGCGTCATTTTGTTCAAAATAAAAAAATTTTACGGCAATAGCGGCGCTTTT-AT
1 AATAGCAAAACGGCGTCAATTTGTTC--------AAAA---T---GAAATAGCGGCGTTTTTAAT
* * * *
20206798 AAAAGCGCCGCAAAAAATAAAT-AAATTTATAAAAAATTAAAATAAAAAATTTTTAG
52 AAAAACGCTGCAAAAAATAAATCAAA-ATATAAAAAAATAAAATAAAAAA-TTTTAG
* * * *
20206854 CATAACAAAACGGCGTCATTTTGTTCCAAATGAAAT
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAAT
20206890 TTTTTTGAGG
Statistics
Matches: 485, Mismatches: 63, Indels: 128
0.72 0.09 0.19
Matches are distributed among these distances:
102 3 0.01
103 9 0.02
104 48 0.10
105 11 0.02
106 42 0.09
107 69 0.14
108 22 0.05
109 1 0.00
110 1 0.00
111 13 0.03
112 7 0.01
113 9 0.02
114 2 0.00
115 1 0.00
117 10 0.02
118 20 0.04
119 61 0.13
120 50 0.10
121 13 0.03
122 4 0.01
123 3 0.01
124 19 0.04
125 6 0.01
126 40 0.08
127 5 0.01
131 3 0.01
132 2 0.00
133 8 0.02
134 3 0.01
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (106 bp):
AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAATAGCGGCGTTTTTAATAAAAACGCTGCAAA
AAATAAATCAAAATATAAAAAAATAAAATAAAAAATTTTAG
Found at i:20206714 original size:104 final size:105
Alignment explanation
Indices: 20206557--20206758 Score: 282
Period size: 104 Copynumber: 1.9 Consensus size: 105
20206547 TTTTTTTGTC
* *
20206557 AATAGTGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAAATAA-AAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGC-AAAAATAAATCAATTTA-TAAAAAAAAAATAAAAA
* *
20206621 AAATTTAAGCATAACAAAACGGTATCATTTTGTTTAAAGTGA
64 AAATTTAAGAATAACAAAACGGCATCATTTTGTTTAAAGTGA
* * *
20206663 AATAGCGGCGTTTTTTTTAAAAACTCCGC-AAAATAAATCAATTTATAAAAAAAAAATAAAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAAAATAAAAAAA
* * *
20206727 ATTTTAGAATAGCAAAACGGCGTCATTTTGTT
66 ATTTAAGAATAACAAAACGGCATCATTTTGTT
20206759 CAAAATAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 10 0.12
104 50 0.59
106 25 0.29
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.29
Consensus pattern (105 bp):
AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAAAATAAAAAAA
ATTTAAGAATAACAAAACGGCATCATTTTGTTTAAAGTGA
Found at i:20206819 original size:223 final size:224
Alignment explanation
Indices: 20206468--20206878 Score: 596
Period size: 224 Copynumber: 1.8 Consensus size: 224
20206458 TAAGCAATAG
* * *
20206468 AAAATAAATCAATTTATAAAAAATTAAAATATAAAATTTTTAGCATAGCAAAACGGCGACATTTT
1 AAAATAAATCAATTTATAAAAAA-TAAAATAAAAAAATTTTAGAATAGCAAAACGGCGACATTTT
* * * ** * * * *
20206533 GTTCCAAATGAAAATTTTTTTGTCAATAGTGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATC
65 GTTCAAAATAAAAAATTTTACGGCAATAGCGGCGCTTTTATAAAAAACGCCGCAAAAAATAAATA
*
20206598 AATTTATTAAAAAAATAAAA-AAAAAA-TTTAAGCATAACAAAACGGTATCATTTTGTTTAAAGT
130 AATTTA-TAAAAAAATAAAATAAAAAATTTTAAGCATAACAAAACGGCATCATTTTGTTTAAAGT
20206661 GAAATAGCGGCGTTTTTTTTAAAAACTCCGC
194 GAAATAGCGGCGTTTTTTTTAAAAACTCCGC
*
20206692 AAAATAAATCAATTTATAAAAAA-AAAATAAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTT
1 AAAATAAATCAATTTATAAAAAATAAAAT-AAAAAAATTTTAGAATAGCAAAACGGCGACATTTT
*
20206756 GTTCAAAATAAAAAAATTTTACGGCAATAGCGGCGCTTTTAT-AAAAGCGCCGCAAAAAATAAAT
65 GTTCAAAAT-AAAAAATTTTACGGCAATAGCGGCGCTTTTATAAAAAACGCCGCAAAAAATAAAT
* * *
20206820 AAATTTATAAAAAATTAAAATAAAAAATTTTTAGCATAACAAAACGGCGTCATTTTGTT
129 AAATTTATAAAAAAATAAAATAAAAAATTTTAAGCATAACAAAACGGCATCATTTTGTT
20206879 CCAAATGAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
222 17 0.10
223 72 0.44
224 76 0.46
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (224 bp):
AAAATAAATCAATTTATAAAAAATAAAATAAAAAAATTTTAGAATAGCAAAACGGCGACATTTTG
TTCAAAATAAAAAATTTTACGGCAATAGCGGCGCTTTTATAAAAAACGCCGCAAAAAATAAATAA
ATTTATAAAAAAATAAAATAAAAAATTTTAAGCATAACAAAACGGCATCATTTTGTTTAAAGTGA
AATAGCGGCGTTTTTTTTAAAAACTCCGC
Found at i:20208104 original size:13 final size:13
Alignment explanation
Indices: 20208086--20208111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20208076 ACCTCGCAGG
20208086 TAATTTAACCAAA
1 TAATTTAACCAAA
20208099 TAATTTAACCAAA
1 TAATTTAACCAAA
20208112 AAGCAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTTAACCAAA
Found at i:20210276 original size:43 final size:43
Alignment explanation
Indices: 20210215--20210299 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
20210205 CAATGATGTA
* * *
20210215 CAAGATTTTCTTGATTAAGTAAATGTATTATATATTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
* *
20210258 CAAGATTTACTTGATTAAGAAAATGCATTTTATGTTTTATTA
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTA
20210300 TCTTGCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
Found at i:20210610 original size:43 final size:43
Alignment explanation
Indices: 20210563--20210831 Score: 315
Period size: 43 Copynumber: 6.3 Consensus size: 43
20210553 GATATGTTTT
** *
20210563 TAGCGGCGTTTGTGTAAAAAGCGTTGTTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
20210606 TAGCGGCGTTTGTAG-AGAAAGCGCCGTTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGT-GTAAAAAGCGCCGCTAAAGGTCTTGATCTA
** * *
20210649 TAGCGGCGTTTGTGTGGAAAGCGCCGCTAAATGTATTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * *
20210692 TAGCGGCGTTTATGTGAAAAGTGCCGTTAAAGGTATTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
20210735 TAGCAGCGTTTGTGAAAAAATCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
20210778 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCGA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
20210821 TAGCGGCGTTT
1 TAGCGGCGTTT
20210832 ATTTCTATAA
Statistics
Matches: 195, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 193 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:20210799 original size:129 final size:128
Alignment explanation
Indices: 20210563--20210833 Score: 350
Period size: 129 Copynumber: 2.1 Consensus size: 128
20210553 GATATGTTTT
* ** * * *
20210563 TAGCGGCGTTTGTGTAAAAAGCGTTGTTAAAGGTCTTGATCTATAGCGGCGTTTGTAGAGAAAGC
1 TAGCGGCGTTTATGTAAAAAGCGCCGTTAAAGGTATTGATCTATAGCAGCGTTTGTAGAAAAAGC
* * * *
20210628 GCCGTTAAAGGTCTTGAGCTATAGCGGCGTTTGTGTGGAAAGCGCCGCTAAATG-TATTGATCTA
66 GCCGCTAAAGGTCCTGAGCTATAGCGGCGTTTGTGTGAAAAGCGCCGCTAAA-GATA-TGATCGA
* * *
20210692 TAGCGGCGTTTATGTGAAAAGTGCCGTTAAAGGTATTGATCTATAGCAGCGTTTGT-GAAAAAAT
1 TAGCGGCGTTTATGTAAAAAGCGCCGTTAAAGGTATTGATCTATAGCAGCGTTTGTAG-AAAAAG
*
20210756 CGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGATCATGATCG
65 CGCCGCTAAAGGTCCTGAGCTATAGCGGCGTTTGTGTG-AAAAGCGCCGCTAAAGAT-ATGATCG
20210820 A
128 A
20210821 TAGCGGCGTTTAT
1 TAGCGGCGTTTAT
20210834 TTCTATAAAC
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
128 3 0.02
129 120 0.97
130 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (128 bp):
TAGCGGCGTTTATGTAAAAAGCGCCGTTAAAGGTATTGATCTATAGCAGCGTTTGTAGAAAAAGC
GCCGCTAAAGGTCCTGAGCTATAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGATATGATCGA
Found at i:20222742 original size:64 final size:64
Alignment explanation
Indices: 20222671--20222798 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
20222661 TTTGTTAAGG
20222671 ATGTAAAAGAAGGAGCTTAACCTTATTGTTAGTAACTACTGTAAAACTTGTATTAATGCAGATT
1 ATGTAAAAGAAGGAGCTTAACCTTATTGTTAGTAACTACTGTAAAACTTGTATTAATGCAGATT
20222735 ATGTAAAAGAAGGAGCTTAACCTTATTGTTAGTAACTACTGTAAAACTTGTATTAATGCAGATT
1 ATGTAAAAGAAGGAGCTTAACCTTATTGTTAGTAACTACTGTAAAACTTGTATTAATGCAGATT
20222799 TTGGGTGTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (64 bp):
ATGTAAAAGAAGGAGCTTAACCTTATTGTTAGTAACTACTGTAAAACTTGTATTAATGCAGATT
Found at i:20222992 original size:27 final size:27
Alignment explanation
Indices: 20222954--20223155 Score: 203
Period size: 27 Copynumber: 7.5 Consensus size: 27
20222944 TGCGATTCAT
* *
20222954 GGGTAAAATGACTGAAATGCCCTTGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
* * *
20222981 GGGTAAAATGACTAAAATGCCCCCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
*
20223008 TGGTAAAATGACTGAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
** * * *
20223035 ATGTAAAATGA-TCAAAATGCCCCCGAA
1 GGGTAAAATGACT-GAAATACCCTCGAA
* *
20223062 GAGTAAAATGACCGAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAA
** *
20223089 GGGTAAAATGACCAAAATACTCC-CAAA
1 GGGTAAAATGACTGAAATAC-CCTCGAA
*
20223116 GGGTAAAATGACCGAAATACCCTC-ATA
1 GGGTAAAATGACTGAAATACCCTCGA-A
20223143 GGGTAAAATGACT
1 GGGTAAAATGACT
20223156 ACTATACCCC
Statistics
Matches: 147, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
26 4 0.03
27 141 0.96
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCTCGAA
Found at i:20223041 original size:54 final size:53
Alignment explanation
Indices: 20222955--20223156 Score: 255
Period size: 54 Copynumber: 3.8 Consensus size: 53
20222945 GCGATTCATG
* * *
20222955 GGTAAAATGACTGAAATGCCCTTGAAGGGTAAAATGACTAAAATGCCCCCGAA
1 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTAAAATGCCCCCGAA
* **
20223008 TGGTAAAATGACTGAAATACCCTCGAAATGTAAAATGA-TCAAAATGCCCCCGAA
1 -GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACT-AAAATGCCCCCGAA
* * * *
20223062 GAGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACTCCCAAA
1 G-GTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTAAAATGCCCCCGAA
20223116 GGGTAAAATGACCGAAATACCCTC-ATAGGGTAAAATGACTA
1 -GGTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGACTA
20223157 CTATACCCCT
Statistics
Matches: 131, Mismatches: 12, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
53 3 0.02
54 127 0.97
55 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (53 bp):
GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTAAAATGCCCCCGAA
Found at i:20231231 original size:31 final size:32
Alignment explanation
Indices: 20231177--20231238 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
20231167 TGCCAGATTC
*
20231177 TCTCTTTTCTCTCTTCCCTCTCTTCTATTCTAT
1 TCTCTTCTCTCTCTTCCCTCTCTTC-ATTCTAT
*
20231210 TCTCTTCTCT-TCTTCTC-CTCTTCATTCTA
1 TCTCTTCTCTCTCTTCCCTCTCTTCATTCTA
20231239 GTGCTACAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 6 0.22
31 6 0.22
32 6 0.22
33 9 0.33
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.56
Consensus pattern (32 bp):
TCTCTTCTCTCTCTTCCCTCTCTTCATTCTAT
Found at i:20231456 original size:27 final size:27
Alignment explanation
Indices: 20231415--20231478 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
20231405 ATGGTGAAGT
*
20231415 GTAAAATGACCGAAATACCCCTAAAGG
1 GTAAAATGACCGAAATACCCCCAAAGG
* *
20231442 GTGAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCCCAAAGG
20231469 GTAAAATGAC
1 GTAAAATGAC
20231479 TCTTATACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCCCAAAGG
Found at i:20231712 original size:52 final size:52
Alignment explanation
Indices: 20231650--20231778 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
20231640 TTTGCCACAT
* *
20231650 ATACTATTACTGGCAGCTCTGCTGCATTATTGTTACTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAGCTCTGCTGCATTACTGTTACTGACAGCTTTACTGCG
* * *
20231702 ATACTATTACTGGCAGCTCTGCTTCGTTACTGTTACTGATAGCTTTACTGCG
1 ATACTATTACTGGCAGCTCTGCTGCATTACTGTTACTGACAGCTTTACTGCG
*
20231754 ATACTATTACTGGCAGCTTTGCTGC
1 ATACTATTACTGGCAGCTCTGCTGC
20231779 GATATTTTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (52 bp):
ATACTATTACTGGCAGCTCTGCTGCATTACTGTTACTGACAGCTTTACTGCG
Found at i:20231779 original size:26 final size:26
Alignment explanation
Indices: 20231650--20231782 Score: 151
Period size: 26 Copynumber: 5.1 Consensus size: 26
20231640 TTTGCCACAT
*
20231650 ATACTATTACTGGCAGCTCTGCTGC-
1 ATACTATTACTGGCAGCTTTGCTGCG
* * *
20231675 ATTATTGTTACTGGCAGCTTTACTGCG
1 A-TACTATTACTGGCAGCTTTGCTGCG
* *
20231702 ATACTATTACTGGCAGCTCTGCTTCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* * ** *
20231728 TTACTGTTACTGATAGCTTTACTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
20231754 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
20231780 ATA
1 ATA
20231783 TTTTTGTGTT
Statistics
Matches: 85, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
25 1 0.01
26 83 0.98
27 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:20239784 original size:22 final size:22
Alignment explanation
Indices: 20239756--20239799 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20239746 TGGAGTAGAA
20239756 CATAACTTATCCTTAAAGGCTT
1 CATAACTTATCCTTAAAGGCTT
*
20239778 CATAACTTATCCTTTAAGGCTT
1 CATAACTTATCCTTAAAGGCTT
20239800 AAAAAGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (22 bp):
CATAACTTATCCTTAAAGGCTT
Found at i:20243717 original size:29 final size:29
Alignment explanation
Indices: 20243549--20243733 Score: 130
Period size: 29 Copynumber: 6.4 Consensus size: 29
20243539 TCATCGACCA
* * *
20243549 ATGAAAAAGGATAGCTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
20243578 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * * * *
20243607 ATAAAAAGTGAT-G-GT--GATGATCAATAACT
1 ATGAAAAGGGATAGCTTCGGCT-ATCGAT---T
* * * * * *
20243636 ATGAAAAGGGAT-GGTGACGACCATCTAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGATT
20243665 ATGAAAAGGGA-AGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
20243693 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
20243722 TTAAAAAGGGAT
1 ATGAAAAGGGAT
20243734 GGTGACGACC
Statistics
Matches: 120, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
25 2 0.02
26 5 0.04
27 1 0.01
28 20 0.17
29 88 0.73
32 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:20253927 original size:23 final size:23
Alignment explanation
Indices: 20253901--20253945 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
20253891 TGCTAAAACA
*
20253901 TGTAAGTTGTGGATAAACCACCT
1 TGTAAGTTATGGATAAACCACCT
*
20253924 TGTAGGTTATGGATAAACCACC
1 TGTAAGTTATGGATAAACCACC
20253946 AAATTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (23 bp):
TGTAAGTTATGGATAAACCACCT
Found at i:20274517 original size:16 final size:16
Alignment explanation
Indices: 20274496--20274532 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20274486 TCTTTAGATT
20274496 TGAAAACTATAGACTG
1 TGAAAACTATAGACTG
*
20274512 TGAAAACTCTAGACTG
1 TGAAAACTATAGACTG
20274528 TGAAA
1 TGAAA
20274533 TCGATAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (16 bp):
TGAAAACTATAGACTG
Found at i:20295254 original size:49 final size:49
Alignment explanation
Indices: 20295099--20295529 Score: 631
Period size: 47 Copynumber: 9.1 Consensus size: 49
20295089 GAAATGATAG
*
20295099 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20295146 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA--TGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
20295191 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20295240 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
20295289 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20295337 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20295384 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20295431 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * ** *
20295480 -CAGG-GTGAGTGGCCAACATGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
20295526 TAAG
1 TAAG
20295530 TCCCGAAGGG
Statistics
Matches: 357, Mismatches: 18, Indels: 18
0.91 0.05 0.05
Matches are distributed among these distances:
45 38 0.11
46 6 0.02
47 140 0.39
48 76 0.21
49 97 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:20295426 original size:191 final size:190
Alignment explanation
Indices: 20295101--20295529 Score: 672
Period size: 191 Copynumber: 2.3 Consensus size: 190
20295091 AATGATAGTA
* *
20295101 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
*
20295164 GTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
66 GTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-A
* *
20295229 TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
130 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAC
20295290 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
20295355 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
20295420 -TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGAC
129 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAC
* * * ** *
20295481 AGG-GTGAGTGGCCAACATGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 AGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
20295530 TCCCGAAGGG
Statistics
Matches: 223, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
189 44 0.20
190 2 0.01
191 139 0.62
193 38 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGAT
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAC
Found at i:20295702 original size:37 final size:37
Alignment explanation
Indices: 20295647--20295724 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
20295637 CCGAGCTCTA
* * *
20295647 AAGA-CCGATGACTACGTGTGGGGATTTTATCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
* *
20295683 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
20295720 AAGAC
1 AAGAC
20295725 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
Found at i:20302090 original size:15 final size:16
Alignment explanation
Indices: 20302065--20302094 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20302055 CTTCCATTTA
20302065 ACTTCAATTAATAATC
1 ACTTCAATTAATAATC
20302081 ACTT-AATTAATAAT
1 ACTTCAATTAATAAT
20302095 ATTTTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (16 bp):
ACTTCAATTAATAATC
Found at i:20306277 original size:47 final size:47
Alignment explanation
Indices: 20306013--20306373 Score: 493
Period size: 46 Copynumber: 7.9 Consensus size: 47
20306003 GAAATGATAG
*
20306013 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20306060 T-AGGCCTAATGGCCGATG-GATG-ATGTG-AAGTGTATATAT-TGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20306102 -GATGCC-AATGG-CGA-G-GATG-ATGTGAAAGTGCTATATATG-GA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
*
20306143 T-AGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20306187 TATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TA-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20306237 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-CGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20306283 TAAGGCCTAATTGCCAATTGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGA-TGTGATGAATGTGAAAGTGTATATATGTGA
*
20306331 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
20306374 ATGTGACAGG
Statistics
Matches: 283, Mismatches: 12, Indels: 38
0.85 0.04 0.11
Matches are distributed among these distances:
39 10 0.04
40 8 0.03
41 18 0.06
42 12 0.04
43 14 0.05
44 14 0.05
45 14 0.05
46 69 0.24
47 60 0.21
48 19 0.07
49 43 0.15
50 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20306350 original size:94 final size:94
Alignment explanation
Indices: 20306015--20306377 Score: 461
Period size: 94 Copynumber: 4.0 Consensus size: 94
20306005 AATGATAGTA
* *
20306015 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGAT-AGGCCTAATGGCCGATG
1 AGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATG
* *
20306078 -GATG-ATGTGAAGTGTATATA-TTG-AG
66 TGATGAATGTGAAGTGTATATACATGTAT
* * *
20306103 ATGCC-AATGG-CGA-G-GATG-ATGTGAAAGTGCTATATATG-GAT-AGGCCTAATGGCCGATG
1 AGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATG
*
20306161 TGATGAATGTGAAGTGTATATATATGTAT
66 TGATGAATGTGAAGTGTATATACATGTAT
*
20306190 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGAT
*
20306255 GTGATGAATGTGAAAGTGTATAT-CGTG-AT
65 GTGATGAATGTG-AAGTGTATATACATGTAT
*
20306284 AAGGCCTAATTGCCAATTGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGA
1 -AGGCCTAATGGCCAA-TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
*
20306348 TGTGATGAATGTGGAAGTGTATATATATGT
64 TGTGATGAATGT-GAAGTGTATATACATGT
20306378 GACAGGGCTG
Statistics
Matches: 244, Mismatches: 12, Indels: 30
0.85 0.04 0.10
Matches are distributed among these distances:
83 31 0.13
84 15 0.06
85 17 0.07
86 5 0.02
87 10 0.04
88 9 0.04
89 3 0.01
90 1 0.00
91 4 0.02
92 11 0.05
93 8 0.03
94 55 0.23
95 46 0.19
96 29 0.12
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (94 bp):
AGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAGTGTATATACATGTAT
Found at i:20306412 original size:94 final size:96
Alignment explanation
Indices: 20306014--20306423 Score: 440
Period size: 94 Copynumber: 4.5 Consensus size: 96
20306004 AAATGATAGT
* *
20306014 AAGGCCTAATG-GCCGATGTGATGAATGTGAAAGTG-TATATACGTGAT-AGGCCTAATGGCCGA
1 AAGGCCTAATGTGCC-AAGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
20306076 TG-GATG-ATGT-GAAGTG--TATATAT-TGA
65 TGTGATGAATGTGGAAGTGTATATATATGTGA
* * * *
20306102 GATGCC-AATG-G-CGAG-GATG-ATGTGAAAGTGCTATATATG-GAT-AGGCCTAATGGCCGAT
1 AAGGCCTAATGTGCCAAGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGAT
20306160 GTGATGAATGT-GAAGTGTATATATATGT-A
66 GTGATGAATGTGGAAGTGTATATATATGTGA
* *
20306189 TAGGCCTAATG-GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 AAGGCCTAATGTGCC-AAGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
* *
20306253 ATGTGATGAATGTGAAAGTG--TATAT-CGTGA
64 ATGTGATGAATGTGGAAGTGTATATATATGTGA
20306283 TAAGGCCTAAT-TGCCAATTGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCC
1 -AAGGCCTAATGTGCCAA--GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
20306346 GATGTGATGAATGTGGAAGTGTATATATATGTGA
63 GATGTGATGAATGTGGAAGTGTATATATATGTGA
* * * * * *
20306380 CAGGGCTGATGTGCCAACTGATGGATGT-AAAGTG-TATAAATGTG
1 AAGGCCTAATGTGCCAAGTGATGAATGTGAAAGTGATATATATGTG
20306424 TAGTCCGAAG
Statistics
Matches: 276, Mismatches: 22, Indels: 42
0.81 0.06 0.12
Matches are distributed among these distances:
83 31 0.11
84 15 0.05
85 11 0.04
86 1 0.00
87 17 0.06
88 10 0.04
89 1 0.00
90 1 0.00
91 4 0.01
92 11 0.04
93 10 0.04
94 71 0.26
95 48 0.17
96 35 0.13
97 10 0.04
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (96 bp):
AAGGCCTAATGTGCCAAGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGGAAGTGTATATATATGTGA
Found at i:20306620 original size:37 final size:38
Alignment explanation
Indices: 20306541--20306620 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
20306531 CCGAGCTCTA
* * *
20306541 AAGACCCGATGACTACGTGTGGGGATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTATGTCCGGGT
*
20306579 AAGACCCGATAACTTCGTGTGGAGA-TTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTATGTCCGGGT
20306616 AAGAC
1 AAGAC
20306621 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 16 0.42
38 22 0.58
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGGAGATTTATGTCCGGGT
Found at i:20312963 original size:47 final size:47
Alignment explanation
Indices: 20312897--20313282 Score: 567
Period size: 47 Copynumber: 8.1 Consensus size: 47
20312887 GAAATGATAG
*
20312897 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20312944 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20312991 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20313040 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20313089 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20313136 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20313183 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * ** * *
20313232 -CAGGGCTGAGTGGCCAACATGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20313279 TAAG
1 TAAG
20313283 TCCCGAAGGG
Statistics
Matches: 311, Mismatches: 22, Indels: 11
0.90 0.06 0.03
Matches are distributed among these distances:
47 178 0.57
48 7 0.02
49 126 0.41
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20313071 original size:96 final size:94
Alignment explanation
Indices: 20312897--20313282 Score: 585
Period size: 96 Copynumber: 4.0 Consensus size: 94
20312887 GAAATGATAG
*
20312897 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCAAT
*
20312962 GTGATGAATGTGAAAGTGTATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* *
20312991 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCA
20313056 ATGTGATGAATGTGAAAGTGTATATATATGTGA
64 ATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20313089 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCAAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCAAT
20313154 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * *
20313183 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGG-CTGAGTGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAGGGCCT-AATGGCC
** * *
20313247 AACATGATGGATGTGAAAGTGTATAAATGTGA
63 AATGTGATGAATGTGAAAGTGTATATATGTGA
20313279 TAAG
1 TAAG
20313283 TCCCGAAGGG
Statistics
Matches: 271, Mismatches: 14, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
94 82 0.30
95 2 0.01
96 141 0.52
98 46 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCAAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20313224 original size:192 final size:190
Alignment explanation
Indices: 20312897--20313282 Score: 648
Period size: 192 Copynumber: 2.0 Consensus size: 190
20312887 GAAATGATAG
* *
20312897 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCAAT
20312962 GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * **
20313027 TATATATATGTGATAGGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TATATATATGTGACAGGG-CTGAATGGCCAACATGATGAATGTGAAAGTGTATA-A-ATGTGA
20313089 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCAAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCAAT
* *
20313154 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
66 GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
20313219 TATATATATGTGACAGGGCTGAGTGGCCAACATGATGGATGTGAAAGTGTATAAATGTGA
131 TATATATATGTGACAGGGCTGAATGGCCAACATGATGAATGTGAAAGTGTATAAATGTGA
20313279 TAAG
1 TAAG
20313283 TCCCGAAGGG
Statistics
Matches: 183, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
190 10 0.05
191 3 0.02
192 170 0.93
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (190 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCAAT
GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGACAGGGCTGAATGGCCAACATGATGAATGTGAAAGTGTATAAATGTGA
Found at i:20313457 original size:37 final size:37
Alignment explanation
Indices: 20313401--20313479 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20313391 CCGAGCTCTA
* * *
20313401 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
20313438 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20313475 AAGAC
1 AAGAC
20313480 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20319525 original size:20 final size:17
Alignment explanation
Indices: 20319474--20319518 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
20319464 AACATGTTCA
* * *
20319474 AATTTTTAATACAATTT
1 AATTTTTTATAAAAATT
20319491 AATTTTTTATAAAAATT
1 AATTTTTTATAAAAATT
20319508 AATTATTTTAT
1 AATT-TTTTAT
20319519 GACAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTTATAAAAATT
Found at i:20329459 original size:48 final size:48
Alignment explanation
Indices: 20329380--20329508 Score: 159
Period size: 48 Copynumber: 2.7 Consensus size: 48
20329370 ACTCATAGGT
* * * *
20329380 CACAAATGTGGCACGGACTGTGTGCAAGCCACCAATATTCTGTTAAGA
1 CACAAAGGTGGCACGGACTATGTGCAGGCCACCAATATTCTGCTAAGA
* * * **
20329428 TATAAGGGTGGCACGGACTATGTGCAGGCCACCAATATTCTGCTATTA
1 CACAAAGGTGGCACGGACTATGTGCAGGCCACCAATATTCTGCTAAGA
* *
20329476 CACAAAGGTGGTACGGACTATGTGTAGGCCACC
1 CACAAAGGTGGCACGGACTATGTGCAGGCCACC
20329509 GAGAAATCTG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (48 bp):
CACAAAGGTGGCACGGACTATGTGCAGGCCACCAATATTCTGCTAAGA
Found at i:20333136 original size:14 final size:14
Alignment explanation
Indices: 20333117--20333146 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20333107 AGTGAGAGAG
*
20333117 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
20333131 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
20333145 GA
1 GA
20333147 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:20343498 original size:13 final size:13
Alignment explanation
Indices: 20343480--20343504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20343470 CATTTGAATA
20343480 GTGTTTTAAATTT
1 GTGTTTTAAATTT
20343493 GTGTTTTAAATT
1 GTGTTTTAAATT
20343505 CTATCATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
GTGTTTTAAATTT
Found at i:20343634 original size:29 final size:28
Alignment explanation
Indices: 20343602--20343702 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
20343592 GATCATCAAT
20343602 TATGAAAAGGGATGCTGACAACCATTGAA
1 TATGAAAAGGGATG-TGACAACCATTGAA
** *
20343631 TATGAAAAGGGATAGTTTCGAA-TATTGAA
1 TATGAAAAGGGAT-GTGAC-AACCATTGAA
** * *
20343660 TATGAAAAGGGATGGTGATGACCGTCGAA
1 TATGAAAAGGGAT-GTGACAACCATTGAA
20343689 TATGAAAAGGGATG
1 TATGAAAAGGGATG
20343703 ATTTCGACCA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
28 2 0.03
29 53 0.91
30 3 0.05
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.24
Consensus pattern (28 bp):
TATGAAAAGGGATGTGACAACCATTGAA
Found at i:20343711 original size:29 final size:29
Alignment explanation
Indices: 20343602--20343714 Score: 95
Period size: 29 Copynumber: 3.9 Consensus size: 29
20343592 GATCATCAAT
* ** * *
20343602 TATGAAAAGGGATGCTGACAACCATTGAA
1 TATGAAAAGGGATGATTTCGACCATCGAA
** *
20343631 TATGAAAAGGGAT-AGTTTCGAATATTGAA
1 TATGAAAAGGGATGA-TTTCGACCATCGAA
* * *
20343660 TATGAAAAGGGATGGTGAT-GACCGTCGAA
1 TATGAAAAGGGATGAT-TTCGACCATCGAA
20343689 TATGAAAAGGGATGATTTCGACCATC
1 TATGAAAAGGGATGATTTCGACCATC
20343715 ATTTAGCACA
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
28 1 0.02
29 63 0.97
30 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.25
Consensus pattern (29 bp):
TATGAAAAGGGATGATTTCGACCATCGAA
Found at i:20347639 original size:2 final size:2
Alignment explanation
Indices: 20347632--20347657 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20347622 GGAATAAACT
20347632 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
20347658 AAGCGGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20350096 original size:3 final size:3
Alignment explanation
Indices: 20350088--20350117 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20350078 TAATCGATCA
20350088 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20350118 TTGAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:20350577 original size:6 final size:6
Alignment explanation
Indices: 20350567--20350598 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
20350557 TACTCATCTT
*
20350567 TTTAAT TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
20350599 AATTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:20351227 original size:10 final size:10
Alignment explanation
Indices: 20351214--20351253 Score: 55
Period size: 9 Copynumber: 3.9 Consensus size: 10
20351204 ATTGTTTTTT
20351214 ATTTTTTAAA
1 ATTTTTTAAA
20351224 A-TTTTTAAA
1 ATTTTTTAAA
20351233 ATTTTTTAATA
1 ATTTTTTAA-A
20351244 ATTTATTTAA
1 ATTT-TTTAA
20351254 TCGAACCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.33
10 8 0.30
11 5 0.19
12 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:20352221 original size:19 final size:20
Alignment explanation
Indices: 20352178--20352225 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
20352168 GATAGCAATT
*
20352178 TATAAAAATTAATATCAAAAT
1 TATAAAAATT-ATATCAAAAG
*
20352199 TATAAAAATT-TATTAAAAG
1 TATAAAAATTATATCAAAAG
20352218 TATAAAAA
1 TATAAAAA
20352226 AGTAGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.60
21 10 0.40
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
TATAAAAATTATATCAAAAG
Found at i:20352564 original size:16 final size:17
Alignment explanation
Indices: 20352543--20352588 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
20352533 ATATTATAAA
20352543 AAAAATTATAAATTA-T
1 AAAAATTATAAATTATT
*
20352559 AAAAATTAT-AGTTATT
1 AAAAATTATAAATTATT
20352575 AAAAATTATTAAAT
1 AAAAATTA-TAAAT
20352589 GTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 1 0.04
18 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAATTATAAATTATT
Found at i:20366613 original size:20 final size:20
Alignment explanation
Indices: 20366588--20366626 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
20366578 TACTTTCTTT
20366588 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
20366608 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
20366627 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:20366889 original size:49 final size:48
Alignment explanation
Indices: 20366829--20367013 Score: 142
Period size: 49 Copynumber: 3.8 Consensus size: 48
20366819 GATAATAATA
* * *
20366829 TGCCAAAGCCATGTCCCAGACAGGGTCTTACATGGGATGTTTCATGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTTCATATAC
* * * *
20366878 TGCCAATGCCATATCTCAGATATAGTCTTACATGGGAGTTCTCATAT-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTT-TCATATAC
* * * * * * *
20366926 GGTGCCCATGCCATGT-CCAGACATGGTCTGA-AGGGGGACCTCTCATCTCAA
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGA-GTTTCATAT-AC
* *
20366977 TGTCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
20367014 CCTCCCATAA
Statistics
Matches: 104, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
48 5 0.05
49 68 0.65
50 31 0.30
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCATATAC
Found at i:20369238 original size:28 final size:27
Alignment explanation
Indices: 20369205--20369303 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
20369195 TAATGAGATT
*
20369205 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTATAATTGAA
*
20369232 ATGCACTAAGTGTGCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATTG-AA
* * *
20369261 AGCACTAAGCGTGCGAGTGTGATT-ATTA
1 AGCACTAAGTGTGCGAGTATAATTGA--A
20369289 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
20369304 TACTTATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 56 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTATAATTGAA
Found at i:20371625 original size:91 final size:91
Alignment explanation
Indices: 20371470--20371650 Score: 326
Period size: 91 Copynumber: 2.0 Consensus size: 91
20371460 TGGATCATGT
20371470 AAGCACGGTGATACAAATCAAAGGTTTTTAGAGGTTGTGTAGCTGCATTGGTTATTATTGGGACT
1 AAGCACGGTGATACAAATCAAAGGTTTTTAGAGGTTGTGTAGCTGCATTGGTTATTATTGGGACT
20371535 ACATTCAGTTTTCCTCTCTTTTTTCA
66 ACATTCAGTTTTCCTCTCTTTTTTCA
* ** *
20371561 AAGCACGGTGATACAGATCGCAGGTTTTTAGAGGTTGTGTAGTTGCATTGGTTATTATTGGGACT
1 AAGCACGGTGATACAAATCAAAGGTTTTTAGAGGTTGTGTAGCTGCATTGGTTATTATTGGGACT
20371626 ACATTCAGTTTTCCTCTCTTTTTTC
66 ACATTCAGTTTTCCTCTCTTTTTTC
20371651 GGAGTGCACT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.40
Consensus pattern (91 bp):
AAGCACGGTGATACAAATCAAAGGTTTTTAGAGGTTGTGTAGCTGCATTGGTTATTATTGGGACT
ACATTCAGTTTTCCTCTCTTTTTTCA
Found at i:20372535 original size:12 final size:12
Alignment explanation
Indices: 20372505--20372536 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
20372495 TATAATATCA
*
20372505 AGTTCTAATATG
1 AGTTCTGATATG
20372517 AGTTCTGATATG
1 AGTTCTGATATG
20372529 AGTTCTGA
1 AGTTCTGA
20372537 ATCGAGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (12 bp):
AGTTCTGATATG
Found at i:20373543 original size:40 final size:39
Alignment explanation
Indices: 20373422--20373541 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 39
20373412 ATGATGACAG
20373422 GAATAATTTTTAAAGAAAAAATGAAAGAAAAATAATTAAAA
1 GAATAATTTTT-AAG-AAAAATGAAAGAAAAATAATTAAAA
20373463 GAATAATTTTTAAGAAAAATGAAAGAAAAAATAATTAAAA
1 GAATAATTTTTAAGAAAAATGAAAG-AAAAATAATTAAAA
*
20373503 GAATAATTTTTAAGGAAAATGAAAGAAAAATAATTAAAA
1 GAATAATTTTTAAGAAAAATGAAAGAAAAATAATTAAAA
20373542 AGGGTTTGGT
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
39 25 0.32
40 41 0.53
41 11 0.14
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (39 bp):
GAATAATTTTTAAGAAAAATGAAAGAAAAATAATTAAAA
Found at i:20378125 original size:25 final size:25
Alignment explanation
Indices: 20378087--20378185 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 25
20378077 GGTTATCGAT
* * *
20378087 TTCAGTTCGTATGAGCTTACCGTTA
1 TTCAGATCGCATGAGCTTACCATTA
*
20378112 TTCAGATCGCATGAGCTTATCATTA
1 TTCAGATCGCATGAGCTTACCATTA
* * * *
20378137 TTCAGCTCGGAGGAGCTTACCATCA
1 TTCAGATCGCATGAGCTTACCATTA
* *
20378162 TTCAGCTCAG-AGGAGCTTACCATT
1 TTCAGATC-GCATGAGCTTACCATT
20378186 TACAGCTCGT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 62 0.98
26 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (25 bp):
TTCAGATCGCATGAGCTTACCATTA
Found at i:20378176 original size:28 final size:25
Alignment explanation
Indices: 20378099--20378184 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
20378089 CAGTTCGTAT
* * * * *
20378099 GAGCTTACCGTTATTCAGATCGCAT
1 GAGCTTACCATCATTCAGCTCGGAG
* *
20378124 GAGCTTATCATTATTCAGCTCGGAG
1 GAGCTTACCATCATTCAGCTCGGAG
*
20378149 GAGCTTACCATCATTCAGCTCAGAG
1 GAGCTTACCATCATTCAGCTCGGAG
20378174 GAGCTTACCAT
1 GAGCTTACCAT
20378185 TTACAGCTCG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTTACCATCATTCAGCTCGGAG
Found at i:20378201 original size:24 final size:22
Alignment explanation
Indices: 20378137--20378213 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 22
20378127 CTTATCATTA
20378137 TTCAGCTCGGAGGAGCTTACCAT
1 TTCAGCTC-GAGGAGCTTACCAT
20378160 CATTCAGCTCAGAGGAGCTTACCAT
1 --TTCAGCTC-GAGGAGCTTACCAT
* * *
20378185 TTACAGCTCGTAAGAGCATACCAA
1 TT-CAGCTCG-AGGAGCTTACCAT
20378209 TTCAG
1 TTCAG
20378214 AGCTCATATG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.13
24 18 0.39
25 22 0.48
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (22 bp):
TTCAGCTCGAGGAGCTTACCAT
Found at i:20382861 original size:21 final size:20
Alignment explanation
Indices: 20382837--20382894 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 20
20382827 ACAAACAAAT
*
20382837 AAAAGAAAAAAAAAGATAAG
1 AAAAGAAAAAAAAAGAAAAG
*
20382857 CAAAATGAAACAAAAAGGAAAAG
1 -AAAA-GAAA-AAAAAAGAAAAG
20382880 -AAAGAAAAGAAAAAG
1 AAAAGAAAA-AAAAAG
20382895 GGAAAGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
21 7 0.23
22 4 0.13
23 10 0.32
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAAAAAAGAAAAG
Found at i:20383604 original size:24 final size:24
Alignment explanation
Indices: 20383577--20383623 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
20383567 ATTGAAATGG
20383577 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
20383601 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
20383624 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:20383635 original size:21 final size:21
Alignment explanation
Indices: 20383600--20383647 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
20383590 GTGATGAATT
*
20383600 TATTGA-ATTTATATTGATTGA
1 TATTGATATATATATTGATT-A
20383621 -ATTGATATATATATTGATTA
1 TATTGATATATATATTGATTA
20383641 TATTGAT
1 TATTGAT
20383648 TATTTGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
TATTGATATATATATTGATTA
Found at i:20383889 original size:40 final size:40
Alignment explanation
Indices: 20383780--20383919 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
20383770 GACTTCGAGT
* * * * *
20383780 CGATGAGACACTAGGTGTCAATTTACTACTTCGGACTAATT
1 CGATGAGACACTAGGTGTCAAATTATTACTTC-GAATTATC
* * * *
20383821 CGATGAGGCACTAGGTG-CCAA-T-TTACTTCGATTTAGC
1 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTATC
*
20383858 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTATC
* * *
20383898 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTAGGTGTCAAA
20383920 CTGGTGTGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 19 0.23
38 9 0.11
39 2 0.02
40 35 0.43
41 16 0.20
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTATC
Found at i:20387159 original size:24 final size:22
Alignment explanation
Indices: 20387134--20387186 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
20387124 TTTAAAAATA
20387134 AAACATAATATAATATTTATCAT
1 AAACATAA-ATAATATTTATCAT
* *
20387157 AAAGATAAATAATATTTA-AAT
1 AAACATAAATAATATTTATCAT
20387178 AAA-ATAAAT
1 AAACATAAAT
20387187 TTAAATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 5 0.18
22 10 0.36
23 7 0.25
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (22 bp):
AAACATAAATAATATTTATCAT
Found at i:20387188 original size:15 final size:16
Alignment explanation
Indices: 20387163--20387192 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20387153 TCATAAAGAT
20387163 AAATAATATTTAAATA
1 AAATAATATTTAAATA
20387179 AAATAA-ATTTAAAT
1 AAATAATATTTAAAT
20387193 CATATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAATATTTAAATA
Found at i:20387363 original size:2 final size:2
Alignment explanation
Indices: 20387350--20387392 Score: 52
Period size: 2 Copynumber: 20.5 Consensus size: 2
20387340 TAAACTTACC
20387350 TA TA TCA TA TA TA TGA TA TA TGA -A TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA T-A TA TA T-A TA TA TA TA TA TA TA TA TA TA
20387392 T
1 T
20387393 TAAGATCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 1 0.03
2 31 0.84
3 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:20398777 original size:24 final size:24
Alignment explanation
Indices: 20398749--20398819 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
20398739 TACCGTTACT
20398749 CAACTCGT-GTGAACTTACAGATTA
1 CAACTCGTAG-GAACTTACAGATTA
* *
20398773 CAACTCGTAGGAGCTTACCGATTA
1 CAACTCGTAGGAACTTACAGATTA
* * *
20398797 CAGCTCGTAGGAGCTTACCGATT
1 CAACTCGTAGGAACTTACAGATT
20398820 CAGAGCTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
CAACTCGTAGGAACTTACAGATTA
Found at i:20398835 original size:25 final size:24
Alignment explanation
Indices: 20398762--20398819 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
20398752 CTCGTGTGAA
* *
20398762 CTTACAGATTACAACTCGTAGGAG
1 CTTACCGATTACAGCTCGTAGGAG
20398786 CTTACCGATTACAGCTCGTAGGAG
1 CTTACCGATTACAGCTCGTAGGAG
20398810 CTTACCGATT
1 CTTACCGATT
20398820 CAGAGCTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
CTTACCGATTACAGCTCGTAGGAG
Found at i:20406400 original size:42 final size:43
Alignment explanation
Indices: 20406329--20406441 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
20406319 GAAAATTATG
* * * * * *
20406329 TGTAAGACCATGTTTGGGACATTGACATCGCATA-T-GATTTCA
1 TGTAAGACCCTGTCTGGGACGTTGGCATCG-ATATTCGAATACA
* *
20406371 TGTAAGACCCTGTCTGGGACGGTGGCATCGTTATTCGAATACA
1 TGTAAGACCCTGTCTGGGACGTTGGCATCGATATTCGAATACA
20406414 TGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TGTAAGACC-CTGTCTGGGACGTTGGCAT
20406442 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 26 0.44
43 30 0.51
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACGTTGGCATCGATATTCGAATACA
Found at i:20417062 original size:20 final size:19
Alignment explanation
Indices: 20417038--20417106 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
20417028 TTTTTTATGA
*
20417038 ATTTTTATAAATATTTAAT
1 ATTTTTTTAAATATTTAAT
* *
20417057 ATTTTTCTTGAATTTTTAATAT
1 ATTTTT-TTAAATATTT-A-AT
20417079 ATTTTTTTATAATATTTAGAT
1 ATTTTTTTA-AATATTTA-AT
20417100 -TTTTTTT
1 ATTTTTTT
20417107 GAATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 6 0.15
20 14 0.35
21 6 0.15
22 14 0.35
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTTTAAATATTTAAT
Found at i:20417072 original size:43 final size:41
Alignment explanation
Indices: 20417024--20417116 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 41
20417014 AAAATCTGAT
20417024 AATTTTTTTTATGAATTTTTATA-AATATTTA-ATATTTTTCTTG
1 AATTTTTTTTAT--ATTTTTATATAATATTTAGAT-TTTTT-TTG
** *
20417067 AATTTTTAATATATTTTTTTATAATATTTAGATTTTTTTTG
1 AATTTTTTTTATATTTTTATATAATATTTAGATTTTTTTTG
20417108 AATTTTTTT
1 AATTTTTTT
20417117 GTTGACATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 18 0.42
42 13 0.30
43 12 0.28
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (41 bp):
AATTTTTTTTATATTTTTATATAATATTTAGATTTTTTTTG
Found at i:20421974 original size:22 final size:20
Alignment explanation
Indices: 20421935--20421976 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
20421925 TCAAATATTG
*
20421935 CAAATATTAAAATCTGAATT
1 CAAATATTAAAATATGAATT
20421955 CAAATATACTAAAATATGAATT
1 CAAATAT--TAAAATATGAATT
20421977 AATTAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (20 bp):
CAAATATTAAAATATGAATT
Found at i:20421988 original size:21 final size:22
Alignment explanation
Indices: 20421942--20421988 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
20421932 TTGCAAATAT
* *
20421942 TAAAATCTGAATTCAAATATAC
1 TAAAATATGAATTCAAATAAAC
*
20421964 TAAAATATGAATT-AATTAAAC
1 TAAAATATGAATTCAAATAAAC
20421985 TAAA
1 TAAA
20421989 CATAATTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (22 bp):
TAAAATATGAATTCAAATAAAC
Found at i:20422408 original size:22 final size:23
Alignment explanation
Indices: 20422380--20422426 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
20422370 CCTCTAGTTA
20422380 ACGTC-TTTAATTTATAGGTATT
1 ACGTCTTTTAATTTATAGGTATT
20422402 ACGTCTTTTAATTTATAGGTATT
1 ACGTCTTTTAATTTATAGGTATT
20422425 AC
1 AC
20422427 TAAGCCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (23 bp):
ACGTCTTTTAATTTATAGGTATT
Found at i:20430896 original size:25 final size:24
Alignment explanation
Indices: 20430837--20430896 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
20430827 CCACAGCTCA
20430837 TATGAGCTTACTAATTTCAACTCG
1 TATGAGCTTACTAATTTCAACTCG
* * *
20430861 TAAGAGCTTACTGA-TTCATAGCTTG
1 TATGAGCTTACTAATTTCA-A-CTCG
20430886 TATGAGCTTAC
1 TATGAGCTTAC
20430897 CGATATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.13
24 13 0.43
25 13 0.43
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (24 bp):
TATGAGCTTACTAATTTCAACTCG
Found at i:20430910 original size:25 final size:25
Alignment explanation
Indices: 20430837--20430923 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
20430827 CCACAGCTCA
** *
20430837 TATGAGCTTACTAAT-TTCAACTCG
1 TATGAGCTTACCGATATTCAACTTG
* *
20430861 TAAGAGCTTACTG--ATTCATAGCTTG
1 TATGAGCTTACCGATATTCA-A-CTTG
20430886 TATGAGCTTACCGATATTCAACTTG
1 TATGAGCTTACCGATATTCAACTTG
* *
20430911 AAGGAGCTTACCG
1 TATGAGCTTACCG
20430924 TTTATCGCTC
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
23 4 0.08
24 12 0.24
25 29 0.57
26 1 0.02
27 5 0.10
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (25 bp):
TATGAGCTTACCGATATTCAACTTG
Found at i:20430938 original size:49 final size:49
Alignment explanation
Indices: 20430831--20430941 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 49
20430821 GACACACCAC
* * *
20430831 AGCTCATATGAGCTTACTAATTTCAACTCGTAAGAGCTTACTGATTCAT
1 AGCTCGTATGAGCTTACCAATTTCAACTCGTAAGAGCTTACCGATTCAT
* * * *
20430880 AGCTTGTATGAGCTTACCGATATTCAACTTG-AAGGAGCTTACCG-TTTAT
1 AGCTCGTATGAGCTTACCAAT-TTCAACTCGTAA-GAGCTTACCGATTCAT
*
20430929 CGCTCGTATGAGC
1 AGCTCGTATGAGC
20430942 CTACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 34 0.67
50 17 0.33
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (49 bp):
AGCTCGTATGAGCTTACCAATTTCAACTCGTAAGAGCTTACCGATTCAT
Found at i:20431957 original size:135 final size:135
Alignment explanation
Indices: 20431715--20431980 Score: 469
Period size: 135 Copynumber: 2.0 Consensus size: 135
20431705 GTGATATTTT
*
20431715 AACATGTTACAAACTTCATATTGGTTGGTTTTGAATGCCTATTTATGCCATGGTTGTGTGCACAT
1 AACATGTTACAAACTTCATATTGGTTGGTTTTGAATGCCTATTTATGCCATGGTTGTATGCACAT
*
20431780 TGTTGAGCTTAGGTTGGTACCACTTTGGGTGAGAAATATGGCTTGGAAAATGGCATATTTTGTCC
66 TGTTGAACTTAGGTTGGTACCACTTTGGGTGAGAAATATGGCTTGGAAAATGGCATATTTTGTCC
20431845 ATACG
131 ATACG
*
20431850 AACATGTTACAAACTTCATATTGGTTGGTTTTGAATGCCTATTTGTGCCATGGTTGTATGCACAT
1 AACATGTTACAAACTTCATATTGGTTGGTTTTGAATGCCTATTTATGCCATGGTTGTATGCACAT
* * * *
20431915 TGTTGAATTTAGGTTGGTATCACTTTGGGTGAGAAATATGGCTTGGAAAATTGCCTATTTTGTCC
66 TGTTGAACTTAGGTTGGTACCACTTTGGGTGAGAAATATGGCTTGGAAAATGGCATATTTTGTCC
20431980 A
131 A
20431981 CACAGGCGTG
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 124 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (135 bp):
AACATGTTACAAACTTCATATTGGTTGGTTTTGAATGCCTATTTATGCCATGGTTGTATGCACAT
TGTTGAACTTAGGTTGGTACCACTTTGGGTGAGAAATATGGCTTGGAAAATGGCATATTTTGTCC
ATACG
Found at i:20441321 original size:20 final size:20
Alignment explanation
Indices: 20441288--20441343 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
20441278 AAAAGAAAAG
* *
20441288 AAAAGAAAAACAAAAAATCA
1 AAAACAAAAACAAAAAATAA
* * *
20441308 AAATCAAAATCAAAATATAA
1 AAAACAAAAACAAAAAATAA
*
20441328 AAAACAAAAAGAAAAA
1 AAAACAAAAACAAAAA
20441344 GAAAAAATCA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.79, C:0.09, G:0.04, T:0.09
Consensus pattern (20 bp):
AAAACAAAAACAAAAAATAA
Found at i:20441362 original size:20 final size:21
Alignment explanation
Indices: 20441307--20441362 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
20441297 ACAAAAAATC
*
20441307 AAAATCAAAATCAAAATATAA
1 AAAATCAAAATCAAAATAGAA
**
20441328 AAAA-CAAAAAGAAAA-AGAA
1 AAAATCAAAATCAAAATAGAA
*
20441347 AAAATCAAAGTCAAAA
1 AAAATCAAAATCAAAA
20441363 GTAAAAAGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 7 0.25
20 17 0.61
21 4 0.14
ACGTcount: A:0.75, C:0.09, G:0.05, T:0.11
Consensus pattern (21 bp):
AAAATCAAAATCAAAATAGAA
Found at i:20441820 original size:7 final size:7
Alignment explanation
Indices: 20441788--20441825 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
20441778 AAAAGAAGAA
*
20441788 GAAAGAT
1 GAAAAAT
20441795 GAAAAAT
1 GAAAAAT
20441802 GAAAAAT
1 GAAAAAT
20441809 G-AAAAT
1 GAAAAAT
20441815 GAAAAAT
1 GAAAAAT
20441822 GAAA
1 GAAA
20441826 GAGTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (7 bp):
GAAAAAT
Found at i:20441833 original size:13 final size:13
Alignment explanation
Indices: 20441797--20441825 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20441787 AGAAAGATGA
20441797 AAAATGAAAAATG
1 AAAATGAAAAATG
20441810 AAAATGAAAAATG
1 AAAATGAAAAATG
20441823 AAA
1 AAA
20441826 GAGTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:20443163 original size:87 final size:87
Alignment explanation
Indices: 20443019--20443500 Score: 829
Period size: 87 Copynumber: 5.5 Consensus size: 87
20443009 CAGATCAATG
*
20443019 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
20443084 TCAGTTGTAGTGGAGCTGGTTG
66 TCGGTTGTAGTGGAGCTGGTTA
*
20443106 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCCAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * *
20443171 TCGGTTGCAGTGGAGCTAGTTG
66 TCGGTTGTAGTGGAGCTGGTTA
* *
20443193 AAGATAGCAAATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
20443258 TTGGTTGTAGTGGAGCTGGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
20443280 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
20443345 TCGGTTGTAGTGGAGCTGGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
20443367 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
20443432 TCGGTTGTAGTGGAGCTGGTTA
66 TCGGTTGTAGTGGAGCTGGTTA
* * ** *
20443454 AAGATAGCAGATATTGCCTTCTTGCATTGGCAGTGAAGCAGATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA
20443501 GCCAATAGTC
Statistics
Matches: 375, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 375 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGTAGTGGAGCTGGTTA
Found at i:20443167 original size:43 final size:42
Alignment explanation
Indices: 20443031--20443254 Score: 120
Period size: 45 Copynumber: 5.2 Consensus size: 42
20443021 GATAGCAGAT
*
20443031 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCT-CATTAACAGCGAAGCAGATCGAAAACAAAGC
** * * * * * * *
20443074 CTTGCC-TCCATCAGTT-GTAGTGGAGCTGGTTGAAGATAGCAGA-T
1 CTTGCCTTCC-TCA-TTAACAGCGAAGCAGATCGAA-A-A-CAAAGC
*
20443118 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCCAAAACAAAGC
1 CTTGCCTTCCT-CATTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * *
20443161 CTTGCC-TCCATCGGTT-GCAGTGGAGCTAG-TTGAAGATAGCAAA-T
1 CTTGCCTTCC-TC-ATTAACAGCGAAGC-AGATCGAA-A-A-CAAAGC
20443205 CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCT-CATTAACAGCGAAGCAGATCGAAAACAAAGC
20443248 CTTGCCT
1 CTTGCCT
20443255 CCATTGGTTG
Statistics
Matches: 128, Mismatches: 33, Indels: 40
0.64 0.16 0.20
Matches are distributed among these distances:
42 36 0.28
43 31 0.24
44 24 0.19
45 37 0.29
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (42 bp):
CTTGCCTTCCTCATTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:20443597 original size:44 final size:43
Alignment explanation
Indices: 20443548--20443843 Score: 172
Period size: 44 Copynumber: 6.8 Consensus size: 43
20443538 GAAGAAACCA
* * *
20443548 ATCTTATATCTCTGAAGTTACAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAG
* * ** * *
20443592 ATCTTATCTTTCTGAAGTTGCAGTAGAGTGGA-T-CG-CATCAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGTAAT-AG
* * ** *
20443633 GTCTTATAT-TCCTGAAGTCACAGTGGAGCAGATTAAGTAAGCAG
1 ATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAGTAA-TAG
* * * * * **
20443677 GTCTTATCCCGACTGAAGTTGCAGTGGTGCAGATCGAAGATGACCA-
1 ATCTTATCTC-TCTGAAGTTGCAGTGGAGCAGAT-TAAG-T-AATAG
* * * **
20443723 ATCTTATCTCCCTGAAGTTACACTGGAGCAGATTGAAGCCGATA-
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAG-TAATAG
* * * *
20443767 ATCTTATCTCCCTGAAGTTGTAGTTGAGCGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAG
*
20443811 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
20443844 CGTATCAAGT
Statistics
Matches: 190, Mismatches: 49, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
40 3 0.02
41 26 0.14
42 1 0.01
43 5 0.03
44 99 0.52
45 41 0.22
46 11 0.06
47 3 0.02
48 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGTAATAG
Found at i:20443738 original size:45 final size:44
Alignment explanation
Indices: 20443689--20443786 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
20443679 CTTATCCCGA
* * *
20443689 CTGAAGTTGCAGTGGTGCAGATCGAAGATGACCAATCTTATCTCC
1 CTGAAGTTGCACTGGAGCAGATCGAAGACGA-CAATCTTATCTCC
* * * *
20443734 CTGAAGTTACACTGGAGCAGATTGAAGCCGATAATCTTATCTCC
1 CTGAAGTTGCACTGGAGCAGATCGAAGACGACAATCTTATCTCC
20443778 CTGAAGTTG
1 CTGAAGTTG
20443787 TAGTTGAGCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
CTGAAGTTGCACTGGAGCAGATCGAAGACGACAATCTTATCTCC
Found at i:20449251 original size:14 final size:14
Alignment explanation
Indices: 20449232--20449258 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20449222 TAATTTTAAT
20449232 TATGATTTGAAGTA
1 TATGATTTGAAGTA
20449246 TATGATTTGAAGT
1 TATGATTTGAAGT
20449259 TTTGTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGATTTGAAGTA
Found at i:20454064 original size:72 final size:72
Alignment explanation
Indices: 20453962--20454110 Score: 205
Period size: 72 Copynumber: 2.1 Consensus size: 72
20453952 TCAGTAGTAA
* * *
20453962 TTTATGTTTAGTTTTTGGATATTGAATTTATG-TTCTACTTATTTATGT-GT-AATCTAGTTTTA
1 TTTATGTTTAGTCTTTAGATATTGAATTTATGTTTC-ACTTATTT-TGTACTAAAT-TAGTTTTA
20454024 TTAATAGTTG
63 TTAATAGTTG
* *
20454034 TTTATGTTTGGTCTTTAGATATTGAATTTATGTTTCACTTATTTTTTACTAAATTAGTTTTATTA
1 TTTATGTTTAGTCTTTAGATATTGAATTTATGTTTCACTTATTTTGTACTAAATTAGTTTTATTA
20454099 ATAGTTG
66 ATAGTTG
20454106 TTTAT
1 TTTAT
20454111 ATGTGATTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
71 2 0.03
72 61 0.88
73 6 0.09
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (72 bp):
TTTATGTTTAGTCTTTAGATATTGAATTTATGTTTCACTTATTTTGTACTAAATTAGTTTTATTA
ATAGTTG
Found at i:20456182 original size:13 final size:13
Alignment explanation
Indices: 20456161--20456237 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
20456151 ACATTCAAAA
20456161 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
20456174 TTTTGAAAAGCAC
1 TTTTCAAAAGCAC
* *
20456187 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
20456200 TTTTCTACAA-CAC
1 TTTTC-AAAAGCAC
* *
20456213 TTTTAAAAAGTAC
1 TTTTCAAAAGCAC
*
20456226 TTTTTAAAAGCA
1 TTTTCAAAAGCA
20456238 ATAAATAACT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
12 3 0.06
13 44 0.88
14 3 0.06
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:20456201 original size:26 final size:26
Alignment explanation
Indices: 20456164--20456237 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
20456154 TTCAAAATTT
* *
20456164 TCAAAAGCACTTTTGAAAAGCACTTC
1 TCAAAAGTACTTTTTAAAAGCACTTC
* *
20456190 TCAAAAGTACTTTTCTACAA-CACTTT
1 TCAAAAGTACTTTT-TAAAAGCACTTC
*
20456216 TAAAAAGTACTTTTTAAAAGCA
1 TCAAAAGTACTTTTTAAAAGCA
20456238 ATAAATAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.10
26 33 0.82
27 3 0.08
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (26 bp):
TCAAAAGTACTTTTTAAAAGCACTTC
Found at i:20459736 original size:17 final size:17
Alignment explanation
Indices: 20459714--20459749 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
20459704 AAATCCTAGA
20459714 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
*
20459731 TTTTGATACCTATATCT
1 TTTTGATACCCATATCT
20459748 TT
1 TT
20459750 GACTTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:20462187 original size:38 final size:38
Alignment explanation
Indices: 20462145--20462222 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
20462135 ATTGTATCCT
20462145 TCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCA
1 TCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCA
20462183 TCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCA
1 TCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCA
20462221 TC
1 TC
20462223 AGGAAGAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (38 bp):
TCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCA
Found at i:20468001 original size:20 final size:20
Alignment explanation
Indices: 20467976--20468013 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
20467966 AAGTTTATGC
20467976 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
20467996 TAAGTAAATGAAATGGAA
1 TAAGTAAATGAAATGGAA
20468014 TGGTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:20468009 original size:25 final size:25
Alignment explanation
Indices: 20467981--20468030 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
20467971 TATGCTAAGT
*
20467981 AAATGAAATGGAAAGTAAGTAAATG
1 AAATGAAATGGAAAGAAAGTAAATG
* *
20468006 AAATGGAATGGTAAGAAAGTAAATG
1 AAATGAAATGGAAAGAAAGTAAATG
20468031 GAGTGGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (25 bp):
AAATGAAATGGAAAGAAAGTAAATG
Found at i:20474573 original size:44 final size:44
Alignment explanation
Indices: 20474515--20474623 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
20474505 TACTATACAG
* *
20474515 CAACTTCAGAGAGATAAGATCT-GTGGATTTAATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGAT-TAGTGGATTTAATCCGCTCCACTA
* * * * * * *
20474559 TAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCTACTA
1 CAACTTCAGGGAGATAAGATTAGTGGATTTAATCCGCTCCACTA
20474603 CAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
20474624 CGCCATCTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTAGTGGATTTAATCCGCTCCACTA
Found at i:20475171 original size:133 final size:133
Alignment explanation
Indices: 20474967--20476001 Score: 1615
Period size: 133 Copynumber: 7.8 Consensus size: 133
20474957 TGCCGGTGCA
* * * *
20474967 GGAAGGCAAGATCTACTTCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * * * *
20475031 TTGATCTACTTCATGCCAATACATGAAGATAATATCTGCTTT-TTCTGATCTACTTCACCACCAG
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC-GATCTACTTCGCCACCAG
20475095 TATG
130 TATG
* *
20475099 GGAAGACAAGATCTGCGTCTTCGATCCACTTCACTACCAATATAGGAAGACAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* *
20475164 TCGATCTACTTCACGCCCATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
20475229 ATG
131 ATG
* * *
20475232 GGTAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGAATATGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * * *
20475297 TGGATCTACTTCACGCCAATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAAT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
20475362 ATG
131 ATG
* * **
20475365 GGAAGACAAGATCTACATCTTCGATCCACTTTGCTACCAATATAGGAAGACAAAATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * *
20475430 TGGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACAAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
20475495 ATG
131 ATG
* * *
20475498 GGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAAATAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* * * *
20475563 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGTTCTAATTCTCTACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
20475628 ATG
131 ATG
*
20475631 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGATAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
*
20475696 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
20475761 ATT
131 ATG
*
20475764 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGATAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* ** * *
20475829 TCGATCTACTTTACGCCAATACATGAAGACAATTTCTACTTTCTTTGATCTACTTCGCCACCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
*
20475894 ACG
131 ATG
* *
20475897 GGAAGACAATATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGATAGGATCTGTTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
* *
20475962 TGGATCTACTTCATGCCAATACATGAAGACAAGATCTGCT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
20476002 ATTTTTTAGC
Statistics
Matches: 836, Mismatches: 65, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
132 29 0.03
133 805 0.96
134 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (133 bp):
GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCT
TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATG
Found at i:20507819 original size:70 final size:70
Alignment explanation
Indices: 20507722--20507869 Score: 224
Period size: 70 Copynumber: 2.1 Consensus size: 70
20507712 AAAATCAAGG
* * * * * *
20507722 CAGTGTCGTGATACCATATCTCCATGTCGTGACATTGCACTTCAAACCTAGAAACTTCTCAAATT
1 CAGTGTCGTGACACCACATCCCCATGTCGTGACAATGCACTTCAAACCTAAAAACTTCTCAAATG
20507787 CCATA
66 CCATA
*
20507792 CAGTGTCGTGACACCACATCCCCATGTCGTGACAATGCACTTCGAACCTAAAAACTTCTCAAATG
1 CAGTGTCGTGACACCACATCCCCATGTCGTGACAATGCACTTCAAACCTAAAAACTTCTCAAATG
*
20507857 CCATC
66 CCATA
20507862 CAGTGTCG
1 CAGTGTCG
20507870 CGAAATTGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (70 bp):
CAGTGTCGTGACACCACATCCCCATGTCGTGACAATGCACTTCAAACCTAAAAACTTCTCAAATG
CCATA
Found at i:20511174 original size:19 final size:18
Alignment explanation
Indices: 20511150--20511198 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
20511140 TGTTAATTTT
20511150 TATTTTATTTTTGGTATTG
1 TATTTTATTTTTGG-ATTG
*
20511169 TATTTT-TATTTTGGATTT
1 TATTTTAT-TTTTGGATTG
20511187 TA-TTTATTTTTG
1 TATTTTATTTTTG
20511199 CATCAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.30
18 7 0.26
19 12 0.44
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.71
Consensus pattern (18 bp):
TATTTTATTTTTGGATTG
Found at i:20515187 original size:24 final size:26
Alignment explanation
Indices: 20515160--20515208 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
20515150 ATGATATGAA
20515160 AAATA-ATATAAAA-AC-ATTTAAATC
1 AAATACAT-TAAAACACTATTTAAATC
20515184 AAATACATTAAAACACTATTTAAAT
1 AAATACATTAAAACACTATTTAAAT
20515209 GTACGAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATACATTAAAACACTATTTAAATC
Done.