Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 62
Found at i:9245745 original size:10 final size:9
Alignment explanation
Indices: 9245697--9245765 Score: 50
Period size: 10 Copynumber: 7.1 Consensus size: 9
9245687 TAAATGTTAG
9245697 TAAA-AAAA
1 TAAATAAAA
9245705 TAAATAATAA
1 TAAATAA-AA
*
9245715 TAAACAAAA
1 TAAATAAAA
9245724 TATAATAAAAAA
1 TA-AAT--AAAA
9245736 TATAATAAAA
1 TA-AATAAAA
*
9245746 GAAAATAAAA
1 -TAAATAAAA
*
9245756 TGAATAAAA
1 TAAATAAAA
9245765 T
1 T
9245766 TAAAAATTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
8 4 0.08
9 14 0.28
10 21 0.42
11 1 0.02
12 10 0.20
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (9 bp):
TAAATAAAA
Found at i:9247109 original size:75 final size:74
Alignment explanation
Indices: 9247019--9247399 Score: 382
Period size: 75 Copynumber: 5.2 Consensus size: 74
9247009 ATATAAATTA
* * *
9247019 TATATTATATATAAGTTTTCAAAAATG-TTTAAAAACTATATAATATATAAATGTTTTCGAAAAT
1 TATATAATATATAAGTTTTCAAAAATGTTTTAAAAACTATAT-ATATATATAT-TTTTCAAAAAT
*
9247083 GTTTTCAAAAC
64 GTTTTAAAAAC
* *
9247094 TATGTAATATATAAGTTTTCAAAAATGTTTTCAAAAACTATATAT-TATATATATTTTAAAAAAT
1 TATATAATATATAAGTTTTCAAAAATGTTTT-AAAAACTATATATATATATAT-TTTTCAAAAAT
* *
9247158 ATTTTCAAAAC
64 GTTTTAAAAAC
*
9247169 TATATAATATAT--GTTTTCGAAAATGTTTTTTAAAAAACTATATAT-TATATATTTTTC-AAAA
1 TATATAATATATAAGTTTTCAAAAATG--TTTT-AAAAACTATATATATATATATTTTTCAAAAA
9247230 TGTTTTTAAAAAAAC
63 TG-TTTT--AAAAAC
* * *
9247245 TATATATTATAT-ATTTTTC-AAAATGATTTTAAAAAC------TATATATA-TTTTCTAAAATG
1 TATATAATATATAAGTTTTCAAAAATG-TTTTAAAAACTATATATATATATATTTTTCAAAAATG
9247301 TTTTAAAAAC
65 TTTTAAAAAC
* * * *
9247311 TATACATTATATAA-TTTTAAAAAATATTTTAAAAACTATATAATATATATATTTTT-AAAAATG
1 TATATAATATATAAGTTTTCAAAAATGTTTTAAAAACTATAT-ATATATATATTTTTCAAAAATG
9247374 TTTTAAAAAC
65 TTTTAAAAAC
*
9247384 TATATATTATATAAGT
1 TATATAATATATAAGT
9247400 ATTTTGAATA
Statistics
Matches: 264, Mismatches: 21, Indels: 43
0.80 0.06 0.13
Matches are distributed among these distances:
66 31 0.12
67 6 0.02
68 10 0.04
69 12 0.05
73 54 0.20
74 19 0.07
75 89 0.34
76 27 0.10
77 16 0.06
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (74 bp):
TATATAATATATAAGTTTTCAAAAATGTTTTAAAAACTATATATATATATATTTTTCAAAAATGT
TTTAAAAAC
Found at i:9247113 original size:37 final size:37
Alignment explanation
Indices: 9247019--9247399 Score: 355
Period size: 38 Copynumber: 10.4 Consensus size: 37
9247009 ATATAAATTA
*
9247019 TATATTATATATAAGTTTTCAAAAATG-TTTAAAAAC
1 TATATAATATATAAGTTTTCAAAAATGTTTTAAAAAC
* *
9247055 TATATAATATATAAATGTTTTCGAAAATGTTTTCAAAAC
1 TATATAATATAT-AA-GTTTTCAAAAATGTTTTAAAAAC
*
9247094 TATGTAATATATAAGTTTTCAAAAATGTTTTCAAAAAC
1 TATATAATATATAAGTTTTCAAAAATGTTTT-AAAAAC
* * * *
9247132 TATATATTATATATA-TTTTAAAAAATATTTTCAAAAC
1 TATATAATATATA-AGTTTTCAAAAATGTTTTAAAAAC
*
9247169 TATATAATATAT--GTTTTCGAAAATGTTTTTTAAAAAAC
1 TATATAATATATAAGTTTTCAAAAATG--TTTT-AAAAAC
* *
9247207 TATATATTATAT-ATTTTTC-AAAATGTTTTTAAAAAAAC
1 TATATAATATATAAGTTTTCAAAAATG-TTTT--AAAAAC
* *
9247245 TATATATTATAT-ATTTTTC-AAAATGATTTTAAAAAC
1 TATATAATATATAAGTTTTCAAAAATG-TTTTAAAAAC
*
9247281 ----T-ATATAT-A-TTTTCTAAAATGTTTTAAAAAC
1 TATATAATATATAAGTTTTCAAAAATGTTTTAAAAAC
* * * *
9247311 TATACATTATATAA-TTTTAAAAAATATTTTAAAAAC
1 TATATAATATATAAGTTTTCAAAAATGTTTTAAAAAC
*
9247347 TATATAATATATATA-TTTTTAAAAATGTTTTAAAAAC
1 TATATAATATATA-AGTTTTCAAAAATGTTTTAAAAAC
*
9247384 TATATATTATATAAGT
1 TATATAATATATAAGT
9247400 ATTTTGAATA
Statistics
Matches: 295, Mismatches: 30, Indels: 39
0.81 0.08 0.11
Matches are distributed among these distances:
30 15 0.05
31 12 0.04
32 1 0.00
35 14 0.05
36 49 0.17
37 77 0.26
38 102 0.35
39 25 0.08
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATAATATATAAGTTTTCAAAAATGTTTTAAAAAC
Found at i:9247290 original size:31 final size:31
Alignment explanation
Indices: 9247252--9247352 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 31
9247242 AACTATATAT
9247252 TATATATTTTTCAAAATGATTTTAAAAACTA
1 TATATATTTTTCAAAATGATTTTAAAAACTA
9247283 TATATA-TTTTCTAAAATG-TTTTAAAAACTA
1 TATATATTTTTC-AAAATGATTTTAAAAACTA
*
9247313 TACATTATATAATTTTAAAAAAT-ATTTTAAAAACTA
1 T--A-TATAT--TTTT-CAAAATGATTTTAAAAACTA
9247349 TATA
1 TATA
9247353 ATATATATAT
Statistics
Matches: 60, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
30 18 0.30
31 12 0.20
32 1 0.02
33 6 0.10
34 1 0.02
36 22 0.37
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.45
Consensus pattern (31 bp):
TATATATTTTTCAAAATGATTTTAAAAACTA
Found at i:9247305 original size:30 final size:29
Alignment explanation
Indices: 9247252--9247314 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 29
9247242 AACTATATAT
9247252 TATATATTTTTCAAAATGATTTTAAAAAC
1 TATATATTTTTCAAAATGATTTTAAAAAC
9247281 TATATATATTTTCTAAAATG-TTTTAAAAAC
1 TATATAT-TTTTC-AAAATGATTTTAAAAAC
9247311 TATA
1 TATA
9247315 CATTATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 7 0.22
30 19 0.59
31 6 0.19
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (29 bp):
TATATATTTTTCAAAATGATTTTAAAAAC
Found at i:9247322 original size:142 final size:139
Alignment explanation
Indices: 9247139--9247396 Score: 342
Period size: 142 Copynumber: 1.8 Consensus size: 139
9247129 AACTATATAT
* * * ** *
9247139 TATATATATTTTAAAAAATATTTTCAAAACTATATAATATAT-GTTTTCGAAAATGTTTTTTAAA
1 TATATATATTTTAAAAAATATTTTAAAAACTATACAATATATAATTTT--AAAAAATATTTT-AA
*
9247203 AAACTATAT-AT-TATATATTTTTCAAAATGTTTTTAAAAAAACTATATATTATATATTTTTCAA
63 AAACTATATAATATATATATTTTTAAAAATG-TTTT--AAAAACTATATATTATATATTTTTCAA
9247266 AATGATTTTAAAAAC
125 AATGATTTTAAAAAC
** * *
9247281 TATATATATTTTCTAAAATGTTTTAAAAACTATACATTATATAATTTTAAAAAATATTTTAAAAA
1 TATATATATTTTAAAAAATATTTTAAAAACTATACAATATATAATTTTAAAAAATATTTTAAAAA
9247346 CTATATAATATATATATTTTTAAAAATGTTTTAAAAACTATATATTATATA
66 CTATATAATATATATATTTTTAAAAATGTTTTAAAAACTATATATTATATA
9247397 AGTATTTTGA
Statistics
Matches: 102, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
139 19 0.19
140 11 0.11
141 15 0.15
142 53 0.52
143 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (139 bp):
TATATATATTTTAAAAAATATTTTAAAAACTATACAATATATAATTTTAAAAAATATTTTAAAAA
CTATATAATATATATATTTTTAAAAATGTTTTAAAAACTATATATTATATATTTTTCAAAATGAT
TTTAAAAAC
Found at i:9248549 original size:3 final size:3
Alignment explanation
Indices: 9248541--9248566 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9248531 GGCCTTGTAA
9248541 TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TA
9248567 ATAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:9248571 original size:3 final size:3
Alignment explanation
Indices: 9248565--9248611 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
9248555 GTAGTAGTAG
9248565 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9248611 T
1 T
9248612 GTAAGGTAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9249096 original size:203 final size:202
Alignment explanation
Indices: 9248834--9249305 Score: 642
Period size: 203 Copynumber: 2.3 Consensus size: 202
9248824 TCTCTCAGAA
* * *
9248834 ATGTTGATCCAACTCATTATGTGATGGAATCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAA
1 ATGTTG-TCAAACTCCTTATGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAA
* *
9248899 CTTCTTCCCCCTCATTGAATAAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGAAT-CAC
65 CTTCTTCCCCCTCATTGAACAAGTTCTTCTCATTATGAACTCTCCACTGAAAATGTTG-ATCCAC
* * * * * * *
9248963 CT-TCTTTTGTGATGGAATCGAACAAAGTGATGATGTTGATCCAACTCCATATACGATGGATGAG
129 CTCT-TTTTATGATAGAATCGAACAAAGTGATGATGCTGATACAAATCCATATACAATAGATGAG
9249027 CCAAGTATTG
193 CCAAGTATTG
* * *
9249037 ATGTTGTTCAAACTCCTTATGTGTTGGAATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAA
1 ATGTTG-TCAAACTCCTTATGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAA
** * * * * *
9249102 CTTCTTTTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCCATTTAAAATGTTGATCCACC
65 CTTCTTCCCCCTCATTGAACAAGTTCTTCTCATTATGAACTCTCCACTGAAAATGTTGATCCACC
*
9249167 TCTTTTTATGATAGAATCGAACAAAGTGATGATGCTGATACAAATCCATATGCAATAGATGAGCC
130 TCTTTTTATGATAGAATCGAACAAAGTGATGATGCTGATACAAATCCATATACAATAGATGAGCC
9249232 AAGTATTG
195 AAGTATTG
* * * *
9249240 ATGTTGTCTTAACTCCTTATGTGATGGAAACGAGCCAAGGTTGAACAAGTTCTTCGCATTATGAA
1 ATGTTGTC-AAACTCCTTATGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAA
9249305 C
65 C
9249306 CCTTCCATTG
Statistics
Matches: 236, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
202 4 0.02
203 231 0.98
204 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (202 bp):
ATGTTGTCAAACTCCTTATGTGATGGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCCCCCTCATTGAACAAGTTCTTCTCATTATGAACTCTCCACTGAAAATGTTGATCCACCT
CTTTTTATGATAGAATCGAACAAAGTGATGATGCTGATACAAATCCATATACAATAGATGAGCCA
AGTATTG
Found at i:9249947 original size:6 final size:6
Alignment explanation
Indices: 9249893--9249934 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
9249883 TGAACATTCC
9249893 TTTTCA TTTCATCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTT--TCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
9249935 TCCTTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 28 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:9252319 original size:21 final size:21
Alignment explanation
Indices: 9252281--9252320 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9252271 ATATGTGTTA
* **
9252281 TATGTGGTCCTTTGGGACATT
1 TATGTGGTCATTCAGGACATT
9252302 TATGTGGTCATTCAGGACA
1 TATGTGGTCATTCAGGACA
9252321 AATCCTATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (21 bp):
TATGTGGTCATTCAGGACATT
Found at i:9255236 original size:26 final size:25
Alignment explanation
Indices: 9255207--9255495 Score: 233
Period size: 26 Copynumber: 12.1 Consensus size: 25
9255197 TTATTCTTAA
*
9255207 CTTTTAGTTATGGCATCATTTCATGC
1 CTTTTA-TTATGGCATCCTTTCATGC
9255233 CTTTTAATTATGGCATCCTTTCATGC
1 CTTTT-ATTATGGCATCCTTTCATGC
9255259 C--TTA--AT-GCATCCTTTCATGC
1 CTTTTATTATGGCATCCTTTCATGC
* * *
9255279 ATTTTAGTTATGACATCATTTCATGC
1 CTTTTA-TTATGGCATCCTTTCATGC
* * *
9255305 ATTTTAATTATGGCATCATTTCATTC
1 CTTTT-ATTATGGCATCCTTTCATGC
*
9255331 C--TTA--AT-GAAT-CTTTCATGC
1 CTTTTATTATGGCATCCTTTCATGC
*
9255350 ATTTTAGTTATGGCATCCTTTCATGC
1 CTTTTA-TTATGGCATCCTTTCATGC
*
9255376 ATTTTAATTATGGCATCCTTTCATGC
1 CTTTT-ATTATGGCATCCTTTCATGC
*
9255402 C--TTA--AT-GCATCATTTCATGC
1 CTTTTATTATGGCATCCTTTCATGC
*
9255422 ATTTTAGTTATGGCATCCTTTCATGC
1 CTTTTA-TTATGGCATCCTTTCATGC
*
9255448 C--TTA--AT-GCATTCTTTCATGC
1 CTTTTATTATGGCATCCTTTCATGC
*
9255468 ATTTTAATTATGGCATCCTTTCATGC
1 CTTTT-ATTATGGCATCCTTTCATGC
9255494 CT
1 CT
9255496 AAATGCATTA
Statistics
Matches: 214, Mismatches: 21, Indels: 56
0.74 0.07 0.19
Matches are distributed among these distances:
19 7 0.03
20 43 0.20
21 11 0.05
22 8 0.04
23 4 0.02
24 11 0.05
25 9 0.04
26 118 0.55
27 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (25 bp):
CTTTTATTATGGCATCCTTTCATGC
Found at i:9255275 original size:46 final size:46
Alignment explanation
Indices: 9255219--9255571 Score: 362
Period size: 46 Copynumber: 7.6 Consensus size: 46
9255209 TTTAGTTATG
*
9255219 GCATCATTTCATGCCTTTTAATTATGGCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
* * * * *
9255265 GCATCCTTTCATGCATTTTAGTTATGACATCATTTCATGCATTTTAATTAT
1 GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGC--CTT-A--AT
* * * *
9255316 GGCATCATTTCATTC--CTT-A--AT-GAAT-CTTTCATGCATTTTAGTTAT
1 -GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGC--CTTA---AT
*
9255361 GGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
1 -GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
*
9255408 GCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
*
9255454 GCATTC-TTTCATGCATTTTAATTATGGCATCCTTTCATGCCTAAAT
1 GCA-TCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
* * *
9255500 GCATTATTTCATACATTTTAATTATGGAATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
* * *
9255546 GCATCCTTTCAGGCATTTTAGTTATG
1 GCATCATTTCATGCATTTTAATTATG
9255572 AATTCATTTT
Statistics
Matches: 260, Mismatches: 31, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.00
45 31 0.12
46 183 0.70
47 8 0.03
48 3 0.01
49 1 0.00
50 7 0.03
51 5 0.02
52 21 0.08
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (46 bp):
GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
Found at i:9255417 original size:20 final size:20
Alignment explanation
Indices: 9255388--9255556 Score: 86
Period size: 20 Copynumber: 7.5 Consensus size: 20
9255378 TTTAATTATG
9255388 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
9255408 GCATCATTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
9255433 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
9255454 GCATTCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
9255479 GGCATCCTTTCATGCCTAAAT
1 -GCATCCTTTCATGCCTTAAT
** * *
9255500 GCATTATTTCATACATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
9255525 GGAATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
9255546 GCATCCTTTCA
1 GCATCCTTTCA
9255557 GGCATTTTAG
Statistics
Matches: 111, Mismatches: 20, Indels: 36
0.66 0.12 0.22
Matches are distributed among these distances:
20 47 0.42
21 6 0.05
22 6 0.05
23 4 0.04
24 6 0.05
25 6 0.05
26 36 0.32
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:9256192 original size:96 final size:95
Alignment explanation
Indices: 9255988--9256170 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 95
9255978 TACTACTACC
* * * * *
9255988 CTGGTATCGATACTTCTATACTATGGTACCGATACCCCATTTCAGTATTGATACCATTTTTATAT
1 CTGGTATCGATACTACTATAATATGGTACCGATACCCCATTTCAGTATCGATACCATTTTGACAT
* *
9256053 TCTGTGTTGGCATGGTATCGATACCTTTCT
66 TCTGTGATGCCATGGTATCGATACCTTTCT
* ** *
9256083 CTCAGTATCGATACTACTATAATATGGTATTGATACCCCCTTTCAGTATCGATACCATTTTGACA
1 CT-GGTATCGATACTACTATAATATGGTACCGATACCCCATTTCAGTATCGATACCATTTTGACA
9256148 TTCTG-GAT-CCATGGTATCGATAC
65 TTCTGTGATGCCATGGTATCGATAC
9256171 TTCCCTTTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
94 14 0.18
95 4 0.05
96 58 0.76
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (95 bp):
CTGGTATCGATACTACTATAATATGGTACCGATACCCCATTTCAGTATCGATACCATTTTGACAT
TCTGTGATGCCATGGTATCGATACCTTTCT
Found at i:9258459 original size:14 final size:14
Alignment explanation
Indices: 9258440--9258466 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9258430 TGAATGTAAC
9258440 GAATAAAGAATATG
1 GAATAAAGAATATG
9258454 GAATAAAGAATAT
1 GAATAAAGAATAT
9258467 TGTGCAAAGA
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:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
GAATAAAGAATATG
Found at i:9259649 original size:20 final size:20
Alignment explanation
Indices: 9259626--9259690 Score: 130
Period size: 20 Copynumber: 3.2 Consensus size: 20
9259616 AAGCCTTGAT
9259626 GGATCCTATCCCACCTTTAA
1 GGATCCTATCCCACCTTTAA
9259646 GGATCCTATCCCACCTTTAA
1 GGATCCTATCCCACCTTTAA
9259666 GGATCCTATCCCACCTTTAA
1 GGATCCTATCCCACCTTTAA
9259686 GGATC
1 GGATC
9259691 TCATCATCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (20 bp):
GGATCCTATCCCACCTTTAA
Found at i:9267677 original size:18 final size:18
Alignment explanation
Indices: 9267651--9267685 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9267641 GAGCGGCGGC
*
9267651 TGTGGGAACCATCCTGGT
1 TGTGAGAACCATCCTGGT
9267669 TGTGAGAACCATCCTGG
1 TGTGAGAACCATCCTGG
9267686 CGGTGGCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
TGTGAGAACCATCCTGGT
Found at i:9267838 original size:3 final size:3
Alignment explanation
Indices: 9267832--9267891 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
9267822 CAACAACAAC
9267832 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9267880 AAT AAT AAT AAT
1 AAT AAT AAT AAT
9267892 GTAAGGTAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9270901 original size:23 final size:23
Alignment explanation
Indices: 9270874--9270917 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9270864 AACACAATTT
*
9270874 AATTTGCCAAGACATTTTCATCC
1 AATTTGCCAAGACATATTCATCC
*
9270897 AATTTGCCACGACATATTCAT
1 AATTTGCCAAGACATATTCAT
9270918 TTGCTACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (23 bp):
AATTTGCCAAGACATATTCATCC
Found at i:9274063 original size:10 final size:10
Alignment explanation
Indices: 9274044--9274082 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
9274034 AATTCATTGT
9274044 TATATATATG
1 TATATATATG
*
9274054 TATATGTATG
1 TATATATATG
*
9274064 TATATATATA
1 TATATATATG
9274074 TATATATAT
1 TATATATAT
9274083 TTATGCTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:9274071 original size:4 final size:4
Alignment explanation
Indices: 9274044--9274082 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
9274034 AATTCATTGT
* * *
9274044 TATA TATA TGTA TATG TATG TATA TATA TATA TATA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
9274083 TTATGCTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:9274081 original size:6 final size:6
Alignment explanation
Indices: 9274044--9274082 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
9274034 AATTCATTGT
* * *
9274044 TATATA TATGTA TATGTA TGTATA TATATA TATATA TAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TAT
9274083 TTATGCTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:9280666 original size:18 final size:18
Alignment explanation
Indices: 9280642--9280692 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
9280632 AGGGATTATC
*
9280642 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
* *
9280660 TGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
9280678 AGTGGTCCTTCGGGA
1 AGTGGTCCTTCGGGA
9280693 ACAAATATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.18, G:0.35, T:0.33
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:9281812 original size:23 final size:25
Alignment explanation
Indices: 9281777--9281828 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
9281767 ATCAGTAAAG
9281777 AAATTGCAAGCACTC-AAAAGAAAA
1 AAATTGCAAGCACTCAAAAAGAAAA
*
9281801 AAATT-CAAGCACTCAAAAAGAAGA
1 AAATTGCAAGCACTCAAAAAGAAAA
9281825 AAAT
1 AAAT
9281829 AAAAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.60, C:0.15, G:0.12, T:0.13
Consensus pattern (25 bp):
AAATTGCAAGCACTCAAAAAGAAAA
Found at i:9286490 original size:27 final size:27
Alignment explanation
Indices: 9286452--9286515 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
9286442 AGGCACCGCC
9286452 TTCTGGAAGATGGACGAGCA-AAGTTTA
1 TTCTGGAAGATGGACGAGCAGAA-TTTA
*
9286479 TTCTGGAAGATGGACGAGTAGAATTTA
1 TTCTGGAAGATGGACGAGCAGAATTTA
*
9286506 TTCTAGAAGA
1 TTCTGGAAGA
9286516 ACTCGTCAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (27 bp):
TTCTGGAAGATGGACGAGCAGAATTTA
Found at i:9290379 original size:103 final size:103
Alignment explanation
Indices: 9290208--9290415 Score: 362
Period size: 103 Copynumber: 2.0 Consensus size: 103
9290198 TAATGTCCAT
** *
9290208 AAGGACCACATATCATTCCTTAAGAATCATATACATATATTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
9290273 GACTTCACACATGTTCTAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
*
9290311 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
9290376 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
9290414 AA
1 AA
9290416 AGATCGCGTA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:9290566 original size:24 final size:24
Alignment explanation
Indices: 9290538--9290590 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
9290528 TGTAGTTCTT
*
9290538 TCACATAGCTCATAGT-CATATAAA
1 TCACATAGCACATA-TACATATAAA
*
9290562 TCACATATCACATATACATATAAA
1 TCACATAGCACATATACATATAAA
9290586 -CACAT
1 TCACAT
9290591 GGTTCACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (24 bp):
TCACATAGCACATATACATATAAA
Found at i:9292747 original size:103 final size:103
Alignment explanation
Indices: 9292563--9292780 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
9292553 GTCGAGGGTC
*
9292563 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
9292628 TTGATCCTTGGCATATGTATATGATTCTTATGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
9292666 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
9292731 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
9292769 TATGTGGTCCTT
1 TATGTGGTCCTT
9292781 ATGGATATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:9292830 original size:23 final size:23
Alignment explanation
Indices: 9292797--9292862 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
9292787 ATTATTATAT
*
9292797 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
9292820 GGCACTCCGGTGCAATTATACGT
1 GGCACTACGGTGCAATTATACGC
** *
9292843 GGTGCTTCGGTGCAATTATA
1 GGCACTACGGTGCAATTATA
9292863 TGAGCTGTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:9293136 original size:2 final size:2
Alignment explanation
Indices: 9293129--9293153 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9293119 TTTATGATAG
9293129 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9293154 GGTTTACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9299284 original size:24 final size:24
Alignment explanation
Indices: 9299257--9299335 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
9299247 TTCACGTCAT
*
9299257 ATCTCTTCTTATTAACATCATCAC
1 ATCTCTTCATATTAACATCATCAC
* *
9299281 ATCTTTTCATGTTAACATCAT---
1 ATCTCTTCATATTAACATCATCAC
* *
9299302 ATCTCTTCATATTGATATCATCAC
1 ATCTCTTCATATTAACATCATCAC
*
9299326 TTCTCTTCAT
1 ATCTCTTCAT
9299336 GTTAGCATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 17 0.39
24 27 0.61
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.46
Consensus pattern (24 bp):
ATCTCTTCATATTAACATCATCAC
Found at i:9299305 original size:21 final size:21
Alignment explanation
Indices: 9299253--9299390 Score: 77
Period size: 21 Copynumber: 6.4 Consensus size: 21
9299243 ATTGTTCACG
* *
9299253 TCATATCTCTTCTTATTAACA
1 TCATATCTCTTCATGTTAACA
*
9299274 TCATCACATCTTTTCATGTTAACA
1 TCAT---ATCTCTTCATGTTAACA
*
9299298 TCATATCTCTTCATATTGATATCA
1 TCATATCTCTTCATGTT-A-A-CA
*
9299322 TCACT-TCTCTTCATGTTAGCA
1 TCA-TATCTCTTCATGTTAACA
*
9299343 T--TATCTCTTCAT-TCAAACA
1 TCATATCTCTTCATGT-TAACA
* * * *
9299362 TTACATCTCTTCATATTCACA
1 TCATATCTCTTCATGTTAACA
*
9299383 TTATATCT
1 TCATATCT
9299391 TCGTGAATCA
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
18 2 0.02
19 13 0.14
21 38 0.41
22 2 0.02
23 2 0.02
24 34 0.37
25 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.45
Consensus pattern (21 bp):
TCATATCTCTTCATGTTAACA
Found at i:9299307 original size:45 final size:45
Alignment explanation
Indices: 9299238--9299354 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 45
9299228 ATATTGTATT
* * *
9299238 TTTTCATTGTTCACGTCATATCTCTTCTTATTAACATCATCACATC
1 TTTTCA-TGTTAACATCATATCTCTTCATATTAACATCATCACATC
* * *
9299284 TTTTCATGTTAACATCATATCTCTTCATATTGATATCATCACTTC
1 TTTTCATGTTAACATCATATCTCTTCATATTAACATCATCACATC
* *
9299329 TCTTCATGTTAGCAT--TATCTCTTCAT
1 TTTTCATGTTAACATCATATCTCTTCAT
9299355 TCAAACATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 11 0.17
45 46 0.73
46 6 0.10
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (45 bp):
TTTTCATGTTAACATCATATCTCTTCATATTAACATCATCACATC
Found at i:9299650 original size:53 final size:53
Alignment explanation
Indices: 9299592--9299693 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
9299582 TCCTTAATTA
9299592 AAAAATATGATAGGTGAGGATCTAACCACCTCGAAGCAAATTAATTATAAAAT
1 AAAAATATGATAGGTGAGGATCTAACCACCTCGAAGCAAATTAATTATAAAAT
** *
9299645 AAAAATATGATAGGTGAGGATCTAACCTTCTCGAAGCAAGTTAATTATA
1 AAAAATATGATAGGTGAGGATCTAACCACCTCGAAGCAAATTAATTATA
9299694 TCATAGGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (53 bp):
AAAAATATGATAGGTGAGGATCTAACCACCTCGAAGCAAATTAATTATAAAAT
Found at i:9300732 original size:14 final size:14
Alignment explanation
Indices: 9300693--9300733 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9300683 ATAAATTACA
* *
9300693 TTTCTGGAAAACGT
1 TTTCCGGAAAATGT
9300707 TTTCCGGAAAATGT
1 TTTCCGGAAAATGT
*
9300721 TTTCCGTAAAATG
1 TTTCCGGAAAATG
9300734 AATTACATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (14 bp):
TTTCCGGAAAATGT
Found at i:9300878 original size:19 final size:19
Alignment explanation
Indices: 9300856--9300943 Score: 65
Period size: 19 Copynumber: 4.6 Consensus size: 19
9300846 ATTAAATACA
*
9300856 ATAAATAATATTATTTATC
1 ATAAATAATATTATTTATT
* *
9300875 ATAAA-ACTTATTTTATTATT
1 ATAAATA-ATATTAT-TTATT
*
9300895 AAAAATAAT-TTATTTATT
1 ATAAATAATATTATTTATT
* *
9300913 ATTAAATAGTATT-TTGATAT
1 A-TAAATAATATTATTTAT-T
9300933 ATAAATAATAT
1 ATAAATAATAT
9300944 AATATTATTC
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
18 7 0.13
19 32 0.60
20 13 0.25
21 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAAATAATATTATTTATT
Found at i:9300911 original size:18 final size:18
Alignment explanation
Indices: 9300858--9300913 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
9300848 TAAATACAAT
9300858 AAATAATATTATTTATCATAA
1 AAATAAT-TTATTTAT--TAA
* *
9300879 AACTTATTT-TATTATTAA
1 AAATAATTTAT-TTATTAA
9300897 AAATAATTTATTTATTA
1 AAATAATTTATTTATTA
9300914 TTAAATAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 16 0.55
19 2 0.07
20 6 0.21
21 5 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAATTTATTTATTAA
Found at i:9301070 original size:28 final size:28
Alignment explanation
Indices: 9300937--9301053 Score: 93
Period size: 28 Copynumber: 4.2 Consensus size: 28
9300927 TGATATATAA
9300937 ATAATATAATATTATTCATTATTAAATAT
1 ATAA-ATAATATTATTCATTATTAAATAT
*
9300966 ATAAATATTAATTAGTAT-ATT-TTAAATAT
1 ATAAATAAT-ATTA-T-TCATTATTAAATAT
* * * * *
9300995 CTTTATTAA-AATATT-A-T-TTAAGTAT
1 -ATAAATAATATTATTCATTATTAAATAT
9301020 ATAAATAATATTATTCATTATTAAATAT
1 ATAAATAATATTATTCATTATTAAATAT
9301048 ATAAAT
1 ATAAAT
9301054 TTTTTTATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
24 5 0.07
25 13 0.19
26 3 0.04
27 2 0.03
28 20 0.29
29 16 0.24
30 8 0.12
31 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (28 bp):
ATAAATAATATTATTCATTATTAAATAT
Found at i:9301133 original size:15 final size:16
Alignment explanation
Indices: 9301095--9301151 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 16
9301085 ATAATATCTT
9301095 ATATTATTATAATATA
1 ATATTATTATAATATA
*
9301111 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
9301128 ATATTA--AAAATATA
1 ATATTATTATAATATA
9301142 ATATT-TTATA
1 ATATTATTATA
9301152 TTATTATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
14 10 0.31
15 6 0.19
16 2 0.06
17 8 0.25
18 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:9301148 original size:26 final size:24
Alignment explanation
Indices: 9301079--9301164 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 24
9301069 TATTAAAATA
*
9301079 AAAAATATAATATCTTATATTATT
1 AAAAATATAATATTTTATATTATT
* *
9301103 ATAATATAATTGATTATTTTATATAATATT
1 A-AAAAT-A-T-AATATTTTATAT--TATT
9301133 AAAAATATAATATTTTATATTATT
1 AAAAATATAATATTTTATATTATT
*
9301157 ATAAATAT
1 AAAAATAT
9301165 TAATGAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
24 12 0.24
25 4 0.08
26 12 0.24
27 2 0.04
28 11 0.22
29 4 0.08
30 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
AAAAATATAATATTTTATATTATT
Found at i:9301415 original size:42 final size:42
Alignment explanation
Indices: 9301369--9301464 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
9301359 ATCAATTAGG
* *
9301369 TGAAACAAACACGATAAAATA-TTTTCTAAAAAACGAATTACA
1 TGAAACAAACACGAGAAAATATTTTTC-AAAAAACAAATTACA
* * *
9301411 TGAAACAAACAAGAGAAAATATTTTTCAAAAAATAAATTACG
1 TGAAACAAACACGAGAAAATATTTTTCAAAAAACAAATTACA
*
9301453 TAAAACAAACAC
1 TGAAACAAACAC
9301465 AAAAATTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.22
Consensus pattern (42 bp):
TGAAACAAACACGAGAAAATATTTTTCAAAAAACAAATTACA
Found at i:9315597 original size:44 final size:44
Alignment explanation
Indices: 9315549--9315638 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
9315539 TTTTCTATTC
* * * *
9315549 TACTGTGAAGGTTTTTATGGCAGGGGGTGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
9315593 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
9315637 TA
1 TA
9315639 TTGTTATTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (44 bp):
TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
Found at i:9316437 original size:18 final size:18
Alignment explanation
Indices: 9316414--9316460 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
9316404 TGCCAAGACA
9316414 ACTGGCTTGTGCATCAAC
1 ACTGGCTTGTGCATCAAC
9316432 ACTGGCTTGTGCATCAAC
1 ACTGGCTTGTGCATCAAC
*
9316450 ACTGTCTTGTG
1 ACTGGCTTGTG
9316461 GACCGGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (18 bp):
ACTGGCTTGTGCATCAAC
Found at i:9317985 original size:2 final size:2
Alignment explanation
Indices: 9317978--9318002 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9317968 AATCTTCTTA
9317978 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
9318003 TGTTACCCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9320999 original size:34 final size:35
Alignment explanation
Indices: 9320955--9321032 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
9320945 CTTAAAATTT
* *
9320955 TAATACATGCATCAT-ACATACATAT-ATACATACA
1 TAATATATGCAT-ATAACATACATATCATACACACA
**
9320989 TAATATATGCATATAACATATGTATCATACACACA
1 TAATATATGCATATAACATACATATCATACACACA
9321024 TCAATATAT
1 T-AATATAT
9321033 TTTTAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 2 0.05
34 19 0.51
35 9 0.24
36 7 0.19
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (35 bp):
TAATATATGCATATAACATACATATCATACACACA
Found at i:9322545 original size:12 final size:12
Alignment explanation
Indices: 9322522--9322556 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
9322512 TTAACAAATC
9322522 ATTTTACTTTATA
1 ATTTT-CTTTATA
9322535 ATTTTCTTTATA
1 ATTTTCTTTATA
*
9322547 ATTTTTTTTA
1 ATTTTCTTTA
9322557 CATTTTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTCTTTATA
Found at i:9322751 original size:34 final size:36
Alignment explanation
Indices: 9322704--9322775 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 36
9322694 AATTTTAAAC
*
9322704 ATGCATCATACATACATAT-ATACATACAT-AATAT
1 ATGCATCATACATACATATCATACACACATCAATAT
**
9322738 ATGCAT-ATAACATATGTATCATACACACATCAATAT
1 ATGCATCAT-ACATACATATCATACACACATCAATAT
9322774 AT
1 AT
9322776 TTTTATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.06
34 14 0.44
35 9 0.28
36 7 0.22
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (36 bp):
ATGCATCATACATACATATCATACACACATCAATAT
Found at i:9322868 original size:4 final size:4
Alignment explanation
Indices: 9322861--9322905 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
9322851 ATGCATGCAT
* * *
9322861 CATA CATA CATA CATA TATA CATA CATA TATG CATA CATA TCATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA -CATA
9322906 AAATCAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (4 bp):
CATA
Found at i:9322881 original size:12 final size:12
Alignment explanation
Indices: 9322861--9322901 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
9322851 ATGCATGCAT
*
9322861 CATACATACATA
1 CATATATACATA
9322873 CATATATACATA
1 CATATATACATA
*
9322885 CATATATGCATA
1 CATATATACATA
9322897 CATAT
1 CATAT
9322902 CATAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (12 bp):
CATATATACATA
Found at i:9323178 original size:2 final size:2
Alignment explanation
Indices: 9323173--9323295 Score: 207
Period size: 2 Copynumber: 63.0 Consensus size: 2
9323163 TTATATAGTT
9323173 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
9323215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GG T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9323256 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9323296 AAATATAAAT
Statistics
Matches: 115, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
1 3 0.03
2 112 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9323551 original size:2 final size:2
Alignment explanation
Indices: 9323540--9323570 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9323530 ATAGTGTTTC
9323540 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9323571 ATCTATAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9323839 original size:19 final size:20
Alignment explanation
Indices: 9323803--9323840 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9323793 AAATTTTCTA
9323803 TTCCCTCTAAATTTCCCAAT
1 TTCCCTCTAAATTTCCCAAT
9323823 TTCCCTCTAAA-TTCCCAA
1 TTCCCTCTAAATTTCCCAA
9323841 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (20 bp):
TTCCCTCTAAATTTCCCAAT
Found at i:9323915 original size:2 final size:2
Alignment explanation
Indices: 9323908--9324075 Score: 71
Period size: 2 Copynumber: 83.0 Consensus size: 2
9323898 ACTTTGAATA
9323908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * * * * *
9323949 AA AT -T AT AGT TT AT AA ACT AT AT ACT TT TT AT -T GT TT AT AC
1 AT AT AT AT A-T AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT
* * * * *
9323990 AT AT AT AGT TT AC AT AT AT AT AGT TT AC AT AT AT AGT TT AT AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT
* *
9324033 AT AT AGT TT AT AT AT AA ACT -T AT AT -T AT AT AT AT AT AT -T AT
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
9324074 AT
1 AT
9324076 TTTTTTTCAA
Statistics
Matches: 124, Mismatches: 26, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
1 7 0.06
2 108 0.87
3 9 0.07
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9324005 original size:13 final size:13
Alignment explanation
Indices: 9323987--9324048 Score: 88
Period size: 13 Copynumber: 4.6 Consensus size: 13
9323977 TTATTGTTTA
9323987 TACATATATAGTT
1 TACATATATAGTT
9324000 TACATATATATAGTT
1 TAC--ATATATAGTT
9324015 TACATATATAGTT
1 TACATATATAGTT
*
9324028 TATATATATAGTT
1 TACATATATAGTT
*
9324041 TATATATA
1 TACATATA
9324049 AACTTATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
13 33 0.72
15 13 0.28
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (13 bp):
TACATATATAGTT
Found at i:9324019 original size:28 final size:26
Alignment explanation
Indices: 9323987--9324048 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
9323977 TTATTGTTTA
9323987 TACATATATAGTTTACATATATATAGTT
1 TACATATATAGTTT--ATATATATAGTT
9324015 TACATATATAGTTTATATATATAGTT
1 TACATATATAGTTTATATATATAGTT
*
9324041 TATATATA
1 TACATATA
9324049 AACTTATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 19 0.58
28 14 0.42
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (26 bp):
TACATATATAGTTTATATATATAGTT
Found at i:9324075 original size:13 final size:14
Alignment explanation
Indices: 9323908--9324065 Score: 81
Period size: 13 Copynumber: 11.6 Consensus size: 14
9323898 ACTTTGAATA
9323908 ATATATATA--TAT
1 ATATATATAGTTAT
9323920 ATATATATA--TAT
1 ATATATATAGTTAT
9323932 ATATACTATA-TTAAT
1 ATATA-TATAGTT-AT
*
9323947 ATAAATTATAGTTTAT
1 ATATA-TATAG-TTAT
* *
9323963 AAACTATATACTT-T
1 ATA-TATATAGTTAT
9323977 -T-TAT-T-GTTTAT
1 ATATATATAG-TTAT
* *
9323988 ACATATATAGTTTAC
1 ATATATATAG-TTAT
9324003 ATATATATAGTT-T
1 ATATATATAGTTAT
*
9324016 ACATATATAGTT-T
1 ATATATATAGTTAT
9324029 ATATATATAGTT-T
1 ATATATATAGTTAT
* *
9324042 ATATATAAACTTAT
1 ATATATATAGTTAT
9324056 ATTATATATA
1 A-TATATATA
9324066 TATATTATAT
Statistics
Matches: 116, Mismatches: 16, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
10 3 0.03
11 4 0.03
12 17 0.15
13 41 0.35
14 7 0.06
15 33 0.28
16 8 0.07
17 3 0.03
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (14 bp):
ATATATATAGTTAT
Found at i:9325294 original size:39 final size:39
Alignment explanation
Indices: 9325190--9325294 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
9325180 TTTTTATTCC
* * *
9325190 TAATTT-TTAAATTTATTTCA-CCTAAAATTCTAAATTTT
1 TAATTTCTTAAA-TTATTTCACCCTAACATTCTAAACTAT
* * *
9325228 TAATTTCTTAAATGATTTCACCATAACATTTTAAACTAT
1 TAATTTCTTAAATTATTTCACCCTAACATTCTAAACTAT
*
9325267 TAATTTCTTAAATTATTTTACCCTAACA
1 TAATTTCTTAAATTATTTCACCCTAACA
9325295 ACCTAAATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
38 13 0.23
39 43 0.77
ACGTcount: A:0.37, C:0.14, G:0.01, T:0.48
Consensus pattern (39 bp):
TAATTTCTTAAATTATTTCACCCTAACATTCTAAACTAT
Found at i:9325949 original size:38 final size:38
Alignment explanation
Indices: 9325902--9326006 Score: 99
Period size: 38 Copynumber: 2.8 Consensus size: 38
9325892 CCTAATTCCC
*
9325902 AAATTATTTCACCCTAACATT-TCAAATT-TCTAATTCTT-
1 AAATCATTTCACCCTAACATTAT-AAATTAT-TAATT-TTA
* **
9325940 AGATCATTTCACTGTAACATTATAAATTATTAATTTTA
1 AAATCATTTCACCCTAACATTATAAATTATTAATTTTA
* * *
9325978 AAATTATTTCACCCTAACAATCTAAATTA
1 AAATCATTTCACCCTAACATTATAAATTA
9326007 ATTCTTTTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
37 2 0.04
38 50 0.93
39 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (38 bp):
AAATCATTTCACCCTAACATTATAAATTATTAATTTTA
Found at i:9327808 original size:15 final size:15
Alignment explanation
Indices: 9327768--9327810 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
9327758 GCCATTTGCT
9327768 TATTATTTTTAATTAA
1 TATTATTTTT-ATTAA
*
9327784 T-TAATATTTTATTAA
1 TATTAT-TTTTATTAA
9327799 TATTATTTTTAT
1 TATTATTTTTAT
9327811 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTTTTATTAA
Found at i:9331211 original size:38 final size:38
Alignment explanation
Indices: 9331125--9331846 Score: 384
Period size: 38 Copynumber: 19.5 Consensus size: 38
9331115 TTAAGAAAAA
* * *
9331125 TATCTCAAGTGAGATAAAAT-TTTTG-TTTCAAGTGAAAAC
1 TATCTCAAGCGAGAT-AAATCTTCTGCTTT-GAGTG-AAAC
* * *
9331164 TGTCTCAAGCGATATAAAATCTT-TACTTTGAGTGAAAC
1 TATCTCAAGCGAGAT-AAATCTTCTGCTTTGAGTGAAAC
* *
9331202 TATCTCAAGCGAGATGAATC-T-TG-TTTTAG-GAAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTG-AAAC
* * * *
9331237 AATCTCAAGTGAGATAAATCTTCTGTTTTAAGTGAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTGAAAC
* * * **
9331275 TATCTCAAGCGAGATGAAT-TT-TGTTTTAAGAAAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTGAAAC
* * *
9331311 AATCTCAAGTGAGCTAAATCTTCTG-TTTCGAGTGAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTT-GAGTGAAAC
* *
9331349 TATCTCAAGTGAGATAAAAT-TGT-TGCTTCGAGTGAAAC
1 TATCTCAAGCGAGAT-AAATCT-TCTGCTTTGAGTGAAAC
* * *
9331387 TATCTCAAGCGAGATGAAT-GT-TG-TTTTA-TGAAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTG-AAAC
* * * *
9331422 AATATCAAGTGAGATAAATCTTCTG-TTTCTAGTGAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTT-GAGTGAAAC
* * * * * **
9331460 TATCTTAAGCGAGATGAAT-AT-TGTTTTAAGAAAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTGAAAC
* * *
9331496 AATCTCAAGTGAGCTAAATCTTCTG-TTTCGAGTGAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTT-GAGTGAAAC
* *
9331534 TATCTCAAGCGAGATGAATC-T-TG-TTTTAG-GAAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTG-AAAC
* * * *
9331569 AATCTCAAGTGAGATAAAACTTTTG-TTTCGAGTGAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTT-GAGTGAAAC
* * * * * *
9331607 TATCTCAAGCGAGATGAAT-AT-TGTTTTAAG-AAAAA
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTGAAAC
* * *
9331642 TAATCTCAAGTGAGGTAAATCTTATG-TTTCGAGTGAAAC
1 T-ATCTCAAGCGAGATAAATCTTCTGCTTT-GAGTGAAAC
* * *
9331681 TATCTCAAGCGAGATGAAT-AT-TG-TTTTAG-GAAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTG-AAAC
* *
9331716 AATCTCAAGTGAGATAAATCTTCTG-TTTCGAGTGAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTT-GAGTGAAAC
* * * * ** *
9331754 TATCTTAAGCGAGATGAATC-T-TGTTTTAAGAAAAAA
1 TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTGAAAC
* * * *
9331790 AATCTCAAGTGAGCTAAATCTTCTG-TTTCAAGTGAAAC
1 TATCTCAAGCGAGATAAATCTTCTGCTTT-GAGTGAAAC
*
9331828 TATCTCAAGTGAGATAAAT
1 TATCTCAAGCGAGATAAAT
9331847 TTTTTTCTTC
Statistics
Matches: 531, Mismatches: 110, Indels: 85
0.73 0.15 0.12
Matches are distributed among these distances:
34 5 0.01
35 96 0.18
36 110 0.21
37 57 0.11
38 220 0.41
39 38 0.07
40 5 0.01
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (38 bp):
TATCTCAAGCGAGATAAATCTTCTGCTTTGAGTGAAAC
Found at i:9331254 original size:73 final size:73
Alignment explanation
Indices: 9331166--9331363 Score: 265
Period size: 73 Copynumber: 2.7 Consensus size: 73
9331156 GTGAAAACTG
* *
9331166 TCTCAAGCGATATAAAATCTT-TACTTTGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTT-
1 TCTCAAGTGAGAT-AAATCTTCT-CTTTGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
*
9331229 AGGAAAACAA
64 AGAAAAACAA
* * *
9331239 TCTCAAGTGAGATAAATCTTCTGTTTTAAGTGAAACTATCTCAAGCGAGATGAATTTTGTTTTAA
1 TCTCAAGTGAGATAAATCTTCT-CTTTGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAA
9331304 GAAAAACAA
65 GAAAAACAA
* * *
9331313 TCTCAAGTGAGCTAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGAT
1 TCTCAAGTGAGATAAATCTTCTCTTT-GAGTGAAACTATCTCAAGCGAGAT
9331364 AAAATTGTTG
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
72 7 0.06
73 52 0.47
74 52 0.47
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (73 bp):
TCTCAAGTGAGATAAATCTTCTCTTTGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAAG
AAAAACAA
Found at i:9331309 original size:185 final size:184
Alignment explanation
Indices: 9331006--9331849 Score: 806
Period size: 185 Copynumber: 4.6 Consensus size: 184
9330996 TTATATTTCA
* * * ** *
9331006 AGTGAAACTTTCTCAACCGAGATGAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAAT-
1 AGTGAAACTATCTCAAGCGAGATGAATCTTGTTTT-AGGAAAACAATCTCAAGTGAGAT-AAATC
** * * * * *
9331070 TTCTTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAA-TATCTCAAG
64 TTC-TGTTTTAAGT-GAAACTATCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCAAG
* * * *
9331134 TGAGATAAAAT-TTTTGTTTCAAGTGAAAACTGTCTCAAGCGATATAAAATCTT-TACTTTG
127 TGAGAT-AAATCTTCTGTTTCGAGTG-AAACTATCTCAAGCGAGAT-AAATCTTCT-CTTTG
9331194 AGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAGGAAAACAATCTCAAGTGAGATAAATCTT
1 AGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAGGAAAACAATCTCAAGTGAGATAAATCTT
*
9331259 CTGTTTTAAGTGAAACTATCTCAAGCGAGATGAATTTTGTTTTAAGAAAAACAATCTCAAGTGAG
66 CTGTTTTAAGTGAAACTATCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAG
* * *
9331324 CTAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAAAAT-TGT-TGCTTCG
131 ATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGAT-AAATCT-TCT-CTTTG
* * *
9331379 AGTGAAACTATCTCAAGCGAGATGAATGTTGTTTTATGAAAACAATATCAAGTGAGATAAATCTT
1 AGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAGGAAAACAATCTCAAGTGAGATAAATCTT
* * *
9331444 CTGTTTCT-AGTGAAACTATCTTAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGA
66 CTGTTT-TAAGTGAAACTATCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGTGA
* * *
9331508 GCTAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGT-TTT-
130 GATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTCTCTTTG
* * * * * * * *
9331561 AG-GAAAACAATCTCAAGTGAGATAAAACTTTTGTTTCGAGTG-AAACTATCTCAAGCGAGATGA
1 AGTG-AAACTATCTCAAGCGAGAT-GAA-TCTTGTTT-TAG-GAAAACAATCTCAAGTGAGATAA
* * * * * ** ** *
9331624 AT-AT-TGTTTTAAG-AAAAATAATCTCAAGTGAGGTAAATCTTATGTTTCGAGTGAAACTATCT
61 ATCTTCTGTTTTAAGTGAAACT-ATCTCAAGCGAGATAAAT-TT-TGTTTTAAGAAAAACAATCT
* * * * * * *
9331686 CAAGCGAGATGAAT-AT-TGTTT-TAG-GAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCG
123 CAAGTGAGATAAATCTTCTGTTTCGAGTG-AAACTATCTCAAGCGAGATAAATCTTCTCTTT-G
* * * *
9331746 AGTGAAACTATCTTAAGCGAGATGAATCTTGTTTTAAGAAAAAAAATCTCAAGTGAGCTAAATCT
1 AGTGAAACTATCTCAAGCGAGATGAATCTTGTTTT-AGGAAAACAATCTCAAGTGAGATAAATCT
* *
9331811 TCTGTTTCAAGTGAAACTATCTCAAGTGAGATAAATTTT
65 TCTGTTTTAAGTGAAACTATCTCAAGCGAGATAAATTTT
9331850 TTTCTTCAAA
Statistics
Matches: 551, Mismatches: 79, Indels: 57
0.80 0.11 0.08
Matches are distributed among these distances:
181 2 0.00
182 50 0.09
183 61 0.11
184 20 0.04
185 319 0.58
186 44 0.08
187 22 0.04
188 33 0.06
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (184 bp):
AGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAGGAAAACAATCTCAAGTGAGATAAATCTT
CTGTTTTAAGTGAAACTATCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAG
ATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTCTCTTTG
Found at i:9331430 original size:147 final size:143
Alignment explanation
Indices: 9331006--9331842 Score: 715
Period size: 147 Copynumber: 5.7 Consensus size: 143
9330996 TTATATTTCA
* * * * ** *
9331006 AGTGAAACTTTCTCAACCGAGATGAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAAT-
1 AGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAG-AAAACTATCTCAAGTGAGAT-AAATC
* * * ** *
9331070 TTCTTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGT-TTGTTTTAAGAAAA-ATATCTCAA
64 TT-ATGTTTCGAGT-GAAACTATCTCAAGCGAGATGAA-TATTGTTTTAGGAAAACA-ATCTCAA
*
9331133 GTGAGATAAAATTTTTGTTTCA
125 GTGAGAT-AAA-TTTTGTTT-T
* * * * * * * *
9331155 AGTGAAAACTGTCTCAAGCGATAT-AAAATCTTTACTTTGAGTGAAACTATCTCAAGCGAGATGA
1 AGTG-AAACTATCTCAAGCGAGATGAATAT-TGT--TTTAAG-AAAACTATCTCAAGTGAGATAA
* * * * * *
9331219 ATC-T-TGTTT-TAG-GAAAACAATCTCAAGTGAGATAAATCTTCTGTTTTAAGTG-AAACTATC
61 ATCTTATGTTTCGAGTG-AAACTATCTCAAGCGAGATGAAT-AT-TGTTTT-AG-GAAAACAATC
* *
9331279 TCAAGCGAGATGAATTTTGTTTT
121 TCAAGTGAGATAAATTTTGTTTT
** * * * * * ** *
9331302 AAGAAAAACAATCTCAAGTGAGCTAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAAA
1 -AGTGAAACTATCTCAAGCGAGATGAAT-AT-TGTTTTAAG-AAAACTATCTCAAGTGAGAT-AA
* * * *
9331367 AT-TGT-TGCTTCGAGTGAAACTATCTCAAGCGAGATGAATGTTGTTTTATGAAAACAATATCAA
61 ATCT-TATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAGGAAAACAATCTCAA
9331430 GTGAGATAAATCTTCTGTTTCT
125 GTGAGATAAAT-TT-TGTTT-T
* * *
9331452 AGTGAAACTATCTTAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGCTAAATCT
1 AGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAG-AAAACTATCTCAAGTGAGATAAATCT
* *
9331517 TCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAGGAAAACAATCTCAAGTGAG
65 TATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAGGAAAACAATCTCAAGTGAG
*
9331582 ATAAAACTTTTGTTTCG
130 AT-AAA-TTTTGTTT-T
* *
9331599 AGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAATAATCTCAAGTGAGGTAAATCT
1 AGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAACT-ATCTCAAGTGAGATAAATCT
9331664 TATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAGGAAAACAATCTCAAGTGAG
65 TATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAGGAAAACAATCTCAAGTGAG
*
9331729 ATAAATCTTCTGTTTCG
130 ATAAAT-TT-TGTTT-T
* * ** *
9331746 AGTGAAACTATCTTAAGCGAGATGAATCTTGTTTTAAGAAAAAAAATCTCAAGTGAGCTAAATCT
1 AGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAG-AAAACTATCTCAAGTGAGATAAATCT
* * *
9331811 TCTGTTTCAAGTGAAACTATCTCAAGTGAGAT
65 TATGTTTCGAGTGAAACTATCTCAAGCGAGAT
9331843 AAATTTTTTT
Statistics
Matches: 574, Mismatches: 82, Indels: 66
0.80 0.11 0.09
Matches are distributed among these distances:
145 1 0.00
146 16 0.03
147 381 0.66
148 37 0.06
149 56 0.10
150 58 0.10
151 6 0.01
152 19 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.32
Consensus pattern (143 bp):
AGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAACTATCTCAAGTGAGATAAATCTT
ATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAGGAAAACAATCTCAAGTGAGA
TAAATTTTGTTTT
Found at i:9331432 original size:73 final size:74
Alignment explanation
Indices: 9331001--9331842 Score: 807
Period size: 74 Copynumber: 11.4 Consensus size: 74
9330991 AAATTTTATA
* * * * ** *
9331001 TTTCAAGTGAAACTTTCTCAACCGAGATGAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATG
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGAT-
9331066 AAAT-TTCTTG
65 AAATCTTC-TG
* * ** *
9331076 TTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGT-TTGTTTTAAGAAAAA-TATCTCAAGTGAGA
1 TTTCGAGT-GAAACTATCTCAAGCGAGATGAA-TATTGTTTTAAGAAAAACAATCTCAAGTGAGA
*
9331139 TAAAAT-TTTTG
64 T-AAATCTTCTG
* * * * * * ** * *
9331150 TTTCAAGTGAAAACTGTCTCAAGCGATAT-AAAATCTTTACTTTGAGTGAAACTATCTCAAGCGA
1 TTTCGAGTG-AAACTATCTCAAGCGAGATGAATAT-TGT--TTTAAGAAAAACAATCTCAAGTGA
*
9331214 GATGAATC-T-TG
62 GATAAATCTTCTG
* * * * * ** * *
9331225 TTT-TAG-GAAAACAATCTCAAGTGAGATAAATCTTCTGTTTTAAGTGAAACTATCTCAAGCGAG
1 TTTCGAGTG-AAACTATCTCAAGCGAGATGAAT-AT-TGTTTTAAGAAAAACAATCTCAAGTGAG
*
9331288 ATGAAT-TT-TG
63 ATAAATCTTCTG
** ** * * * * * ** ** *
9331298 TTTTAAGAAAAACAATCTCAAGTGAGCTAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGA
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAAT-AT-TGTTTTAAGAAAAACAATCTCAAGTGAGA
9331363 TAAAAT-TGT-TG
64 T-AAATCT-TCTG
* * * *
9331374 CTTCGAGTGAAACTATCTCAAGCGAGATGAATGTTGTTTTATG-AAAACAATATCAAGTGAGATA
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATA
9331438 AATCTTCTG
66 AATCTTCTG
* * *
9331447 TTTCTAGTGAAACTATCTTAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGCTA
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATA
9331512 AATCTTCTG
66 AATCTTCTG
* *
9331521 TTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTT-AGGAAAACAATCTCAAGTGAGATA
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATA
* *
9331585 AAACTTTTG
66 AATCTTCTG
* *
9331594 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAATAATCTCAAGTGAGGTA
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATA
*
9331659 AATCTTATG
66 AATCTTCTG
*
9331668 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTT-AGGAAAACAATCTCAAGTGAGATA
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATA
9331732 AATCTTCTG
66 AATCTTCTG
* * * *
9331741 TTTCGAGTGAAACTATCTTAAGCGAGATGAATCTTGTTTTAAGAAAAAAAATCTCAAGTGAGCTA
1 TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATA
9331806 AATCTTCTG
66 AATCTTCTG
* *
9331815 TTTCAAGTGAAACTATCTCAAGTGAGAT
1 TTTCGAGTGAAACTATCTCAAGCGAGAT
9331843 AAATTTTTTT
Statistics
Matches: 659, Mismatches: 87, Indels: 43
0.84 0.11 0.05
Matches are distributed among these distances:
72 5 0.01
73 249 0.38
74 281 0.43
75 38 0.06
76 71 0.11
77 15 0.02
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (74 bp):
TTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATA
AATCTTCTG
Found at i:9334097 original size:20 final size:20
Alignment explanation
Indices: 9334072--9334140 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
9334062 CAATGTATAT
9334072 ATGCAAATGTAAACATGCAC
1 ATGCAAATGTAAACATGCAC
9334092 ATGCAAATGTAAACATGCAC
1 ATGCAAATGTAAACATGCAC
*
9334112 ATGCAAATGTAAAGATGCAC
1 ATGCAAATGTAAACATGCAC
9334132 ATGCAAATG
1 ATGCAAATG
9334141 CAAAAGTACA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (20 bp):
ATGCAAATGTAAACATGCAC
Found at i:9338560 original size:24 final size:24
Alignment explanation
Indices: 9338533--9338588 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
9338523 ATATTTATAG
*
9338533 AATACATATAT-TGATATAAAAAAT
1 AATACATACATAT-ATATAAAAAAT
* *
9338557 AATATATACATATATATAATAAAT
1 AATACATACATATATATAAAAAAT
9338581 ATATACAT
1 A-ATACAT
9338589 TGAAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
AATACATACATATATATAAAAAAT
Found at i:9338737 original size:2 final size:2
Alignment explanation
Indices: 9338730--9338803 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
9338720 GCTTCTATGC
9338730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9338772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9338804 GAATGAAAGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9338959 original size:3 final size:3
Alignment explanation
Indices: 9338951--9339007 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
9338941 TTTGTCCCGT
9338951 TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9338998 TT- TTA -TA TTA
1 TTA TTA TTA TTA
9339008 ATAATTCAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9340117 original size:16 final size:16
Alignment explanation
Indices: 9340096--9340126 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9340086 ATCCCTGAAC
*
9340096 TTTAATATTTTTAATT
1 TTTAATATTATTAATT
9340112 TTTAATATTATTAAT
1 TTTAATATTATTAAT
9340127 GGTTTATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATTATTAATT
Found at i:9346253 original size:20 final size:20
Alignment explanation
Indices: 9346228--9346272 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9346218 TTAACTTTTT
*
9346228 CTTTTCTCTTTC-TTCCTTAA
1 CTTTTCTATTTCATT-CTTAA
*
9346248 CTTTTCTATTTCATTTTTAA
1 CTTTTCTATTTCATTCTTAA
9346268 CTTTT
1 CTTTT
9346273 ACTTTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTCTATTTCATTCTTAA
Found at i:9349546 original size:23 final size:23
Alignment explanation
Indices: 9349516--9349564 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9349506 TGGTGGTTGG
*
9349516 TTTAATGG-ATGTTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
9349539 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
9349562 TTT
1 TTT
9349565 GGTTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:9358958 original size:103 final size:103
Alignment explanation
Indices: 9358834--9359059 Score: 407
Period size: 103 Copynumber: 2.2 Consensus size: 103
9358824 CCATATAATA
* * * *
9358834 ATGTCCATAAGGACCATATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTG
1 ATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
9358899 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
9358937 ATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
1 ATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
9359002 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
*
9359040 ATGTCCCGAAGGACCACATA
1 ATGTCCAGAAGGACCACATA
9359060 GGCCCTCTAC
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 118 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
ATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
Found at i:9365690 original size:23 final size:23
Alignment explanation
Indices: 9365664--9365717 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
9365654 CAGCTCATAT
*
9365664 AATTGCACCTA-AGTGCCACGTAG
1 AATTGCACC-AGAGTACCACGTAG
9365687 AATTGCACCAGAGTACCACGTAG
1 AATTGCACCAGAGTACCACGTAG
9365710 AATTGCAC
1 AATTGCAC
9365718 TGTAGTGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 1 0.03
23 28 0.97
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
AATTGCACCAGAGTACCACGTAG
Found at i:9366363 original size:20 final size:20
Alignment explanation
Indices: 9366338--9366375 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9366328 TTTTTTATTA
9366338 TGGGGGAATCGATTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
9366358 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
9366376 TCTAGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:9366427 original size:21 final size:21
Alignment explanation
Indices: 9366403--9366445 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9366393 TCATATTCAT
* *
9366403 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
9366424 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
9366445 T
1 T
9366446 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:9367264 original size:7 final size:7
Alignment explanation
Indices: 9367252--9367302 Score: 57
Period size: 7 Copynumber: 6.7 Consensus size: 7
9367242 TTACATGATT
9367252 TGATATA
1 TGATATA
9367259 TGATATA
1 TGATATA
9367266 TGATTTATA
1 TGA--TATA
*
9367275 TGCTATA
1 TGATATA
9367282 TGATTCATA
1 TGA-T-ATA
9367291 TGATATA
1 TGATATA
9367298 TGATA
1 TGATA
9367303 GAAGAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 24 0.63
8 2 0.05
9 12 0.32
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (7 bp):
TGATATA
Found at i:9367276 original size:16 final size:16
Alignment explanation
Indices: 9367255--9367301 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
9367245 CATGATTTGA
9367255 TATATGATATATGATT
1 TATATGATATATGATT
*
9367271 TATATGCTATATGATT
1 TATATGATATATGATT
*
9367287 CATATGATATATGAT
1 TATATGATATATGAT
9367302 AGAAGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (16 bp):
TATATGATATATGATT
Found at i:9367455 original size:22 final size:22
Alignment explanation
Indices: 9367430--9367496 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
9367420 AGTCGAGGGT
* *
9367430 TACATAGGTCCTTCGGGACATA
1 TACACAGGTCCTTCGGGACAAA
9367452 TACACAGGTCCTTCGGGACAAA
1 TACACAGGTCCTTCGGGACAAA
*
9367474 TACACAGGTCCTTCAGGACAAA
1 TACACAGGTCCTTCGGGACAAA
9367496 T
1 T
9367497 TTTATATGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (22 bp):
TACACAGGTCCTTCGGGACAAA
Found at i:9374126 original size:22 final size:22
Alignment explanation
Indices: 9374096--9374157 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
9374086 AGGGTTACAT
*
9374096 AGGTCCTTCGGGACAAATAAAG
1 AGGTCCTTCGGGACAAATAAAC
* * *
9374118 AGGTTCTTCAGGACAAATACAC
1 AGGTCCTTCGGGACAAATAAAC
9374140 AGGTCCTTCGGGACAAAT
1 AGGTCCTTCGGGACAAAT
9374158 TTTACTTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (22 bp):
AGGTCCTTCGGGACAAATAAAC
Found at i:9375658 original size:60 final size:58
Alignment explanation
Indices: 9375575--9375722 Score: 176
Period size: 60 Copynumber: 2.5 Consensus size: 58
9375565 TTTGGGGACA
* * *
9375575 AATTTAAAATAAGGGTCATAGTTTGAGGATGAATTTGAAAAT-TTTAAAACTTTGGAGATT
1 AATTTAAAAT-AGAGTCATAGTTTGAGGATGAA-TT-AAAATATTTAAAACTTTAGAGATC
* * *
9375635 AATTTAAAATGAGATTCATAGTTT-AGGGATGAATTAAAATATTTAAAAGTTTAGATATC
1 AATTTAAAAT-AGAGTCATAGTTTGA-GGATGAATTAAAATATTTAAAACTTTAGAGATC
9375694 AATTTAAAATA-AGTCATAGTTTGAGGATG
1 AATTTAAAATAGAGTCATAGTTTGAGGATG
9375723 TATGGCACAA
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
57 15 0.19
58 7 0.09
59 27 0.35
60 28 0.36
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.36
Consensus pattern (58 bp):
AATTTAAAATAGAGTCATAGTTTGAGGATGAATTAAAATATTTAAAACTTTAGAGATC
Found at i:9379164 original size:19 final size:20
Alignment explanation
Indices: 9379127--9379167 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
9379117 TTTTAGAAAT
9379127 AAATAAATTTATATAAATAA
1 AAATAAATTTATATAAATAA
9379147 AAATAAATATT-T-TAAATAA
1 AAATAAAT-TTATATAAATAA
9379166 AA
1 AA
9379168 TATATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 9 0.45
21 2 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATAAATTTATATAAATAA
Found at i:9379382 original size:31 final size:31
Alignment explanation
Indices: 9379309--9379375 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
9379299 CAGTTACGTC
* *
9379309 AGGGACCATATTGCAAACGGACTAAATGTTG
1 AGGGACAATATTGCAAACAGACTAAATGTTG
9379340 AGGGACAATATTGCAAACAGACTAAATGTTG
1 AGGGACAATATTGCAAACAGACTAAATGTTG
*
9379371 GGGGA
1 AGGGA
9379376 TTATATTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.21
Consensus pattern (31 bp):
AGGGACAATATTGCAAACAGACTAAATGTTG
Found at i:9381470 original size:27 final size:27
Alignment explanation
Indices: 9381436--9381502 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
9381426 TCAATCACTA
9381436 AAACCAATATTTATTTTAAACTAAATT
1 AAACCAATATTTATTTTAAACTAAATT
*
9381463 AAATCAATATTTATTTTAAACTAAATT
1 AAACCAATATTTATTTTAAACTAAATT
9381490 AAACCAATATTTA
1 AAACCAATATTTA
9381503 ACCACTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAACCAATATTTATTTTAAACTAAATT
Found at i:9382843 original size:31 final size:31
Alignment explanation
Indices: 9382802--9382874 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
9382792 TAAAACTTGC
* * *
9382802 AATATAATCCCTCAACATTTAGTCCGTTTGT
1 AATATGATCCCTCAAAATTTAGTCCATTTGT
*
9382833 AATATGATCCCTCAAAATTTAGTCTATTTGT
1 AATATGATCCCTCAAAATTTAGTCCATTTGT
9382864 AATATGATCCC
1 AATATGATCCC
9382875 CGACGTAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (31 bp):
AATATGATCCCTCAAAATTTAGTCCATTTGT
Found at i:9383268 original size:18 final size:18
Alignment explanation
Indices: 9383246--9383287 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9383236 ATTATGATAT
9383246 ATATTTA-AATTTTTAAA
1 ATATTTAGAATTTTTAAA
9383263 AGTA-TTAGAATTTTTAAA
1 A-TATTTAGAATTTTTAAA
9383281 ATATTTA
1 ATATTTA
9383288 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATATTTAGAATTTTTAAA
Found at i:9383318 original size:22 final size:21
Alignment explanation
Indices: 9383286--9383338 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9383276 TTAAAATATT
*
9383286 TATTTAATTTTTAGTAATTTAA
1 TATTT-ATTTTTTGTAATTTAA
* * *
9383308 TTTTTATTTTTTGTACTTTTA
1 TATTTATTTTTTGTAATTTAA
9383329 TATTTATTTT
1 TATTTATTTT
9383339 ATATTTGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (21 bp):
TATTTATTTTTTGTAATTTAA
Found at i:9383811 original size:26 final size:27
Alignment explanation
Indices: 9383782--9383838 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
9383772 TTTTTAAATA
*
9383782 ATTTATTATTTTATAACTTTTATG-GT
1 ATTTATTATTTTATAACTTTTAAGAGT
* * *
9383808 ATTTTTTATTTTTTAAGTTTTAAGAGT
1 ATTTATTATTTTATAACTTTTAAGAGT
9383835 ATTT
1 ATTT
9383839 TGGTATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (27 bp):
ATTTATTATTTTATAACTTTTAAGAGT
Found at i:9383839 original size:26 final size:25
Alignment explanation
Indices: 9383782--9383850 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
9383772 TTTTTAAATA
* *
9383782 ATTTATTATTTTATAACTTTTATGGT
1 ATTT-TTATTTTTTAACTTTTAAGGT
*
9383808 ATTTTTTATTTTTTAAGTTTTAAGAGT
1 A-TTTTTATTTTTTAACTTTTAAG-GT
9383835 ATTTTGGTATTTTTTA
1 ATTTT--TATTTTTTA
9383851 TTTTTAGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 21 0.58
27 6 0.17
28 9 0.25
ACGTcount: A:0.25, C:0.01, G:0.10, T:0.64
Consensus pattern (25 bp):
ATTTTTATTTTTTAACTTTTAAGGT
Found at i:9387703 original size:12 final size:12
Alignment explanation
Indices: 9387688--9387725 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9387678 GTCCTTTTCA
*
9387688 TTTTTGTTTTAT
1 TTTTTATTTTAT
9387700 TTTTTATTTT-T
1 TTTTTATTTTAT
9387711 ATTTTTATTTTAT
1 -TTTTTATTTTAT
9387724 TT
1 TT
9387726 ACTTGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 1 0.04
12 21 0.91
13 1 0.04
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:9387704 original size:19 final size:19
Alignment explanation
Indices: 9387682--9387721 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
9387672 AATTTGGTCC
*
9387682 TTTTCATTTTT-GTTTTAT
1 TTTTTATTTTTAGTTTTAT
*
9387700 TTTTTATTTTTATTTTTAT
1 TTTTTATTTTTAGTTTTAT
9387719 TTT
1 TTT
9387722 ATTTACTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTAGTTTTAT
Found at i:9387734 original size:19 final size:17
Alignment explanation
Indices: 9387682--9387737 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
9387672 AATTTGGTCC
*
9387682 TTTTCATTTTTGTTTTATT
1 TTTT-ATTTTTGTTTT-TA
*
9387701 TTTTATTTTTATTTTTA
1 TTTTATTTTTGTTTTTA
9387718 TTTTATTTACTTGTTTTTA
1 TTTTATTT--TTGTTTTTA
9387737 T
1 T
9387738 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 9 0.28
18 10 0.31
19 13 0.41
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTGTTTTTA
Found at i:9387789 original size:27 final size:25
Alignment explanation
Indices: 9387759--9387815 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
9387749 TAATTCAACA
*
9387759 TTTTATTTATTTTTTATTCCTTTTAT
1 TTTTATTTATTTATTA-TCCTTTTAT
* *
9387785 CTTTTATTTGTTTATTATCTTTTTAT
1 -TTTTATTTATTTATTATCCTTTTAT
9387811 TTTTA
1 TTTTA
9387816 AATTCGATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 8 0.30
27 14 0.52
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTATTTATTTATTATCCTTTTAT
Found at i:9387858 original size:2 final size:2
Alignment explanation
Indices: 9387851--9387880 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9387841 TTCTGTGCTC
9387851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9387881 TTATCTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9393930 original size:85 final size:85
Alignment explanation
Indices: 9393783--9394073 Score: 411
Period size: 85 Copynumber: 3.4 Consensus size: 85
9393773 TATTGGTAGG
* * *
9393783 ATAGCTCAAGGCGAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTCAA
1 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA
*
9393848 AGGCATATCAAACTTACAAC
66 AGGCATATCAAATTTACAAC
* * * * * *
9393868 ATAACTCAAGGCAAGAAGGGTTATCTATCAGCAAAGAACTTCGAGTTCGTTTACATTCAGCTCAA
1 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA
* *
9393933 AGCCATATCAAATTTACAGC
66 AGGCATATCAAATTTACAAC
* * *
9393953 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAATAAAAGACCATCGAGTTCGATTACATTCAGCTCA
1 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACATTCAGCTCA
* *
9394018 AAGGCACATCAAATTTACAAT
65 AAGGCATATCAAATTTACAAC
*
9394039 ATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAA
1 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAA
9394074 AGACATATCA
Statistics
Matches: 178, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 102 0.57
86 76 0.43
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (85 bp):
ATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA
AGGCATATCAAATTTACAAC
Found at i:9394113 original size:55 final size:55
Alignment explanation
Indices: 9394025--9394128 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
9394015 TCAAAGGCAC
* * *
9394025 ATCAAATTTACAATATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAGACAT
1 ATCAAACTTACAATATAACTCAAGGAGAGAAGGGATATCTGTCAACAAAAGACAT
* * *
9394080 ATCAAACTTAC-ATCATAACTCAAGGAGATAAGGGTTATCTGTCAGCAAA
1 ATCAAACTTACAAT-ATAACTCAAGGAGAGAAGGGATATCTGTCAACAAA
9394129 GACCTTCAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 2 0.05
55 40 0.95
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (55 bp):
ATCAAACTTACAATATAACTCAAGGAGAGAAGGGATATCTGTCAACAAAAGACAT
Found at i:9396080 original size:14 final size:14
Alignment explanation
Indices: 9396063--9396107 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9396053 AATTTGGTCC
9396063 TTTTCATTTTTAAT
1 TTTTCATTTTTAAT
*
9396077 TTTTCATTTTTTTATT
1 TTTTCA--TTTTTAAT
*
9396093 TTTTTATTTTTAAT
1 TTTTCATTTTTAAT
9396107 T
1 T
9396108 CACATTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 14 0.54
16 12 0.46
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCATTTTTAAT
Found at i:9396095 original size:9 final size:8
Alignment explanation
Indices: 9396069--9396103 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
9396059 GTCCTTTTCA
*
9396069 TTTTTAAT
1 TTTTTATT
*
9396077 TTTTCATT
1 TTTTTATT
9396085 TTTTTATT
1 TTTTTATT
9396093 TTTTTATT
1 TTTTTATT
9396101 TTT
1 TTT
9396104 AATTCACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:9396264 original size:27 final size:27
Alignment explanation
Indices: 9396224--9396282 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
9396214 TAGTTCAACA
9396224 TTTTATTTTATTTT-TTATTCCTTTTAT
1 TTTTATTTTATTTTATTA-TCCTTTTAT
* *
9396251 CTTTTA-TTTGTTTTATTATCTTTTTAT
1 -TTTTATTTTATTTTATTATCCTTTTAT
9396278 TTTTA
1 TTTTA
9396283 AATTTGGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 15 0.54
28 8 0.29
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTTATTTTATTTTATTATCCTTTTAT
Found at i:9396269 original size:28 final size:26
Alignment explanation
Indices: 9396224--9396282 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
9396214 TAGTTCAACA
*
9396224 TTTTATTTTATTTTTTATTCCTTTTAT
1 TTTTATTTTATTTATTA-TCCTTTTAT
*
9396251 CTTTTATTTGT-TTTATTATCTTTTTAT
1 -TTTTATTT-TATTTATTATCCTTTTAT
9396278 TTTTA
1 TTTTA
9396283 AATTTGGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 8 0.29
28 14 0.50
29 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTATTTTATTTATTATCCTTTTAT
Found at i:9405539 original size:21 final size:21
Alignment explanation
Indices: 9405513--9405552 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9405503 AAGACTATTT
9405513 TCATTTTT-TAATTTTGAAACA
1 TCATTTTTGT-ATTTTGAAACA
9405534 TCATTTTTGTATTTTGAAA
1 TCATTTTTGTATTTTGAAA
9405553 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTGTATTTTGAAACA
Found at i:9407264 original size:65 final size:64
Alignment explanation
Indices: 9407182--9407338 Score: 156
Period size: 65 Copynumber: 2.4 Consensus size: 64
9407172 TACACTAGGG
* ** ** * * *
9407182 TGTGCATCGATGCACAAATTTGCTTCGATGTTTCAA-AAATAGCTGGGGTGCATCGATGCATGGC
1 TGTGCATCGGTGCACAAATTTAATTCGATGTTTCAATAAA-AGCCAGAGTGAATCGATGCATAGC
* * * *
9407246 TTGTGCATCGGTGCACAAAATTAATTTGATGTTTCAATAAAATCCAGAGTGAATCGATGCATATC
1 -TGTGCATCGGTGCACAAATTTAATTCGATGTTTCAATAAAAGCCAGAGTGAATCGATGCATAGC
*
9407311 TGTGCATCGGTGCATAAATTGT-ATTCGA
1 TGTGCATCGGTGCACAAATT-TAATTCGA
9407339 AATGGGTGTG
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
64 23 0.31
65 49 0.65
66 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (64 bp):
TGTGCATCGGTGCACAAATTTAATTCGATGTTTCAATAAAAGCCAGAGTGAATCGATGCATAGC
Found at i:9407865 original size:2 final size:2
Alignment explanation
Indices: 9407858--9407923 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
9407848 TCATTTCATA
9407858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9407900 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
9407924 TAATTATGCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9408998 original size:182 final size:182
Alignment explanation
Indices: 9408691--9409182 Score: 761
Period size: 182 Copynumber: 2.7 Consensus size: 182
9408681 TGTCGGTTTA
* * * * * *
9408691 TGTCGATACTTCATAAAAATGTATCGATCCATATCAATATAATAGGAAAAAATATGACAAAACTG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * *
9408756 GTCAT-GAAAAGAGAAAACCGGTAAAGCGCTACCAGATATATTTAAAGTTTCGATACTTTAATAT
66 GTC-TCGAAAAGACAAAATCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATAT
* *
9408820 AAGTATCGACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
130 AAGTATCAACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAG
* *
9408873 TGTCGATACTTTATAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGAAAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
9408938 GTCTCAAAAAGACAAAATCGGTAAAGCACTACTGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCGAAAAGACAAAATCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
* *
9409003 AGTATCAACACTTTGTGAATTTAAAAGAGAATCAGTTTTAGAGCCTATAAAG
131 AGTATCAACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAG
*
9409055 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
* *
9409120 GTCTCGAAATGACAAAATCGGTAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 GTCTCGAAAAGACAAAATCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
9409183 AGTACACGTA
Statistics
Matches: 281, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 1 0.00
182 280 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCGAAAAGACAAAATCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCAACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAG
Found at i:9412873 original size:19 final size:19
Alignment explanation
Indices: 9412849--9412897 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
9412839 AATGTAGGGT
9412849 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
9412868 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
9412887 TAATTTTGTAT
1 TAATTTTGTAT
9412898 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:9413595 original size:200 final size:199
Alignment explanation
Indices: 9413250--9413966 Score: 1026
Period size: 200 Copynumber: 3.6 Consensus size: 199
9413240 AGCATATGTC
* * * *
9413250 TCGATACATTTATAAAAAGTATCAATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
*
9413315 AATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACAGAATGTATC
66 AATTTTGTAATATAATCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACA-AATGTATC
* *
9413380 GACACTTTTTCATTTTGTGTCGATACTTTTTGTCAAGAATGAATGCCCAAAATGATGAACGTATA
130 GACACTTTTTCATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCATA
*
9413445 AAATG
195 AAGTG
* * * * * *
9413450 TTGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAATTATATTGTAATACGT
1 TCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
*
9413515 AATTTTGTAATATAATCGGTATAAATATATCGATTTTATGTGAGAATAGGTCTACATAATGTATC
66 AATTTTGTAATATAATCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACA-AATGTATC
* *
9413580 AACACTTTTTCATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGAAGAACGCATA
130 GACACTTTTTCATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCATA
9413645 AAGTG
195 AAGTG
* *
9413650 TCGATACATTTATTAAAAGTGTCGATCACATAAACATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
*
9413715 AATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACAACATGTATC
66 AATTTTGTAATATAATCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACAA-ATGTATC
* ** * * * * *
9413780 GACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATG-CCAAAAGGGTTGCACGCAT
130 GACACTTTTTCATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-TGATGAACGCAT
*
9413844 AACGTG
194 AAAGTG
* *
9413850 TCGATACATTT-TTAAATAGTGTTGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGG
1 TCGATACATTTATTAAA-AGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGG
* ** * * *
9413914 TAAATTTCCAATGTAA-CTGGTATAAATATACCGATTTTATGAGAAAATAGGTC
65 TAATTTTGTAATATAATC-GGTATAAATATACCGATTTTATGTGAGAATAGGTC
9413967 ATCATAAAGT
Statistics
Matches: 465, Mismatches: 48, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
199 13 0.03
200 452 0.97
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (199 bp):
TCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
AATTTTGTAATATAATCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACAAATGTATCG
ACACTTTTTCATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCATAA
AGTG
Found at i:9417609 original size:201 final size:198
Alignment explanation
Indices: 9417263--9418437 Score: 1388
Period size: 201 Copynumber: 5.9 Consensus size: 198
9417253 CTTAAAGTTT
* * * *
9417263 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCCATCCTAGAAACATCGAAACCGATAAATATA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
* * * * *
9417328 ATGTAATAGGTAAATTTACGATGTAACCGATATAACTAAACCGGTTTTATGAGAGAATATGTCTA
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA
* *
9417393 CATAATGTATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAG
131 CATAATGTATCGACACTT-TGGAATTTGTGTCGATACT-TTTGTCCAAAATGAATGCCC-AAAAG
9417458 GGTGCA
193 GGTGCA
* * * *
9417464 CCCATAAAGTGTCGATACATTTTTAAAACGTATCGATCCTAAAAAAATTGAAACCCG-TAATTAT
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTAT
* * ** * *
9417528 AATGTAATAGGCAACTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCT
65 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
* * *
9417593 ACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACCTTTTGTCCAAAATGAATGCCCAAAAT
130 ACATAATGTATCGACACTTTGGAAT-TTGTGTCGATA-CTTTTGTCCAAAATGAATGCCCAAAAG
*
9417658 GGTGAA
193 GGTGCA
* * * * *
9417664 CGCATTAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATTGAAACCGATAATTATA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
* * * * * * *
9417729 ATGTAATTGGTAAATTTACAATGTAACCTGTATAAATAAACCGGTTTTTTTGAGAAAATAGATAT
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTTATGAGAGAATAGGTCT
* * * * * *** *
9417794 ACATAATGTATTGACACTTGTGAAATTTGTGTCGATGCTTTTGGTCCACAAGGAAAATCCAAAAA
130 ACATAATGTATCGACACTT-TGGAATTTGTGTCGATACTTTT-GTCCAAAATGAATGCCCAAAAG
9417859 GGTGCA
193 GGTGCA
* * * * *
9417865 CCCATAAAGTGTCGATACATTTTAAAAAAGTATCGATCCCTAAAACATCAAAACCCATAATTAAA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
* ** * * *
9417930 ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGTTCTA
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA
* * * * * *
9417995 CATAATATGTTGACACTTTTGAATGTTGTGTCGATACTTTTTTGTCCAGAATGAATGCCCAAAAT
131 CATAATGTATCGACACTTTGGAAT-TTGTGTCGATAC--TTTTGTCCAAAATGAATGCCCAAAAG
*
9418060 GGTGAA
193 GGTGCA
* * * *
9418066 CGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATTGAAACCGATAATTATA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
* **
9418131 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATGAGAAAATAGGTGAA
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA
* * *
9418195 CATAATGTATCAACACGTTT-TAGATTTGTGTCAATACTTTTTGTCCAAAAATGAATG-CCAAAA
131 CATAATGTATCGACAC-TTTGGA-ATTTGTGTCGATAC-TTTTGTCC-AAAATGAATGCCCAAAA
9418258 GGGTTGCA
192 GGG-TGCA
* * *
9418266 CGCATAAAGTGTCGATACATTTTTTAAAAAAGTATCTATCCCAAAAACATCGAAATCGATAATTA
1 CCCATAAAGTGTCGATACA-TTTTT-AAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTA
* *
9418331 TAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATGAGAGAATAGGTC
64 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTC
* * * *
9418396 AACATAATTTATCGACACTTCT-AAATTTGTGTTGATACTTTT
129 TACATAATGTATCGACACTT-TGGAATTTGTGTCGATACTTTT
9418438 AAATAACGCG
Statistics
Matches: 826, Mismatches: 130, Indels: 36
0.83 0.13 0.04
Matches are distributed among these distances:
199 24 0.03
200 222 0.27
201 440 0.53
202 106 0.13
203 34 0.04
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (198 bp):
CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA
CATAATGTATCGACACTTTGGAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCCAAAAGGGT
GCA
Found at i:9417865 original size:401 final size:395
Alignment explanation
Indices: 9417265--9418437 Score: 1534
Period size: 401 Copynumber: 2.9 Consensus size: 395
9417255 TAAAGTTTCC
* * * * * *
9417265 CATAAAGTGTCGATACATTTTTAAAAAGTATCCATCCTAGAAACATCGAAACCGATAAATATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATTGAAACCGATAATTATAAT
* * * *
9417330 GTAATAGGTAAATTTACGATGTAACCGATATAACTAAACCGGTTTTATGAGAGAATATGTCTACA
66 GTAATAGGTAAATTTACAATGTAACCG-TATAAATAAACCGGTTTTATGAGAAAATA-GTATACA
* ***
9417395 TAATGTATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAGGG
129 TAATGTATCGACACTT-TGAAATTTGTGTCGATACT-TTTGTCCA-AAGGAAAATCCAAAAA-GG
* * *
9417460 TGCACCCATAAAGTGTCGATACATTTTTAAAACGTATCGATCCTAAAAAAATTGAAACCCGTAAT
190 TGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCTAAAAACATCGAAACCCGTAAT
* *
9417525 TATAATGTAATAGGCAACTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGG
255 TATAATGTAATAGGTAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGG
*
9417590 TCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACCTTTTGTCCAAAATGAATGCCCAA
320 TCTACATAATATGTCGACACTTTTGAATGTTGTGTCGATACCTTTTGTCCAAAATGAATGCCCAA
9417655 AATGGTGAACG
385 AATGGTGAACG
*
9417666 CATTAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATTGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATTGAAACCGATAATTATAAT
* *
9417731 GTAATTGGTAAATTTACAATGTAACCTGTATAAATAAACCGGTTTTTTTGAGAAAATAGATATAC
66 GTAATAGGTAAATTTACAATGTAACC-GTATAAATAAACCGG-TTTTATGAGAAAATAG-TATAC
* *
9417796 ATAATGTATTGACACTTGTGAAATTTGTGTCGATGCTTTTGGTCCACAAGGAAAATCCAAAAAGG
128 ATAATGTATCGACACTT-TGAAATTTGTGTCGATACTTTT-GTCCA-AAGGAAAATCCAAAAAGG
* * *
9417861 TGCACCCATAAAGTGTCGATACATTTTAAAAAAGTATCGATCCCT-AAAACATCAAAACCCATAA
190 TGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGAT-CCTAAAAACATCGAAACCCGTAA
* *
9417925 TTAAAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAG
254 TTATAATGTAATAGGTAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAG
* * * *
9417990 TTCTACATAATATGTTGACACTTTTGAATGTTGTGTCGATACTTTTTTGTCCAGAATGAATGCCC
319 GTCTACATAATATGTCGACACTTTTGAATGTTGTGTCGATAC-CTTTTGTCCAAAATGAATGCCC
9418055 AAAATGGTGAACG
383 AAAATGGTGAACG
* *
9418068 CATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATTGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATTGAAACCGATAATTATAAT
*
9418133 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATGAGAAAATAGGTGA-AC
66 GTAATAGGTAAATTTACAATGTAACC-GTATAAATAAACCGGTTTTATGAGAAAATA-GT-ATAC
* * * * *
9418196 ATAATGTATCAACACGTTTTAGATTTGTGTCAATACTTTTTGTCCAAA--AATGAATGCCAAAAG
128 ATAATGTATCGACAC-TTTGAAATTTGTGTCGATAC-TTTTGTCCAAAGGAA--AAT-CCAAAAA
* * * *
9418259 GGTTGCACGCATAAAGTGTCGATACATTTTTTAAAAAAGTATCTATCCCAAAAACATCGAAA-TC
188 GG-TGCACCCATAAAGTGTCGATACA-TTTTT-AAAAAGTATCGATCCTAAAAACATCGAAACCC
** * * * *
9418323 GATAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATGAGAG
250 G-TAATTATAATGTAATAGGTAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAG
* * * * * *
9418388 AATAGGTCAACATAATTTATCGACACTTCTAAAT-TTGTGTTGATA-CTTTT
314 AATAGGTCTACATAATATGTCGACACTTTTGAATGTTGTGTCGATACCTTTT
9418438 AAATAACGCG
Statistics
Matches: 681, Mismatches: 73, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
397 2 0.00
399 5 0.01
400 60 0.09
401 286 0.42
402 223 0.33
403 105 0.15
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (395 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATTGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGTATAAATAAACCGGTTTTATGAGAAAATAGTATACATA
ATGTATCGACACTTTGAAATTTGTGTCGATACTTTTGTCCAAAGGAAAATCCAAAAAGGTGCACC
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCTAAAAACATCGAAACCCGTAATTATAAT
GTAATAGGTAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACA
TAATATGTCGACACTTTTGAATGTTGTGTCGATACCTTTTGTCCAAAATGAATGCCCAAAATGGT
GAACG
Found at i:9418248 original size:602 final size:602
Alignment explanation
Indices: 9417263--9418437 Score: 1602
Period size: 602 Copynumber: 2.0 Consensus size: 602
9417253 CTTAAAGTTT
* * * *
9417263 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCCATCCTAGAAACATCGAAACCGATAAATATA
1 CCCATAAAGTGTCGATACATTTTAAAAAAGTATCCATCCTAGAAACATCAAAACCCATAAATAAA
* * *
9417328 ATGTAATAGGTAAATTTACGATGTAACCGATATAACTAAACCGGTTTTATGAGAGAATATGTCTA
66 ATGTAATAGGTAAATTTACAATATAACCGATATAAATAAACCGGTTTTATGAGAGAATATGTCTA
*
9417393 CATAATGTATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAG
131 CATAATATATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAG
* * ** *
9417458 GGTGCACCCATAAAGTGTCGATACATTTTTAAAACGTATCGATCCTAAAAAAATTGAAACCCGTA
196 GGTGAACCCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAAAATTGAAACCCGTA
* ** * *
9417523 ATTATAATGTAATAGGCAACTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATA
261 ATTATAATGTAATAGGCAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATA
* * * *
9417588 GGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACCTTTTGTCCAAAATGAATGCCC
326 GGTCAACATAATGTATCAACACTTTTGAATGTTGTGTCAATACCTTTTGTCCAAAATGAATG-CC
* * *
9417653 AAAATGG-TGAACGCATTAAGTGTCGATACA-TTTAT-AAAAAGTATCAATCCCAAAAACATTGA
390 AAAAGGGTTGAACGCATAAAGTGTCGATACATTTTATAAAAAAGTATCAATCCCAAAAACATCGA
* * *
9417715 AACCGATAATTATAATGTAATTGGTAAATTTACAATGTAACCT-GTATAAATAAACCGGTTTTTT
455 AACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA-CTGGTATAAATAAACCAG-TTTTA
* * *
9417779 TGAGAAAATAGAT-ATACATAATGTATTGACACTTGTGAAATTTGTGTCGATGCTTTTGGTCCAC
518 TGAGAAAATAGATCA-ACATAATGTATCGACACTTCT-AAATTTGTGTCGATACTTTTGGTCCAC
9417843 AAGGAAAATCCAAAAAGGTGCA
581 AAGGAAAATCCAAAAAGGTGCA
* *
9417865 CCCATAAAGTGTCGATACATTTTAAAAAAGTATCGATCCCTA-AAACATCAAAACCCATAATTAA
1 CCCATAAAGTGTCGATACATTTTAAAAAAGTATCCAT-CCTAGAAACATCAAAACCCATAAATAA
* ** * * *
9417929 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATA-GTTC
65 AATGTAATAGGTAAATTTACAATATAACCGATATAAATAAACCGGTTTTATGAGAGAATATG-TC
* * * * *
9417993 TACATAATATGTTGACACTT-TTGAATGTTGTGTCGATACTTTTTTGTCCAGAATGAATGCCC-A
129 TACATAATATATCGACACTTCTGGAAT-TTGTGTCGATAC-TGTTTGTCCAGAAGGAATGCCCAA
* * *
9418056 AAATGGTGAACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATTGAAA-C
192 AAAGGGTGAACCCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAAAATTGAAACC
* *
9418120 CGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATGAGA
257 CG-TAATTATAATGTAATAGGCAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGA
* *
9418184 AAATAGGTGAACATAATGTATCAACACGTTTT-AGAT-TTGTGTCAATACTTTTTGTCCAAAAAT
321 AAATAGGTCAACATAATGTATCAACAC-TTTTGA-ATGTTGTGTCAATACCTTTTGTCC-AAAAT
* * *
9418247 GAATGCCAAAAGGGTTGCACGCATAAAGTGTCGATACATTTTTTAAAAAAGTATCTATCCCAAAA
383 GAATGCCAAAAGGGTTGAACGCATAAAGTGTCGATACATTTTATAAAAAAGTATCAATCCCAAAA
* *
9418312 ACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCAG
448 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATAAACCAG
* * * *
9418377 TTTTATGAGAGAATAGGTCAACATAATTTATCGACACTTCTAAATTTGTGTTGATACTTTT
513 TTTTATGAGAAAATAGATCAACATAATGTATCGACACTTCTAAATTTGTGTCGATACTTTT
9418438 AAATAACGCG
Statistics
Matches: 500, Mismatches: 60, Indels: 26
0.85 0.10 0.04
Matches are distributed among these distances:
601 67 0.13
602 293 0.59
603 63 0.13
604 77 0.15
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (602 bp):
CCCATAAAGTGTCGATACATTTTAAAAAAGTATCCATCCTAGAAACATCAAAACCCATAAATAAA
ATGTAATAGGTAAATTTACAATATAACCGATATAAATAAACCGGTTTTATGAGAGAATATGTCTA
CATAATATATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAG
GGTGAACCCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAAAATTGAAACCCGTA
ATTATAATGTAATAGGCAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATA
GGTCAACATAATGTATCAACACTTTTGAATGTTGTGTCAATACCTTTTGTCCAAAATGAATGCCA
AAAGGGTTGAACGCATAAAGTGTCGATACATTTTATAAAAAAGTATCAATCCCAAAAACATCGAA
ACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATAAACCAGTTTTATGA
GAAAATAGATCAACATAATGTATCGACACTTCTAAATTTGTGTCGATACTTTTGGTCCACAAGGA
AAATCCAAAAAGGTGCA
Found at i:9420515 original size:156 final size:157
Alignment explanation
Indices: 9420231--9420543 Score: 619
Period size: 156 Copynumber: 2.0 Consensus size: 157
9420221 GCACTGTAGC
9420231 ATAACCTATTTGACGTTGAACGTAGAGCAGCAAACCTTGCCATTTGCATCATTTCTGGAGGCACA
1 ATAACCTATTTGACGTTGAACGTAGAGCAGCAAACCTTGCCATTTGCATCATTTCTGGAGGCACA
9420296 TTCAAGTCAACATAATTGGGTGAAGAAGCCTTCACATCCTTAGTCCACCTACTTTGAATCAAAGT
66 TTCAAGTCAACATAATTGGGTGAAGAAGCCTTCACATCCTTAGTCCACCTACTTTGAATCAAAGT
9420361 CTCGAG-AAATATGTGTAATCCAAGTT
131 CTCGAGAAAATATGTGTAATCCAAGTT
9420387 ATAACCTATTTGACGTTGAACGTAGAGCAGCAAACCTTGCCATTTGCATCATTTCTGGAGGCACA
1 ATAACCTATTTGACGTTGAACGTAGAGCAGCAAACCTTGCCATTTGCATCATTTCTGGAGGCACA
9420452 TTCAAGTCAACATAATTGGGTGAAGAAGCCTTCACATCCTTAGTCCACCTACTTTGAATCAAAGT
66 TTCAAGTCAACATAATTGGGTGAAGAAGCCTTCACATCCTTAGTCCACCTACTTTGAATCAAAGT
9420517 CTCGAGAAAATATGTGTAATCCAAGTT
131 CTCGAGAAAATATGTGTAATCCAAGTT
9420544 CTTCAAAATG
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
156 136 0.87
157 20 0.13
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (157 bp):
ATAACCTATTTGACGTTGAACGTAGAGCAGCAAACCTTGCCATTTGCATCATTTCTGGAGGCACA
TTCAAGTCAACATAATTGGGTGAAGAAGCCTTCACATCCTTAGTCCACCTACTTTGAATCAAAGT
CTCGAGAAAATATGTGTAATCCAAGTT
Found at i:9428621 original size:22 final size:22
Alignment explanation
Indices: 9428595--9428678 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
9428585 TTAGTGCAGA
*
9428595 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
9428617 GGGAACCGGTTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
* * *
9428640 GGGAACCCATTCCCCCTTGTAG
1 GGGAACCGATACCCCCTTGAAG
*
9428662 GGGAATCGATACCCCCT
1 GGGAACCGATACCCCCT
9428679 GGAGGTTTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 32 0.62
23 20 0.38
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.20
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:9428637 original size:23 final size:22
Alignment explanation
Indices: 9428606--9428666 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
9428596 GGAATCGATA
**
9428606 CCCCCTTGAAGGGGAACCGGTT
1 CCCCCTTGAAGGGGAACCCATT
9428628 CCCCCTTTGAAGGGGAACCCATT
1 CCCCC-TTGAAGGGGAACCCATT
*
9428651 CCCCCTTGTAGGGGAA
1 CCCCCTTGAAGGGGAA
9428667 TCGATACCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.20
Consensus pattern (22 bp):
CCCCCTTGAAGGGGAACCCATT
Found at i:9430279 original size:18 final size:18
Alignment explanation
Indices: 9430258--9430295 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
9430248 ACAGCACGAT
9430258 GAACAAGCACGAG-CAGAG
1 GAACAAGCAC-AGCCAGAG
9430276 GAACAAGCACAGCCAGAG
1 GAACAAGCACAGCCAGAG
9430294 GA
1 GA
9430296 TCAAATGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.45, C:0.24, G:0.32, T:0.00
Consensus pattern (18 bp):
GAACAAGCACAGCCAGAG
Found at i:9432492 original size:199 final size:198
Alignment explanation
Indices: 9432100--9432619 Score: 597
Period size: 199 Copynumber: 2.6 Consensus size: 198
9432090 TTAACTCAAC
* *
9432100 AAGTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATTGAAACCGATAATTATAATGTA
1 AAGTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTA
* * * * * * *
9432164 ATATGTAAATTTATAATGTAACCGGTATAAATATATTGGTTTTATGAGAAAATAGTTCATCATAA
65 ATAGGTAAATTTACAATGT-ACCGATATAAATATACTGGTTTTATGAAAAAATAGGTCATAATAA
* * ** *
9432229 AGTATCGACACTTGTTAAATTTGTGTCGATACATTTGGTCCTTAATGAATGCCAAATGGGTGCAC
129 AGTATCGACACTTGTTAAATTGGTGTCAATACATTTGGTCCAGAATGAATGCCAAACGGGTGCAC
9432294 GCATA
194 GCATA
* * *
9432299 AAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAATCGATAATTACAATGTGA
1 AAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
* *
9432364 TAGGTAAATTTACAATGTACCCGATAGAAATATACCGGTTTTATGAAAAAATAGGTC-TAAATAA
66 TAGGTAAATTTACAATGTA-CCGATATAAATATACTGGTTTTATGAAAAAATAGGTCAT-AATAA
* * * * *
9432428 TGTATCGACACTCT-TTAAGTTGGTGTCAATAC--TTGTTTCCAGACTGAATGCCCAACGAGGTG
129 AGTATCGACACT-TGTTAAATTGGTGTCAATACATTTG-GTCCAGAATGAATGCCAAACG-GGTG
9432490 CACGCATA
191 CACGCATA
* * * ** *
9432498 AAGTGTCGATAAATTTA--AAATTGTATCAATCAAAAAAACATCGAAACCGATAATTATAATCTA
1 AAGTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* * *
9432561 ATAGGTAAATTTGCAATGTTACCGATATAAATATACTGG-TTTACTTATAAAATAGGTCA
65 ATAGGTAAATTTACAATG-TACCGATATAAATATACTGGTTTTA-TGAAAAAATAGGTCA
9432620 ATATAAGCGC
Statistics
Matches: 273, Mismatches: 38, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
197 10 0.04
198 99 0.36
199 163 0.60
200 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (198 bp):
AAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
TAGGTAAATTTACAATGTACCGATATAAATATACTGGTTTTATGAAAAAATAGGTCATAATAAAG
TATCGACACTTGTTAAATTGGTGTCAATACATTTGGTCCAGAATGAATGCCAAACGGGTGCACGC
ATA
Found at i:9432766 original size:86 final size:87
Alignment explanation
Indices: 9432620--9432781 Score: 299
Period size: 86 Copynumber: 1.9 Consensus size: 87
9432610 AAATAGGTCA
9432620 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
9432685 CTGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
*
9432707 ATATAAGCGCTACCTATTACA-TATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
9432771 CCGGTTAAATG
66 CCGGTTAAATG
9432782 ATATAACATA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 52 0.71
87 21 0.29
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:9433881 original size:13 final size:14
Alignment explanation
Indices: 9433850--9433882 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9433840 TTAAAAATAT
9433850 CATTTTATTATTAA
1 CATTTTATTATTAA
*
9433864 AATTTTATT-TTAA
1 CATTTTATTATTAA
9433877 CATTTT
1 CATTTT
9433883 CAAGCAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (14 bp):
CATTTTATTATTAA
Found at i:9438140 original size:2 final size:2
Alignment explanation
Indices: 9438106--9438130 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9438096 TCGTCCCATT
9438106 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9438131 TTGTTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9438178 original size:37 final size:38
Alignment explanation
Indices: 9438135--9438344 Score: 193
Period size: 37 Copynumber: 5.9 Consensus size: 38
9438125 ATATATTTGT
* * *
9438135 TATATAG-TTTAAAAACATTTTTAAAACATGTATATAA
1 TATATAGTTTTTAAAACATTTTGAAAACATATATATAA
*
9438172 TATATAGTTTTGAAAACA---TG------TATA--TAA
1 TATATAGTTTTTAAAACATTTTGAAAACATATATATAA
* * *
9438199 TATATAGTTTTGAAAACATGTTTGAAAACATTTATATAT
1 TATATAGTTTTTAAAACAT-TTTGAAAACATATATATAA
*
9438238 TATATAGTTTTTAAAACATTTTG-AAA-ATAAATATAA
1 TATATAGTTTTTAAAACATTTTGAAAACATATATATAA
*
9438274 TATATAGTTTTTAAAACATGTTTG-AAA-ATATATATAT
1 TATATAGTTTTTAAAACAT-TTTGAAAACATATATATAA
*
9438311 TATATAGTTTTT-AAACATTTTGAAAATATATATA
1 TATATAGTTTTTAAAACATTTTGAAAACATATATA
9438345 GTTTTAAAAA
Statistics
Matches: 146, Mismatches: 11, Indels: 32
0.77 0.06 0.17
Matches are distributed among these distances:
27 21 0.14
29 3 0.02
31 2 0.01
35 5 0.03
36 35 0.24
37 47 0.32
38 13 0.09
39 20 0.14
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (38 bp):
TATATAGTTTTTAAAACATTTTGAAAACATATATATAA
Found at i:9438187 original size:27 final size:27
Alignment explanation
Indices: 9438152--9438219 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
9438142 TTTAAAAACA
*
9438152 TTTTTAAAACATGTATATAATATATAG
1 TTTTGAAAACATGTATATAATATATAG
9438179 TTTTGAAAACATGTATATAATATATAG
1 TTTTGAAAACATGTATATAATATATAG
9438206 TTTTGAAAACATGT
1 TTTTGAAAACATGT
9438220 TTGAAAACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (27 bp):
TTTTGAAAACATGTATATAATATATAG
Found at i:9438225 original size:39 final size:37
Alignment explanation
Indices: 9438179--9438344 Score: 214
Period size: 39 Copynumber: 4.5 Consensus size: 37
9438169 TAATATATAG
* *
9438179 TTTTGAAAACATGTATATAATATATAGTTTTGAAAACA
1 TTTTGAAAA-ATATATATAATATATAGTTTTTAAAACA
* *
9438217 TGTTTGAAAACATTTATATATTATATAGTTTTTAAAACA
1 T-TTTGAAAA-ATATATATAATATATAGTTTTTAAAACA
*
9438256 TTTTG-AAAATAAATATAATATATAGTTTTTAAAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
*
9438292 TGTTTG-AAAATATATATATTATATAGTTTTT-AAACA
1 T-TTTGAAAAATATATATAATATATAGTTTTTAAAACA
9438328 TTTTG-AAAATATATATA
1 TTTTGAAAAATATATATA
9438345 GTTTTAAAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
35 16 0.14
36 32 0.27
37 30 0.25
38 5 0.04
39 35 0.30
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
Done.