Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_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: 3931635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 20
Found at i:2665302 original size:30 final size:30
Alignment explanation
Indices: 2665266--2665357 Score: 157
Period size: 30 Copynumber: 3.1 Consensus size: 30
2665256 AACACCATAT
* * *
2665266 CAATTTGAAGTCCTTGAATAACTTTGCATG
1 CAATTTGAAGCCCTTGAATAAGTTTGTATG
2665296 CAATTTGAAGCCCTTGAATAAGTTTGTATG
1 CAATTTGAAGCCCTTGAATAAGTTTGTATG
2665326 CAATTTGAAGCCCTTGAATAAGTTTGTATG
1 CAATTTGAAGCCCTTGAATAAGTTTGTATG
2665356 CA
1 CA
2665358 GTGACATATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (30 bp):
CAATTTGAAGCCCTTGAATAAGTTTGTATG
Found at i:2667794 original size:28 final size:26
Alignment explanation
Indices: 2667763--2667814 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
2667753 ATTAAAAATT
*
2667763 TATTTTATTCCTTCTATTATTTAAAAGA
1 TATTTTAAT-CTTCTA-TATTTAAAAGA
*
2667791 TATTTTAATCTTTTATATTTAAAA
1 TATTTTAATCTTCTATATTTAAAA
2667815 AAGTGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 5 0.23
28 8 0.36
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (26 bp):
TATTTTAATCTTCTATATTTAAAAGA
Found at i:2667961 original size:3 final size:3
Alignment explanation
Indices: 2667939--2667991 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
2667929 ATATTATAAA
* *
2667939 TAT TAAT TA- TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAA TATT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
2667985 TAT TAT T
1 TAT TAT T
2667992 TTACATTTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2672113 original size:17 final size:17
Alignment explanation
Indices: 2672085--2672119 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
2672075 TTAAAGTACA
2672085 AAAAAATGAAAGATAAAT
1 AAAAAATGAAAGA-AAAT
2672103 AAAAAAT-AAAGAAAAT
1 AAAAAATGAAAGAAAAT
2672119 A
1 A
2672120 GTAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (17 bp):
AAAAAATGAAAGAAAAT
Found at i:2672659 original size:104 final size:98
Alignment explanation
Indices: 2672433--2672679 Score: 257
Period size: 104 Copynumber: 2.5 Consensus size: 98
2672423 TTGTACCTGG
2672433 ATCGGGTCACCGCAAGGTCGTATAATAATTCAAACAAATTAATAAAAAAATGTTAGGAGTTAATA
1 ATCGGGTCACCGCAAGGTCGTATAATAATTCAAACAAATTAAT--AAAAATGTTAGGAGTTAATA
* * * *
2672498 GAGTCCAGACCATAATAATGCGGATCATACCCCGG
64 GAGTCCAGACCATAATAATACGGATAATACCCAGA
* * * *
2672533 ATCGGGTCACCACAAGGCCGTATAATAATCCAAACAAATTAATAAAAATGTTA-GAGATAGAAAT
1 ATCGGGTCACCGCAAGGTCGTATAATAATTCAAACAAATTAATAAAAATGTTAGGAG-T--TAA-
** * * *
2672597 TAGTAATGTCTGGATCGTAATAATACGGGTAATACCCAGA
62 TAG--A-GTCCAGACCATAATAATACGGATAATACCCAGA
* *
2672637 ATCGGGTCACCGCAAGATCGTATAATGATTC-AA-AAATTAATAA
1 ATCGGGTCACCGCAAGGTCGTATAATAATTCAAACAAATTAATAA
2672680 CTATAACTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
97 3 0.02
98 11 0.09
100 42 0.34
101 3 0.02
102 10 0.08
103 3 0.02
104 50 0.41
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (98 bp):
ATCGGGTCACCGCAAGGTCGTATAATAATTCAAACAAATTAATAAAAATGTTAGGAGTTAATAGA
GTCCAGACCATAATAATACGGATAATACCCAGA
Found at i:2673596 original size:23 final size:23
Alignment explanation
Indices: 2673566--2673620 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
2673556 CTATGCAAAT
2673566 TCTTGAACTATAAGTTCTTCTCA
1 TCTTGAACTATAAGTTCTTCTCA
2673589 TCTTGAACTATAAGTTCTTCTCA
1 TCTTGAACTATAAGTTCTTCTCA
2673612 TCTTGAACT
1 TCTTGAACT
2673621 TCTTCTCCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (23 bp):
TCTTGAACTATAAGTTCTTCTCA
Found at i:2674335 original size:139 final size:139
Alignment explanation
Indices: 2673883--2674962 Score: 1492
Period size: 139 Copynumber: 7.8 Consensus size: 139
2673873 GGTGTTGTTC
* * * * *
2673883 CAACTCCTTATTTGATGGAAACGAGCTAAAGTAGAACAAGTTCTTCTCATTATGAACTTCTTCTC
1 CAACTCCATATGTGAT-GAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
* *
2673948 CCTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATTTTGATCCATCGAGTGAGGT
65 CCTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGT
**
2674013 GTTTTTGATT
130 GTTGCTGATT
** * * *
2674023 CAACTCTGTATATGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTCT
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* * *
2674088 CTCATCGGATGAGTTCTTCTCATTATGAATTCTCCAC-CG---TGTTGATCCCTCGAGTGAGGTG
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTG
2674149 TTGCTGATT
131 TTGCTGATT
*
2674158 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTACTCATTATGAACTTCTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
** * * * *
2674223 CTCATCGGAACAATTATTCTCATTATAAACTCTCCATTCGAAATGTTGATCCCTCGAGTGAGGTG
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTG
2674288 TTGCTGATT
131 TTGCTGATT
*
2674297 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* * * *
2674362 CTCATCGGATGAGTTTTTCTCATTATGAACTCTCAACTAGAAATATTGATCCCTCGAGTGAGGTG
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTG
*
2674427 TTGTTGATT
131 TTGCTGATT
* * * *
2674436 CAATTCTATATGTGATGAATCGAGCTAAGGTT-AATAAGTTCTTATCATTATGAA---CTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* * * * *
2674497 CTCATCGGATGATTTATTCTCATTATGAACTCTCTATTGGAAATGTTGATCCCTTGAGTGAGATG
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTG
2674562 TTGCTGATT
131 TTGCTGATT
* * * **
2674571 CAACTCCATATGTGATGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTAT
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* * * * ** * *
2674636 CTTATTGAATGAGTTTTTCTCATTATGAACTCTCCACTATAAATGTTGATCTCTCGTGTGAGGTG
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTG
*
2674701 TTGCTGAAT
131 TTGCTGATT
* * *
2674710 CAACTCCATATGTGATAAATCGAGCTAAGGTTGAACAATTTCTTCTCATTATGAACTTTTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* * * * *
2674775 CTTATCGGATGAGTTATTCTCATTATGAACTTTTCATTGGAAATGTTGATCCCTTGAGTGAGGTG
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTG
*
2674840 TTGCTCATT
131 TTGCTGATT
* * *
2674849 CAACTCAATATGTGATGAATTGAGCTAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* *
2674914 CTCATCGGATGAGTTCTTCTCATTATAAACTCTCCACTGGAAATGTTGA
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGA
2674963 CTGGTTTATC
Statistics
Matches: 822, Mismatches: 110, Indels: 17
0.87 0.12 0.02
Matches are distributed among these distances:
135 215 0.26
136 22 0.03
138 20 0.02
139 552 0.67
140 13 0.02
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (139 bp):
CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
CTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTG
TTGCTGATT
Found at i:2674496 original size:274 final size:276
Alignment explanation
Indices: 2673883--2674962 Score: 1481
Period size: 274 Copynumber: 3.9 Consensus size: 276
2673873 GGTGTTGTTC
* * * * * *
2673883 CAACTCCTTATTTGATGGAAACGAGCTAAAGTAGAACAAGTTCTTCTCATTATGAACTTCTTCTC
1 CAACTCCATATGTGAT-GAATCGAGCTAAGGTTGAACAAGTTCTTATCATTATGAA--TCTTCTC
* * *
2673948 CCTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATTTTGATCCATCGAGTGAGGT
63 CCTCATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGT
** ** *
2674013 GTTTTTGATTCAACTCTGTATATGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA
128 GTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA
* * * *
2674078 ATTCTTCTCTCTCATCGGATGAGTTCTTCTCATTATGAATTCTCCAC-CG---TGTTGATCCCTC
193 CTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTC
2674139 GAGTGAGGTGTTGCTGATT
258 GAGTGAGGTGTTGCTGATT
2674158 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTC-TACTCATTATGAACTTCTTCTC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTA-TCATTATGAA--TCTTCTC
** * * *
2674222 CCTCATCGGAACAATTATTCTCATTATAAACTCTCCATTCGAAATGTTGATCCCTCGAGTGAGGT
63 CCTCATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGT
*
2674287 GTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTTATTATGAA
128 GTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA
* * *
2674352 CTTCTTCTCCCTCATCGGATGAGTTTTTCTCATTATGAACTCTCAACTAGAAATATTGATCCCTC
193 CTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTC
*
2674417 GAGTGAGGTGTTGTTGATT
258 GAGTGAGGTGTTGCTGATT
* * *
2674436 CAATTCTATATGTGATGAATCGAGCTAAGGTT-AATAAGTTCTTATCATTATGAA-CTTCTCCCT
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTATCATTATGAATCTTCTCCCT
* * * *
2674499 CATCGGATGATTTATTCTCATTATGAACTCTCTATTGGAAATGTTGATCCCTTGAGTGAGATGTT
66 CATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTT
* * *
2674564 GCTGATTCAACTCCATATGTGATGAATCAAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
131 GCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTT
** * * * * * * *
2674629 CTTCTATCTTATTGAATGAGTTTTTCTCATTATGAACTCTCCACTATAAATGTTGATCTCTCGTG
196 CTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGAG
*
2674694 TGAGGTGTTGCTGAAT
261 TGAGGTGTTGCTGATT
* * * *
2674710 CAACTCCATATGTGATAAATCGAGCTAAGGTTGAACAATTTCTTCTCATTATGAACTTTTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTATCATTATGAA--TCTTCTCC
* * * *
2674775 CTTATCGGATGAGTTATTCTCATTATGAACTTTTCATTGGAAATGTTGATCCCTTGAGTGAGGTG
64 CTCATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTG
* * * *
2674840 TTGCTCATTCAACTCAATATGTGATGAATTGAGCTAAGGTTGAACAAGTTCTTCTCATTATAAAC
129 TTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAAC
* *
2674905 TTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATAAACTCTCCACTGGAAATGTTGA
194 TTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGA
2674963 CTGGTTTATC
Statistics
Matches: 711, Mismatches: 84, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
273 1 0.00
274 425 0.60
275 34 0.05
277 18 0.03
278 233 0.33
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (276 bp):
CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTATCATTATGAATCTTCTCCCT
CATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTT
GCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTT
CTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGAG
TGAGGTGTTGCTGATT
Found at i:2674671 original size:413 final size:413
Alignment explanation
Indices: 2673883--2674962 Score: 1506
Period size: 413 Copynumber: 2.6 Consensus size: 413
2673873 GGTGTTGTTC
* * * * *
2673883 CAACTCCTTATTTGATGGAAACGAGCTAAAGTAGAACAAGTTCTTCTCATTATGAACTTCTTCTC
1 CAACTCCATATGTGAT-GAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
* *
2673948 CCTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTGGAAATTTTGATCCATCGAGTGAGGT
65 CCTCATCGGATGAGTTATTCTCATTATGAACTCT-CACTGGAAATATTGATCCCTCGAGTGAGGT
* * *
2674013 GTTTTTGATTCAACTCTGTATATGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA
129 GTTGTTGATTCAACTCTATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATG-A
* * **
2674078 ATTCTTCTCTCTCATCGGATGAGTTCTTCTCATTATGAATTCTCCACCG---TGTTGATCCCTCG
193 A-TCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATGGAAATGTTGATCCCTCG
* * * *
2674140 AGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTACTC
257 AGTGAGATGTTGCTGATTCAACTCCATATGTGATGAATCAAACAAAGGTTGAACAAGTTCTACTC
* * *
2674205 ATTATGAACTTCTTCTCCCTCATCGGAACAATTATTCTCATTATAAACTCTCCATTCGAAATGTT
322 ATTATGAACTTCTTCTACCTCATCGGAACAATTATTCTCATTATAAACTCTCCACTAGAAATGTT
*
2674270 GATCCCTCGAGTGAGGTGTTGCTGATT
387 GATCCCTCGAGTGAGGTGTTGCTGAAT
*
2674297 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* *
2674362 CTCATCGGATGAGTTTTTCTCATTATGAACTCTCAACTAGAAATATTGATCCCTCGAGTGAGGTG
66 CTCATCGGATGAGTTATTCTCATTATGAACTCTC-ACTGGAAATATTGATCCCTCGAGTGAGGTG
* * *
2674427 TTGTTGATTCAATTCTATATGTGATGAATCGAGCTAAGGTT-AATAAGTTCTTATCATTATGAA-
130 TTGTTGATTCAACTCTATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAAT
* * * *
2674490 CTTCTCCCTCATCGGATGATTTATTCTCATTATGAACTCTCTATTGGAAATGTTGATCCCTTGAG
195 CTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCA-TGGAAATGTTGATCCCTCGAG
*
2674555 TGAGATGTTGCTGATTCAACTCCATATGTGATGAATCAAACAAAGGTTGAACAAGTTCTTCTCAT
259 TGAGATGTTGCTGATTCAACTCCATATGTGATGAATCAAACAAAGGTTGAACAAGTTCTACTCAT
* * * * * * * *
2674620 TATGAACTTCTTCTATCTTAT-TGAATGAGTTTTTCTCATTATGAACTCTCCACTATAAATGTTG
324 TATGAACTTCTTCTACCTCATCGGAA-CAATTATTCTCATTATAAACTCTCCACTAGAAATGTTG
* *
2674684 ATCTCTCGTGTGAGGTGTTGCTGAAT
388 ATCCCTCGAGTGAGGTGTTGCTGAAT
* * *
2674710 CAACTCCATATGTGATAAATCGAGCTAAGGTTGAACAATTTCTTCTCATTATGAACTTTTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* * * * *
2674775 CTTATCGGATGAGTTATTCTCATTATGAACTTTTCATTGGAAATGTTGATCCCTTGAGTGAGGTG
66 CTCATCGGATGAGTTATTCTCATTATGAAC-TCTCACTGGAAATATTGATCCCTCGAGTGAGGTG
* * * * *
2674840 TTGCTCATTCAACTCAATATGTGATGAATTGAGCTAAGGTTGAACAAGTTCTTCTCATTATAAAC
130 TTGTTGATTCAACTCTATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA-
*
2674905 TTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATAAACTCTCCACTGGAAATGTTGA
194 -TCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCA-TGGAAATGTTGA
2674963 CTGGTTTATC
Statistics
Matches: 588, Mismatches: 67, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
409 38 0.06
410 1 0.00
411 2 0.00
412 22 0.04
413 438 0.74
414 36 0.06
417 51 0.09
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (413 bp):
CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
CTCATCGGATGAGTTATTCTCATTATGAACTCTCACTGGAAATATTGATCCCTCGAGTGAGGTGT
TGTTGATTCAACTCTATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAATC
TTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATGGAAATGTTGATCCCTCGAGTG
AGATGTTGCTGATTCAACTCCATATGTGATGAATCAAACAAAGGTTGAACAAGTTCTACTCATTA
TGAACTTCTTCTACCTCATCGGAACAATTATTCTCATTATAAACTCTCCACTAGAAATGTTGATC
CCTCGAGTGAGGTGTTGCTGAAT
Found at i:2675357 original size:95 final size:96
Alignment explanation
Indices: 2675221--2675417 Score: 245
Period size: 95 Copynumber: 2.0 Consensus size: 96
2675211 TTTGAGAAGA
* * * *
2675221 GATAAATTTTCGTTTCAAGTGAATAAATTTCAAAATATGTGTTCTAAGGGGAACTATTTC-AAGC
1 GATAAATTTTCGTTTCAAGTGAAAAAAATTCAAAATATGTGTTCCAAGGGGAAATATTTCAAAG-
*
2675285 A-AAATTGATTTTAAGAAAAACCATCTCAAGT
65 AGAAATTGATTTGAAGAAAAACCATCTCAAGT
* ** *
2675316 GATAAATTTTTGTTTTGAGTGAAAAAAATTCAAAATTTGTGTTCCAAGGGGAAATATTTCAAAAA
1 GATAAATTTTCGTTTCAAGTGAAAAAAATTCAAAATATGTGTTCCAAGGGGAAATATTTC---AA
*
2675381 AGATGAAATTGATTTGAAGAGAAACCATCTCAAGT
63 AGA-GAAATTGATTTGAAGAAAAACCATCTCAAGT
2675416 GA
1 GA
2675418 GATAATAATT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
95 52 0.60
98 1 0.01
99 3 0.03
100 30 0.35
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (96 bp):
GATAAATTTTCGTTTCAAGTGAAAAAAATTCAAAATATGTGTTCCAAGGGGAAATATTTCAAAGA
GAAATTGATTTGAAGAAAAACCATCTCAAGT
Found at i:2675448 original size:100 final size:95
Alignment explanation
Indices: 2675232--2675454 Score: 245
Period size: 100 Copynumber: 2.3 Consensus size: 95
2675222 ATAAATTTTC
* * * * * *
2675232 GTTTCAAGTGAATAAATTTCAAAATATGTGTTCTAAGGGGAACTATTTCAAGCAAAATTGATTTT
1 GTTTCGAGTGAAAAAATTTCAAAATTTGTGTTCCAAGGGGAAATATTTCAAGCAAAATTGATTTG
* **
2675297 AAGAAAAACCATCTCAAGTGATAAATTTTT
66 AAGAAAAACCATCTCAAGTGAGAAATAATT
* *
2675327 GTTTTGAGTGAAAAAAATTCAAAATTTGTGTTCCAAGGGGAAATATTTCAAAAAAG-ATGAAATT
1 GTTTCGAGTGAAAAAATTTCAAAATTTGTGTTCCAAGGGGAAATATTTC----AAGCA--AAATT
*
2675391 GATTTGAAGAGAAACCATCTCAAGTGAGATAATAATT
60 GATTTGAAGAAAAACCATCTCAAGTGAGA-AATAATT
2675428 -TTTCGAGT-AAAACAATTTCAAAATTTG
1 GTTTCGAGTGAAAA-AATTTCAAAATTTG
2675455 AGTTTCGAGG
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
95 42 0.40
98 1 0.01
99 7 0.07
100 51 0.48
101 5 0.05
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (95 bp):
GTTTCGAGTGAAAAAATTTCAAAATTTGTGTTCCAAGGGGAAATATTTCAAGCAAAATTGATTTG
AAGAAAAACCATCTCAAGTGAGAAATAATT
Found at i:2676678 original size:29 final size:29
Alignment explanation
Indices: 2676599--2676668 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
2676589 ACTTGGGAAG
2676599 GTAATGTGTTTCAGGTTAATTTTGAGAAA
1 GTAATGTGTTTCAGGTTAATTTTGAGAAA
2676628 GTAATGTGTTTCAGGTTAATTTTGAGAAA
1 GTAATGTGTTTCAGGTTAATTTTGAGAAA
2676657 GTAATGTGTTTC
1 GTAATGTGTTTC
2676669 GTGCTAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (29 bp):
GTAATGTGTTTCAGGTTAATTTTGAGAAA
Found at i:2677356 original size:25 final size:27
Alignment explanation
Indices: 2677328--2677377 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
2677318 TTTGATATGT
* *
2677328 TTTC-TTTCT-TCTTTTTCCTTTTTGC
1 TTTCTTTTCTCTCTTATTACTTTTTGC
2677353 TTTCTTTTCTCTCTTATTACTTTTT
1 TTTCTTTTCTCTCTTATTACTTTTT
2677378 TCTTCTGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 5 0.24
27 12 0.57
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTCTTTTCTCTCTTATTACTTTTTGC
Found at i:2677388 original size:21 final size:21
Alignment explanation
Indices: 2677359--2677398 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2677349 TTGCTTTCTT
2677359 TTCTCTCTTATTACTTTTTTC
1 TTCTCTCTTATTACTTTTTTC
* * *
2677380 TTCTGTCTTTTTTCTTTTT
1 TTCTCTCTTATTACTTTTT
2677399 CATTCTTTTA
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:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (21 bp):
TTCTCTCTTATTACTTTTTTC
Found at i:2677435 original size:14 final size:15
Alignment explanation
Indices: 2677413--2677441 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2677403 CTTTTATCTC
2677413 TCTTCTATTTTCTTT
1 TCTTCTATTTTCTTT
2677428 TCTT-TATTTTCTTT
1 TCTTCTATTTTCTTT
2677442 ATTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTCTATTTTCTTT
Found at i:2681313 original size:4 final size:4
Alignment explanation
Indices: 2681304--2681350 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
2681294 TTCGGACATA
* * *
2681304 AAAT AAAT AAAT AAAT AAAT AAAT AAGT AAAC AAAT AAAG AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2681351 GAAAAATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:2681557 original size:99 final size:98
Alignment explanation
Indices: 2681385--2681579 Score: 275
Period size: 99 Copynumber: 2.0 Consensus size: 98
2681375 AAAAGTTAGT
* * *
2681385 TGTTAATAAAGTCTGGACATTAATAATGCGGATCGTACCCCGGATCGGGTCACCACAAGGTCGTA
1 TGTTAATAAAGTATGGACATTAATAATGCGGATCATACCCCGGATCGAGTCACCACAAGGTCGTA
2681450 TAACAATTCAAACAAATAAAAAAAAAAGGTTATG
66 TAACAATTCAAACAAAT-AAAAAAAAAGGTTATG
* * * *
2681484 TGTTAATAGAGTATGGACCA-TAATAATGTGGATCATACCTCGGATCGAGTCACCACAAGGTTGT
1 TGTTAATAAAGTATGGA-CATTAATAATGCGGATCATACCCCGGATCGAGTCACCACAAGGTCGT
* * *
2681548 ATAATAATTCAAACAAATTAATAAAAAGGTTA
65 ATAACAATTCAAACAAATAAAAAAAAAGGTTA
2681580 GAGATAGAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
98 12 0.14
99 71 0.84
100 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (98 bp):
TGTTAATAAAGTATGGACATTAATAATGCGGATCATACCCCGGATCGAGTCACCACAAGGTCGTA
TAACAATTCAAACAAATAAAAAAAAAGGTTATG
Found at i:2692703 original size:19 final size:20
Alignment explanation
Indices: 2692669--2692706 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2692659 CAAAGTTTCA
2692669 TTTTGTTTTTCAAAATCAAC
1 TTTTGTTTTTCAAAATCAAC
*
2692689 TTTTG-TTTTCTAAATCAA
1 TTTTGTTTTTCAAAATCAA
2692707 ATCATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTGTTTTTCAAAATCAAC
Found at i:2700112 original size:18 final size:18
Alignment explanation
Indices: 2700089--2700125 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2700079 GTCTTGTTAG
2700089 AATAGTTATAGTTCAGTT
1 AATAGTTATAGTTCAGTT
2700107 AATAGTTATAGTTCAGTT
1 AATAGTTATAGTTCAGTT
2700125 A
1 A
2700126 GCTTCTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (18 bp):
AATAGTTATAGTTCAGTT
Found at i:2701560 original size:2 final size:2
Alignment explanation
Indices: 2701553--2701602 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2701543 AACTTAAATA
2701553 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
2701595 AT AT AT AT
1 AT AT AT AT
2701603 TATTTATTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2709655 original size:13 final size:13
Alignment explanation
Indices: 2709637--2709663 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2709627 AATACTTAAA
2709637 CTTTATTTTTTTT
1 CTTTATTTTTTTT
2709650 CTTTATTTTTTTT
1 CTTTATTTTTTTT
2709663 C
1 C
2709664 AAAAGCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (13 bp):
CTTTATTTTTTTT
Found at i:2711794 original size:44 final size:44
Alignment explanation
Indices: 2711667--2711804 Score: 204
Period size: 44 Copynumber: 3.1 Consensus size: 44
2711657 ATTTCTCAGT
* * * ** *
2711667 GTTTTTAGGATAGAAACACCGCTAAAGGTCTGGTATATAATGGT
1 GTTTTTAGGATACAAACGCTGCTAAAGGTCTGGTATATAGCGGC
*
2711711 GCTTTTAGGATACAAACGCTGCTAAAGGTCTGGTATATAGCGGC
1 GTTTTTAGGATACAAACGCTGCTAAAGGTCTGGTATATAGCGGC
*
2711755 GTTTTTAGGATACAAACGCTGCTAAAGGTCTGGTATATAGCGAC
1 GTTTTTAGGATACAAACGCTGCTAAAGGTCTGGTATATAGCGGC
2711799 GTTTTT
1 GTTTTT
2711805 TGTTATAAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 85 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (44 bp):
GTTTTTAGGATACAAACGCTGCTAAAGGTCTGGTATATAGCGGC
Found at i:2718227 original size:18 final size:17
Alignment explanation
Indices: 2718204--2718240 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
2718194 TATGAAAATG
2718204 AAATAAGACAACAATACA
1 AAATAAGACAACAA-ACA
2718222 AAATAAGACAACAAACA
1 AAATAAGACAACAAACA
2718239 AA
1 AA
2718241 CTATACCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.70, C:0.16, G:0.05, T:0.08
Consensus pattern (17 bp):
AAATAAGACAACAAACA
Found at i:2722270 original size:22 final size:22
Alignment explanation
Indices: 2722245--2722289 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2722235 TTTTCAAAAG
*
2722245 CTATTATTTTCCTATTCGAAAC
1 CTATTATTTTCATATTCGAAAC
*
2722267 CTATTATTTTTATATTCGAAAC
1 CTATTATTTTCATATTCGAAAC
2722289 C
1 C
2722290 GGAAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
CTATTATTTTCATATTCGAAAC
Found at i:2726056 original size:2 final size:2
Alignment explanation
Indices: 2725961--2726036 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
2725951 CAGTCCTTGA
2725961 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
2726003 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
2726037 TCATGGGTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2726716 original size:25 final size:25
Alignment explanation
Indices: 2726688--2726746 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
2726678 ATTCTATCGT
2726688 CAAGTTCAATAATTCCAGAGGCAAC
1 CAAGTTCAATAATTCCAGAGGCAAC
2726713 CAAGTTCAATAATTCCAGAGGCAAC
1 CAAGTTCAATAATTCCAGAGGCAAC
2726738 CAAGTTCAA
1 CAAGTTCAA
2726747 GAGCTTCAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (25 bp):
CAAGTTCAATAATTCCAGAGGCAAC
Found at i:2728435 original size:24 final size:24
Alignment explanation
Indices: 2728381--2728438 Score: 100
Period size: 23 Copynumber: 2.5 Consensus size: 24
2728371 GCCTAAACTA
*
2728381 TACATTTTTTGCTAAATAAGTTCC
1 TACATTTTTTTCTAAATAAGTTCC
2728405 TAC-TTTTTTTCTAAATAAGTTCC
1 TACATTTTTTTCTAAATAAGTTCC
2728428 TACATTTTTTT
1 TACATTTTTTT
2728439 GATCCTCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 22 0.69
24 10 0.31
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (24 bp):
TACATTTTTTTCTAAATAAGTTCC
Found at i:2739414 original size:39 final size:38
Alignment explanation
Indices: 2739355--2739437 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 38
2739345 CCTGTACACC
2739355 CAGTAAGGGCTACCCTGTGCACAAAGAAGAGGAGCCTG
1 CAGTAAGGGCTACCCTGTGCACAAAGAAGAGGAGCCTG
* * *
2739393 CAGTAAGGTCTTATCCTGTGCACAAAGTAGAGGAGCCTG
1 CAGTAAGGGC-TACCCTGTGCACAAAGAAGAGGAGCCTG
*
2739432 TAGTAA
1 CAGTAA
2739438 AAACTTACCC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 9 0.22
39 31 0.77
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.19
Consensus pattern (38 bp):
CAGTAAGGGCTACCCTGTGCACAAAGAAGAGGAGCCTG
Found at i:2741139 original size:39 final size:39
Alignment explanation
Indices: 2741078--2741271 Score: 138
Period size: 39 Copynumber: 5.0 Consensus size: 39
2741068 CCTGTACACC
* * *
2741078 TAGTAAGGGCTTACCCTATGCACAAAGAAGAGAAGCTTG
1 TAGTAAGGACTTACCCTGTGCACAAAGAAGAGAAGCCTG
* * * * *
2741117 TAGTAAGGTCTTATCATGTGCACAAAGCAGAGGAGCCTG
1 TAGTAAGGACTTACCCTGTGCACAAAGAAGAGAAGCCTG
* * ** * *
2741156 TTGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGTCTG
1 TAGTAAGGACTTACCCTGTGCACAAAGAAGAGAAGCCTG
* * * * ** *
2741195 -CGATAAAGACTTGCCCTGAGCACAAAGTCGAGGAGCCTG
1 TAG-TAAGGACTTACCCTGTGCACAAAGAAGAGAAGCCTG
** * **
2741234 CGGTAAGGACTTACCCTGGGCACAAAGCCGAGAAGCCT
1 TAGTAAGGACTTACCCTGTGCACAAAGAAGAGAAGCCT
2741272 ACGTGTTGAG
Statistics
Matches: 127, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
38 1 0.01
39 125 0.98
40 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (39 bp):
TAGTAAGGACTTACCCTGTGCACAAAGAAGAGAAGCCTG
Found at i:2742004 original size:65 final size:64
Alignment explanation
Indices: 2741932--2742066 Score: 155
Period size: 65 Copynumber: 2.1 Consensus size: 64
2741922 ACACTAATTA
* ** * *
2741932 CATTCGATGCTTCAA-AAGAGCCAGGAGTGCATCGATGCATGGTCTGTACATCGGTACATAAAAT
1 CATTCGATGCTTCAATAA-AGCCAAGAGTGCATAAATGCATGG-ATGTACATCGGTACACAAAAT
2741996 G
64 G
* ** * *
2741997 CATTCGATGTTTCAATAAATTCAAGAGTGCATAAATGCATGGATGTGCATCGGTACACAAAATT
1 CATTCGATGCTTCAATAAAGCCAAGAGTGCATAAATGCATGGATGTACATCGGTACACAAAATG
2742061 CATTCG
1 CATTCG
2742067 GAATGGGTGT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
64 24 0.41
65 33 0.56
66 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (64 bp):
CATTCGATGCTTCAATAAAGCCAAGAGTGCATAAATGCATGGATGTACATCGGTACACAAAATG
Found at i:2742758 original size:23 final size:22
Alignment explanation
Indices: 2742728--2742771 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2742718 CAAATATATA
*
2742728 TATTAAGTTCAATCATCCAAAG
1 TATTAAGTTCAAACATCCAAAG
*
2742750 TATTCAAGTTTAAACATCCAAA
1 TATT-AAGTTCAAACATCCAAA
2742772 AAAACATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (22 bp):
TATTAAGTTCAAACATCCAAAG
Found at i:2744838 original size:23 final size:22
Alignment explanation
Indices: 2744769--2744838 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
2744759 AACGAGTTTG
2744769 TCGATGCACATTCAAGGAATGCA
1 TCGATGCACATTCAAGG-ATGCA
* * * *
2744792 TCGGTGTATC-TTCATGG-TGTA
1 TCGATGCA-CATTCAAGGATGCA
2744813 TCGATGCACATTCAAGGCATGCA
1 TCGATGCACATTCAAGG-ATGCA
2744836 TCG
1 TCG
2744839 GTACACTGTC
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 1 0.03
21 15 0.43
23 18 0.51
24 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (22 bp):
TCGATGCACATTCAAGGATGCA
Found at i:2750625 original size:19 final size:19
Alignment explanation
Indices: 2750601--2750655 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
2750591 ATAAGACTTA
*
2750601 GTGCATCGGTACACTAGGG
1 GTGCATCGGTACACTAAGG
*
2750620 GTGCATCAGTACACTAAGG
1 GTGCATCGGTACACTAAGG
2750639 GTGCATCGGTACACTAA
1 GTGCATCGGTACACTAA
2750656 TTACATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (19 bp):
GTGCATCGGTACACTAAGG
Found at i:2762003 original size:17 final size:18
Alignment explanation
Indices: 2761978--2762013 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2761968 CTTTGAAGAG
*
2761978 CTTGGTCATC-TCATCTT
1 CTTGATCATCATCATCTT
2761995 CTTGATCATCATCATCTT
1 CTTGATCATCATCATCTT
2762013 C
1 C
2762014 ATCCACCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.31, G:0.08, T:0.44
Consensus pattern (18 bp):
CTTGATCATCATCATCTT
Found at i:2763671 original size:23 final size:20
Alignment explanation
Indices: 2763640--2763686 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
2763630 ATGTTTTGAG
2763640 CCTTCATGGTAGTATCGGTACTA
1 CCTTCATGGTA-T-T-GGTACTA
*
2763663 CCTTGATGGTATTGGTACTA
1 CCTTCATGGTATTGGTACTA
2763683 CCTT
1 CCTT
2763687 TGTCTAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 1 0.04
23 10 0.43
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
CCTTCATGGTATTGGTACTA
Found at i:2764378 original size:14 final size:14
Alignment explanation
Indices: 2764361--2764387 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2764351 AAATTTTCAG
2764361 CAAAAACCTTTCTC
1 CAAAAACCTTTCTC
2764375 CAAAAACCTTTCT
1 CAAAAACCTTTCT
2764388 GAAACTATGG
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:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
CAAAAACCTTTCTC
Found at i:2767224 original size:20 final size:20
Alignment explanation
Indices: 2767185--2767224 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2767175 TAAGTATCCA
* **
2767185 TTCTTCTTCTTCTTTTTTTT
1 TTCTTCATCTTCTTCCTTTT
2767205 TTCTTCATCTTCTTCCTTTT
1 TTCTTCATCTTCTTCCTTTT
2767225 CATCTCATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTTCATCTTCTTCCTTTT
Found at i:2768023 original size:2 final size:2
Alignment explanation
Indices: 2768016--2768043 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2768006 CTGTTAAGTT
2768016 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
2768044 ATTAGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2777774 original size:35 final size:35
Alignment explanation
Indices: 2777725--2777802 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
2777715 CACATTCATT
* *
2777725 AATTACATTCTAAACCTCAAATTCTAAAATACTTC
1 AATTACATTATAAACCTCAAATTCCAAAATACTTC
2777760 AATTACATTATAAACCTCAAATTCCAAAATACTTC
1 AATTACATTATAAACCTCAAATTCCAAAATACTTC
2777795 AATTACAT
1 AATTACAT
2777803 GCCCAACCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (35 bp):
AATTACATTATAAACCTCAAATTCCAAAATACTTC
Found at i:2777816 original size:35 final size:35
Alignment explanation
Indices: 2777736--2777818 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 35
2777726 ATTACATTCT
* * *
2777736 AAACCTCAAATTCTAAAATACTTCAATTACATTAT
1 AAACCTCAAATTCCAAAATACTTCAATTACATGAC
*
2777771 AAACCTCAAATTCCAAAATACTTCAATTACATGCC
1 AAACCTCAAATTCCAAAATACTTCAATTACATGAC
* *
2777806 CAACCCCAAATTC
1 AAACCTCAAATTC
2777819 ATAATCTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.28
Consensus pattern (35 bp):
AAACCTCAAATTCCAAAATACTTCAATTACATGAC
Found at i:2778575 original size:143 final size:145
Alignment explanation
Indices: 2778295--2778586 Score: 417
Period size: 148 Copynumber: 2.0 Consensus size: 145
2778285 AAACTATTTA
* * *
2778295 AATTAGAATCAAATAATATTATATTATTATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
1 AATTAGAATCAAATAATAATATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
* *
2778360 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACACAAATCAAAAAAATTTTGAATCGACT
66 AATTCAATTCAA-T--ACTTGATTTAAATTTTATAAACACAAATCAAAAAAATTTCGAATCAACT
2778425 ATTTTATAAACTAAATTG
128 ATTTTATAAACTAAATTG
* * *
2778443 AATTATAATCAAATAATAATATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
1 AATTAGAATCAAATAATAATATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
* * * * *
2778508 AATTCAATTC-A-ACTTGATTTAAATTTTATAAGCTCAAATCGAAAAAATTTCGAGTCAATTATT
66 AATTCAATTCAATACTTGATTTAAATTTTATAAACACAAATCAAAAAAATTTCGAATCAACTATT
*
2778571 TTATAAACTGAATTG
131 TTATAAACTAAATTG
2778586 A
1 A
2778587 GTATTTAGGT
Statistics
Matches: 130, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
143 60 0.46
147 1 0.01
148 69 0.53
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (145 bp):
AATTAGAATCAAATAATAATATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
AATTCAATTCAATACTTGATTTAAATTTTATAAACACAAATCAAAAAAATTTCGAATCAACTATT
TTATAAACTAAATTG
Found at i:2778801 original size:35 final size:35
Alignment explanation
Indices: 2778759--2778838 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
2778749 GGGGTTGGGC
* *
2778759 ATATAATTGAAGTATTTTGGAATTTGAGGTTTAGA
1 ATATAATTGAAGAATTTTGGAATTTGAGGTTTAAA
* * *
2778794 ATGTAATTAAAGAATTTTGGAATTTGGGGTTTAAA
1 ATATAATTGAAGAATTTTGGAATTTGAGGTTTAAA
2778829 ATATAATTGA
1 ATATAATTGA
2778839 TGACTGTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (35 bp):
ATATAATTGAAGAATTTTGGAATTTGAGGTTTAAA
Found at i:2779552 original size:63 final size:63
Alignment explanation
Indices: 2779450--2779601 Score: 202
Period size: 64 Copynumber: 2.4 Consensus size: 63
2779440 GAATAAATTG
* * *
2779450 AACATCGAATGCATTATATGCATCGATGCACATACCATGCATC-ATGCACTCAGG-TTTTTATGA
1 AACATCGAATGCATT-TATGCATCGATACACATAACATGCATCGATGCACTCAGGCTATTT-TG-
2779513 A
63 A
2779514 AACATCGAATGCATTTATGCATCGATACACA-AGACATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTATGCATCGATACACATA-ACATGCATCGATGCACTCAGGCTATTTTGA
*
2779577 AACATCGAATGCACTTCATGCATCG
1 AACATCGAATGCA-TTTATGCATCG
2779602 GTCTCTTAGT
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
62 1 0.01
63 37 0.46
64 38 0.47
65 4 0.05
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATACACATAACATGCATCGATGCACTCAGGCTATTTTGA
Found at i:2784858 original size:44 final size:44
Alignment explanation
Indices: 2784808--2784905 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
2784798 TTTGTGCTTA
* *
2784808 ATGCATCGATACA-C-TGAACAGTGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATACACCATGAA-AGTGCATCAATGCA-CCCATTGAAT
* *
2784852 ATGCATCGATACACCATGAAGGTGCATCAATGCACTCATTGAAT
1 ATGCATCGATACACCATGAAAGTGCATCAATGCACCCATTGAAT
*
2784896 GTGCATCGAT
1 ATGCATCGAT
2784906 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 30 0.64
45 13 0.28
46 4 0.09
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
ATGCATCGATACACCATGAAAGTGCATCAATGCACCCATTGAAT
Found at i:2784899 original size:23 final size:22
Alignment explanation
Indices: 2784828--2784909 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
2784818 ACACTGAACA
*
2784828 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA--CCATTGAAT
* * *
2784852 ATGCATCGATACACCA-TGAAG
1 GTGCATCGATGCACCATTGAAT
*
2784873 GTGCATCAATGCACTCATTGAAT
1 GTGCATCGATGCAC-CATTGAAT
2784896 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2784910 AAGGCCATGC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.32
22 4 0.09
23 17 0.36
24 11 0.23
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACCATTGAAT
Found at i:2787678 original size:65 final size:63
Alignment explanation
Indices: 2787609--2787768 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 63
2787599 GAATAAATTG
* * * *
2787609 AACATCGAATGCATTATATGCATCGATGCACATA-CCATGCATCGATGCACTCAGG-TTTTTATG
1 AACATCGAATGCATT-TATGCATCGATGCACA-AGACATGCATCGATACACTAAGGCTATTT-TG
2787672 AA
63 -A
2787674 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATACACTAAGGCTATTTTGA
1 AACATCGAATGCATTT-ATGCATCGATGCACAAGACATGCATCGATACACTAAGGCTATTTTGA
* ** *
2787738 AACATCAAATGCACTCCATGCATCGACGCAC
1 AACATCGAATGCA-TTTATGCATCGATGCAC
2787769 TAAGGGTCCA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
64 28 0.34
65 51 0.61
66 4 0.05
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATGCACAAGACATGCATCGATACACTAAGGCTATTTTGA
Found at i:2788665 original size:17 final size:17
Alignment explanation
Indices: 2788645--2788683 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2788635 TGCATAAATT
2788645 TAAT-TTATAATAATAAA
1 TAATATTATAA-AATAAA
*
2788662 TAATATTATAACATAAA
1 TAATATTATAAAATAAA
2788679 TAATA
1 TAATA
2788684 AAAATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATATTATAAAATAAA
Found at i:2790453 original size:25 final size:25
Alignment explanation
Indices: 2790425--2790484 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
2790415 ATTTTATACT
*
2790425 AGGAGAAAACTTTTAAAACTTTAGA
1 AGGAGAAAACTTATAAAACTTTAGA
* *
2790450 AGGAGGCAAACTTATAAAATTTTAGA
1 AGGA-GAAAACTTATAAAACTTTAGA
* *
2790476 GGGATAAAA
1 AGGAGAAAA
2790485 ACAGACTATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (25 bp):
AGGAGAAAACTTATAAAACTTTAGA
Found at i:2792642 original size:33 final size:34
Alignment explanation
Indices: 2792571--2792654 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 34
2792561 CGAAGGTTTG
*
2792571 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTTT
*
2792606 GTGTTTCAAGAGAAATAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
2792639 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
2792655 TGTATTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 21 0.46
35 25 0.54
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:2792721 original size:36 final size:36
Alignment explanation
Indices: 2792672--2792740 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
2792662 AAAGATTGAA
*
2792672 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
2792708 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
2792741 ACTTCCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:2792754 original size:34 final size:35
Alignment explanation
Indices: 2792681--2792770 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 35
2792671 AGTTTCAAGG
** * *
2792681 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAA-TACTTCCAAAA
2792717 GAAACTGTCTCAAGAGAGACAAAA-ACTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
* *
2792751 GAAATTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
2792771 GAGATTTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
34 24 0.50
36 24 0.50
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (35 bp):
GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
Found at i:2792831 original size:30 final size:30
Alignment explanation
Indices: 2792795--2792853 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2792785 GTAAAACATA
*
2792795 TTCAAAGATTT-TGTTTCAA-AGGAAACTGTT
1 TTCAAAG-TTTATGCTTCAAGA-GAAACTGTT
2792825 TTCAAAGTTTATGCTTCAAGAGAAACTGT
1 TTCAAAGTTTATGCTTCAAGAGAAACTGT
2792854 CTCAAGGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 22 0.85
31 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (30 bp):
TTCAAAGTTTATGCTTCAAGAGAAACTGTT
Found at i:2792881 original size:21 final size:21
Alignment explanation
Indices: 2792855--2792904 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
2792845 AGAAACTGTC
2792855 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
2792876 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
2792897 TCAAGGGA
1 TCAAGGGA
2792905 AACTATCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:2793013 original size:102 final size:101
Alignment explanation
Indices: 2792876--2793211 Score: 368
Period size: 102 Copynumber: 3.3 Consensus size: 101
2792866 AAAATTTGTT
* * * *
2792876 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCATGAGTGACAAAATTCATTTCAAGGGA
1 TCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATCTCAAGGGA
2792941 AATGTTTTCAATGTTTATGTTTCAAGAGAAACTATC
66 AATGTTTTCAATGTTTATGTTTCAAGAGAAACTATC
* *
2792977 TCAAGGGAGAAAAAATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACTAAATTCATCTCAAGGG
1 TCAAGGGAGAAAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATCTCAAGGG
2793042 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATC
65 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATC
* ** * * * ** * * * * ** *
2793079 TTAAAAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGGG
1 TCAAGGGAGA-AAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATCTCAAGGG
**** *
2793144 AAACAAATTCAAAGATTT-TGTTTCAAGAGAAACTATC
65 AAATGTTTTCAATG-TTTATGTTTCAAGAGAAACTATC
* * **
2793181 TCAAGAGAGACAAAATTCATTTCAAGGGAAA
1 TCAAGGGAGAAAAAATTTGTTTCAAGGGAAA
2793212 TGTTTTCAAT
Statistics
Matches: 196, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
101 28 0.14
102 161 0.82
103 7 0.04
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (101 bp):
TCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATCTCAAGGGA
AATGTTTTCAATGTTTATGTTTCAAGAGAAACTATC
Found at i:2793164 original size:167 final size:167
Alignment explanation
Indices: 2792991--2793511 Score: 889
Period size: 167 Copynumber: 3.1 Consensus size: 167
2792981 GGGAGAAAAA
* * * *
2792991 ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACTAAATTCATCTCAAGGGAAATGTTTTCAATG
1 ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
* *
2793056 TTTATGTTTCAAGAGAAACTATCTTAAAAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAG
66 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAG
*
2793121 GGAGACGAAATTTGTTTCAAGGGAAACAAATTCAAAG
131 GGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAG
2793158 ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
1 ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
2793223 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAG
66 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAG
2793288 GGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAG
131 GGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAG
*
2793325 ATTTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
1 ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
* * *
2793390 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATGTCTCAAG
66 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAG
* * * * *
2793455 GGAGACGAAATTAGTTTCAATGAAAACAGATTTAAAT
131 GGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAG
*
2793492 ATTTTGTTTTAAGAGAAACT
1 ATTTTGTTTCAAGAGAAACT
2793512 TGGAAATTGT
Statistics
Matches: 336, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
167 336 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (167 bp):
ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAG
GGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAG
Found at i:2793210 original size:65 final size:65
Alignment explanation
Indices: 2793114--2793260 Score: 197
Period size: 65 Copynumber: 2.3 Consensus size: 65
2793104 AAAGAAAATG
* * **
2793114 TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACAAATTCAAAGATTT-TGTTTCAAGAGAAACT
1 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAAATTCAAAG-TTTATGTTTCAAGAGAAACT
2793178 A
65 A
**** *
2793179 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAAATTCAAAGTTTATGTTTCAAGAGAAACTA
2793244 TCTCAAGAGAGACAAAA
1 TCTCAAGAGAGACAAAA
2793261 CTTAGTTCCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 3 0.04
65 69 0.96
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (65 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAAATTCAAAGTTTATGTTTCAAGAGAAACTA
Found at i:2793277 original size:102 final size:102
Alignment explanation
Indices: 2793171--2793362 Score: 262
Period size: 102 Copynumber: 1.9 Consensus size: 102
2793161 TTGTTTCAAG
* * * * *
2793171 AGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA-TGTTTTCAATG-TTTATGTTTCA
1 AGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAG-ATTCAAAGATTT-TATTTCA
2793234 AGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
64 AGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
* * * **
2793273 AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTATTTCAAG
1 AGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAGATTCAAAGATTTTATTTCAAG
2793338 AGAAACTATCTCAAGAGAGACAAAA
66 AGAAACTATCTCAAGAGAGACAAAA
2793363 TTCATTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
102 74 0.95
103 4 0.05
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (102 bp):
AGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAGATTCAAAGATTTTATTTCAAG
AGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
Found at i:2793337 original size:269 final size:260
Alignment explanation
Indices: 2792707--2793362 Score: 721
Period size: 269 Copynumber: 2.5 Consensus size: 260
2792697 AGACAAAATT
* * *
2792707 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA--ACTTCCAAAAGAAATTGTCTCAAGGGAGA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAGTTCCAAAAGAAAATGTCTCAAGGGAGA
* ** * *
2792770 CGAGATTTGTTT-AACGTAAAACATATTCAAAGATTTTGTTTCAA-AGGAAACTGT-TT------
66 CGAAATTTGTTTCAA-GGGAAACAGATTCAAAGATTTTGTTTCAAGA-GAAACTATCTTAAAGAG
* ** * * *
2792826 TCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAGACAAAA
129 ACAAAACTTATGCTTCAAAAGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAAA
* * *
2792891 TTTGTTTCAAGGGAAACTATCTCATGAGTGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTT
194 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTT
2792956 TA
259 TA
* * * * ** ** * *
2792958 TGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAATTTTGTTTCAAGGGAACCTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTAGTTCCAAAAGAAAATGTCTCAAGGGAG
* ** * * * *
2793023 ACTAAATTCATCTCAAGGGAAA-TGTTTTCAATG-TTTATGTTTCAAGAGAAACTATCTTAAAAG
65 ACGAAATTTGTTTCAAGGGAAACAG-ATTCAAAGATTT-TGTTTCAAGAGAAACTATCTT-AAAG
*
2793086 AGACAAAACTTA-G-TTCCAAAAGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACA
127 AGACAAAACTTATGCTT-CAAAAGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGG----A
2793149 AATTCAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATG
187 AA--CAAA-A-TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATG
2793214 TTTTCAATGTTTA
248 TTTTCAATGTTTA
2793227 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTAGTTCCAAAAGAAAATGTCTCAAGGGAG
* *
2793292 ACGAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTATTTCAAGAGAAACTATCTCAAGAGAG
65 ACGAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAGAGAAACTATCTTAA-AGAG
2793357 ACAAAA
129 ACAAAA
2793363 TTCATTTCAA
Statistics
Matches: 324, Mismatches: 54, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
251 31 0.10
253 3 0.01
254 52 0.16
255 5 0.02
260 2 0.01
261 40 0.12
262 7 0.02
265 2 0.01
267 4 0.01
268 3 0.01
269 171 0.53
270 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (260 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAGTTCCAAAAGAAAATGTCTCAAGGGAGA
CGAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAGAGAAACTATCTTAAAGAGAC
AAAACTTATGCTTCAAAAGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAAATT
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:2793377 original size:65 final size:65
Alignment explanation
Indices: 2793281--2793429 Score: 185
Period size: 65 Copynumber: 2.3 Consensus size: 65
2793271 AAAGAAAATG
* **
2793281 TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACAG-ATTCAAAGATTT-TATTTCAAGAGAAAC
1 TCTCAAGGGAGACAAAATTCATTTCAAGGGAAA-AGTATTCAAAG-TTTATATTTCAAGAGAAAC
2793344 TA
64 TA
* * * * * *
2793346 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTG
1 TCTCAAGGGAGACAAAATTCATTTCAAGGGAAAAGTATTCAAAGTTTATATTTCAAGAGAAACTA
2793411 TCTCAAGGGAGACAAAATT
1 TCTCAAGGGAGACAAAATT
2793430 TAGTTCCAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
64 4 0.06
65 68 0.94
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (65 bp):
TCTCAAGGGAGACAAAATTCATTTCAAGGGAAAAGTATTCAAAGTTTATATTTCAAGAGAAACTA
Found at i:2793975 original size:106 final size:106
Alignment explanation
Indices: 2793660--2793981 Score: 414
Period size: 106 Copynumber: 3.0 Consensus size: 106
2793650 GTATTGTTCC
* * * * * * **
2793660 GAGTCCAATATCCTCCGCCGTGAAGTTAAAATTAGCTCT-GGAACTAAGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAG-ATTGGGAAATTGTTTGTTGACA
* * * * *
2793724 GCCAGCCGGCCCTTTGTTGTGAAGTTGAGCTTGTGCTGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* * * *
2793766 GAGTCCAATATCATTTGTTGTGAAGTTGAAATTGGCTCCGAA-ATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT-CTAAGATTGGGAAATTGTTTGTTGACA
* *
2793830 ACCAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
*
2793872 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAATTGTTTGTTGACAA
* *
2793937 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTTTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
2793978 GAGT
1 GAGT
2793982 GGCACAATAT
Statistics
Matches: 185, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
105 3 0.02
106 181 0.98
107 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
Found at i:2794599 original size:32 final size:32
Alignment explanation
Indices: 2794558--2794670 Score: 129
Period size: 32 Copynumber: 3.5 Consensus size: 32
2794548 TTTGCATCAG
* * *
2794558 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTC
*
2794590 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTC
* * * *
2794622 GATGTTAAATCTAAAAAAATGCCACAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTC
2794654 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
2794671 GATGCCCTCA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
32 65 0.93
33 5 0.07
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTC
Found at i:2796250 original size:19 final size:19
Alignment explanation
Indices: 2796226--2796314 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
2796216 ATGTCATTTA
2796226 TGCACCGATGCACAGGTAG
1 TGCACCGATGCACAGGTAG
2796245 TGCACCGATGCACAGGTAG
1 TGCACCGATGCACAGGTAG
2796264 TGCACCGATGCACAGGTAG
1 TGCACCGATGCACAGGTAG
*
2796283 TGCACCGATGCACAAGTAG
1 TGCACCGATGCACAGGTAG
*
2796302 TGCATCGATGCAC
1 TGCACCGATGCAC
2796315 CGATAGGGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (19 bp):
TGCACCGATGCACAGGTAG
Found at i:2804935 original size:12 final size:12
Alignment explanation
Indices: 2804918--2804962 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
2804908 GTTCCTTTGT
2804918 TTTTTTTTTCTC
1 TTTTTTTTTCTC
2804930 TTTTTTTTTCTC
1 TTTTTTTTTCTC
*
2804942 TTTGCTTTTTCTC
1 TTT-TTTTTTCTC
2804955 TCTTTTTT
1 T-TTTTTT
2804963 CTTTTTGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 15 0.52
13 12 0.41
14 2 0.07
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:2805699 original size:23 final size:22
Alignment explanation
Indices: 2805668--2805736 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
2805658 CACCACAGCT
*
2805668 CATATAATTGCACCTAAGTGCCA
1 CATAGAATTGCACCT-AGTGCCA
* * *
2805691 CGTAGAATTGCACCGGAGTGCCG
1 CATAGAATTGCACC-TAGTGCCA
2805714 CATAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACC-TAGTGCCA
2805737 TATAATAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (22 bp):
CATAGAATTGCACCTAGTGCCA
Found at i:2805923 original size:103 final size:103
Alignment explanation
Indices: 2805752--2805966 Score: 403
Period size: 103 Copynumber: 2.1 Consensus size: 103
2805742 TAATGTCCAT
2805752 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
2805817 GACCTCACACATGTTCTAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
*
2805855 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
2805920 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
2805958 AAGGACCAC
1 AAGGACCAC
2805967 GTAGACCCTC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:2806534 original size:21 final size:21
Alignment explanation
Indices: 2806510--2806552 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2806500 TTCATATTCG
* *
2806510 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2806531 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2806552 T
1 T
2806553 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2812633 original size:23 final size:22
Alignment explanation
Indices: 2812607--2812670 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
2812597 CAGCTCATAT
2812607 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
2812630 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
2812653 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
2812671 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:2812857 original size:103 final size:103
Alignment explanation
Indices: 2812686--2812903 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
2812676 TAATGTCCAT
*
2812686 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAAACCAAGGATCAAGTATGTGTCTCACCA
2812751 GACCTCACACATATTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATATTCCAAAGAATACATATATGTCCCG
2812789 AAGGACCACATATCATTCCTTAAGAATCATATACATAAACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAAACCAAGGATCAAGTATGTGTCTCACCA
*
2812854 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATATTCCAAAGAATACATATATGTCCCG
2812892 AAGGACCACATA
1 AAGGACCACATA
2812904 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATAAACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:2813418 original size:19 final size:20
Alignment explanation
Indices: 2813381--2813418 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2813371 TTTTTTTATA
*
2813381 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
2813401 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
2813419 TTTAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:2813470 original size:22 final size:22
Alignment explanation
Indices: 2813445--2813487 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2813435 TTCATATTCG
* *
2813445 TTGAGGGGGTATCGATTCCCCC
1 TTGAAGGGGTACCGATTCCCCC
*
2813467 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2813488 TAGCCCAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (22 bp):
TTGAAGGGGTACCGATTCCCCC
Found at i:2817699 original size:30 final size:30
Alignment explanation
Indices: 2817646--2817710 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
2817636 GTGGAGGGTT
*
2817646 AAATTTGTAAATGTGGAAGGTTGAATTGATA
1 AAATTTATAAATGTGGAAGGTTGAATT-ATA
* * *
2817677 AAATTTATAATTGT-GAGGGTTGAATTATT
1 AAATTTATAAATGTGGAAGGTTGAATTATA
2817706 AAATT
1 AAATT
2817711 ATTTAGTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.23
30 11 0.37
31 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (30 bp):
AAATTTATAAATGTGGAAGGTTGAATTATA
Found at i:2822788 original size:25 final size:26
Alignment explanation
Indices: 2822757--2822806 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2822747 ATAAGACACT
*
2822757 AAAAGTGAC-ATTTTATTATTGTCAC
1 AAAAGTGACAATTTAATTATTGTCAC
2822782 AAAAGTGACAATTTAATTATTGTCA
1 AAAAGTGACAATTTAATTATTGTCA
2822807 TATTTGAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (26 bp):
AAAAGTGACAATTTAATTATTGTCAC
Found at i:2822955 original size:21 final size:21
Alignment explanation
Indices: 2822929--2822974 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2822919 ATTCAATCAA
*
2822929 AAAAATTCTTTAAAATATATT
1 AAAAATTATTTAAAATATATT
*
2822950 AAAAATTATTTAAAATATGTT
1 AAAAATTATTTAAAATATATT
2822971 AAAA
1 AAAA
2822975 GACATTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAATTATTTAAAATATATT
Found at i:2824659 original size:17 final size:17
Alignment explanation
Indices: 2824637--2824675 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2824627 TGAATCAAAT
2824637 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2824654 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2824671 -AATTA
1 TAATTA
2824676 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:2825372 original size:12 final size:11
Alignment explanation
Indices: 2825350--2825380 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
2825340 ATCGAATGGA
2825350 CTCGACTCGAG
1 CTCGACTCGAG
2825361 CTCGAGCTCGAG
1 CTCGA-CTCGAG
2825373 CTCGACTC
1 CTCGACTC
2825381 AAGTTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.19
Consensus pattern (11 bp):
CTCGACTCGAG
Found at i:2828390 original size:22 final size:22
Alignment explanation
Indices: 2828372--2828418 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2828362 AATAATATTT
2828372 TAATAAATATATTTAAATATAC
1 TAATAAATATATTTAAATATAC
* *
2828394 TAATTAATATTTTTAAA-ATA-
1 TAATAAATATATTTAAATATAC
2828414 TAATA
1 TAATA
2828419 TAACACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 4 0.18
21 3 0.14
22 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAATATATTTAAATATAC
Found at i:2833739 original size:18 final size:18
Alignment explanation
Indices: 2833697--2833735 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2833687 GATATAATAT
*
2833697 ATAATAATAACATACATA
1 ATAATAATAACATACAAA
*
2833715 ATAATAATAA-ATAGAAA
1 ATAATAATAACATACAAA
2833732 ATAA
1 ATAA
2833736 ATAAGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (18 bp):
ATAATAATAACATACAAA
Found at i:2835281 original size:34 final size:34
Alignment explanation
Indices: 2835238--2835347 Score: 93
Period size: 35 Copynumber: 3.2 Consensus size: 34
2835228 GGTAAGAAAT
* * *
2835238 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
2835271 TTATATTTTATATTAATATATTTATGTAAATATTA
1 TTAT-TTTTATATTAATATATTTATGTAAATATTA
* *
2835306 TT-TTTTT-TATTAAAATAATATTTATATAATTATTA
1 TTATTTTTATATT--AAT-ATATTTATGTAAATATTA
2835341 TTTATTT
1 -TTATTT
2835348 AGAATTATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
32 4 0.06
33 8 0.12
34 16 0.25
35 24 0.38
36 9 0.14
37 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:2835307 original size:35 final size:35
Alignment explanation
Indices: 2835261--2835347 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
2835251 AGTATTTTTT
*
2835261 TAAATAGTTATTATATTTTATATT-AAT-ATATTTATG
1 TAAATA-TTATT-TATTTT-TATTAAATAATATTTATA
2835297 TAAATATTATTT-TTTTTATTAAAATAATATTTATA
1 TAAATATTATTTATTTTTATT-AAATAATATTTATA
*
2835332 TAATTATTATTTATTT
1 TAAATATTATTTATTT
2835348 AGAATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 4 0.09
33 4 0.09
34 4 0.09
35 24 0.53
36 9 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (35 bp):
TAAATATTATTTATTTTTATTAAATAATATTTATA
Found at i:2835511 original size:17 final size:17
Alignment explanation
Indices: 2835489--2835542 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
2835479 AATGTTAATA
2835489 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
2835506 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
2835523 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
2835540 TTT
1 TTT
2835543 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:2837103 original size:21 final size:21
Alignment explanation
Indices: 2837073--2837120 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2837063 GCAGGGGTAC
* *
2837073 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
2837094 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
2837115 ATGCCA
1 ATGCCA
2837121 TCTCTGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:2837152 original size:21 final size:21
Alignment explanation
Indices: 2837126--2837196 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
2837116 TGCCATCTCT
*
2837126 GCAGGGTTACATTCCGAGCCC
1 GCAGGGTTACATTCCTAGCCC
2837147 GCAGGGTTACATTCCTAGCCC
1 GCAGGGTTACATTCCTAGCCC
*
2837168 GCCA-GGTTACATGCCTAGCCC
1 G-CAGGGTTACATTCCTAGCCC
2837189 GCAGGGTT
1 GCAGGGTT
2837197 TTATACCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.21
Consensus pattern (21 bp):
GCAGGGTTACATTCCTAGCCC
Found at i:2837810 original size:28 final size:27
Alignment explanation
Indices: 2837779--2837861 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
2837769 GAAATTTAAA
2837779 TTTAAAATATAAATTATAGTATTCAAAT
1 TTTAAAAT-TAAATTATAGTATTCAAAT
* **
2837807 TTTAACATTCCGATTATAGTATTCGAAA-
1 TTTAAAATT-AAATTATAGTATTC-AAAT
* * *
2837835 TTTAAATTTAAATT-TAATATTCCAAT
1 TTTAAAATTAAATTATAGTATTCAAAT
2837861 T
1 T
2837862 GTATTCGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
25 2 0.05
26 8 0.19
27 4 0.09
28 26 0.60
29 3 0.07
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTAAAATTAAATTATAGTATTCAAAT
Found at i:2837811 original size:34 final size:34
Alignment explanation
Indices: 2837711--2837808 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
2837701 GATAAATGTT
*
2837711 TTTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTTAAAATAAAAATTATATTATTCGAAATTTAAA
* * *
2837745 ATAAAAATAAAAATAATATTATTCGAAATTTAAA
1 TTTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
2837779 TTTAAAATATAAATTATAGTATTC-AAATTT
1 TTTAAAATAAAAATTATATTATTCGAAATTT
2837809 TAACATTCCG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
33 6 0.11
34 49 0.89
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (34 bp):
TTTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:2838465 original size:128 final size:128
Alignment explanation
Indices: 2838237--2838861 Score: 1189
Period size: 128 Copynumber: 4.9 Consensus size: 128
2838227 CCTGATTTAT
2838237 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
2838302 CAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAGTTAAATAATAGGTAC
66 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
2838365 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
2838430 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
2838493 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
2838558 CAAAATAATGGAAGGCGTGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
2838621 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
2838686 CAAAATAATGGAAGGCGCGCCTCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
2838749 TGATATATCTAGTGTCCCCGAGGGACATGAGT-ACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
2838813 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTGAATAGT
66 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
2838862 ACTCCGATTA
Statistics
Matches: 488, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
127 78 0.16
128 410 0.84
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (128 bp):
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
Found at i:2838945 original size:8 final size:8
Alignment explanation
Indices: 2838932--2838972 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2838922 TCACAAGCTT
2838932 TCAAATTC
1 TCAAATTC
2838940 TCAAATTC
1 TCAAATTC
* *
2838948 CCAAACTC
1 TCAAATTC
2838956 T-AAATTC
1 TCAAATTC
2838963 TCAAATTC
1 TCAAATTC
2838971 TC
1 TC
2838973 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:2845918 original size:38 final size:38
Alignment explanation
Indices: 2845848--2845923 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
2845838 CGACTCGATC
* * * *
2845848 CGAAAATTATAAATACTTCACCCGATCTGAACCTGACT
1 CGAAAAATATAAATACTTCACCCGACCCGAACCCGACT
*
2845886 CGAAAAATATATAT-CTTCCACCCGACCCGAACCCGACT
1 CGAAAAATATAAATACTT-CACCCGACCCGAACCCGACT
2845924 TGATTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.09
38 29 0.91
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.22
Consensus pattern (38 bp):
CGAAAAATATAAATACTTCACCCGACCCGAACCCGACT
Found at i:2846654 original size:41 final size:40
Alignment explanation
Indices: 2846604--2846756 Score: 175
Period size: 41 Copynumber: 3.8 Consensus size: 40
2846594 GCGAACATAT
*
2846604 AAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCGTA
1 AAATCGCAACGCGATTCGT-A-AATCGCAACGAGTATCCGTA
** *
2846645 AAATCGCAACGCGTATTCGTAAATCGCAACGACAATACGTA
1 AAATCGCAACGCG-ATTCGTAAATCGCAACGAGTATCCGTA
* * *
2846686 AAATCGCAACGCGTATCCGTAAATCGTAACGTGTATCCGT-
1 AAATCGCAACGCG-ATTCGTAAATCGCAACGAGTATCCGTA
*
2846726 AAATCGCAATGCGATTACGTAAATCGCAACG
1 AAATCGCAACGCGATT-CGTAAATCGCAACG
2846757 CGAATACGTT
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.02
40 25 0.26
41 63 0.66
42 5 0.05
43 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (40 bp):
AAATCGCAACGCGATTCGTAAATCGCAACGAGTATCCGTA
Found at i:2846668 original size:61 final size:60
Alignment explanation
Indices: 2846603--2846756 Score: 177
Period size: 61 Copynumber: 2.5 Consensus size: 60
2846593 CGCGAACATA
** *
2846603 TAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCGTAAAATCGCAACGCGTATTCG
1 TAAATCGCAACGCGATTCGT-AAAATCGCAACGAGTATCCGT-AAATCGCAACGCGTATCCG
* * * * *
2846664 TAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGTAACGTGTATCCG
1 TAAATCGCAACG-CGATTCGTAAAATCGCAACGAGTATCCGTAAATCGCAACGCGTATCCG
*
2846725 TAAATCGCAATGCGATTACGT-AAATCGCAACG
1 TAAATCGCAACGCGATT-CGTAAAATCGCAACG
2846757 CGAATACGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
60 14 0.18
61 42 0.53
62 22 0.28
63 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (60 bp):
TAAATCGCAACGCGATTCGTAAAATCGCAACGAGTATCCGTAAATCGCAACGCGTATCCG
Found at i:2846670 original size:20 final size:20
Alignment explanation
Indices: 2846626--2846758 Score: 144
Period size: 20 Copynumber: 6.5 Consensus size: 20
2846616 GATTCTGACT
*
2846626 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
*
2846647 ATCGCAACGCGTATTCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
2846667 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
2846688 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
2846708 ATCGTAACGTGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
2846728 ATCGCAATGCG-ATTACGTAA
1 ATCGCAACGCGTA-TCCGTAA
2846748 ATCGCAACGCG
1 ATCGCAACGCG
2846759 AATACGTTAC
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.01
20 61 0.64
21 33 0.35
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:2846759 original size:20 final size:20
Alignment explanation
Indices: 2846565--2846765 Score: 110
Period size: 20 Copynumber: 9.9 Consensus size: 20
2846555 GATTTTCCAG
* * * *
2846565 AATCGCAACGTGAATATGAA
1 AATCGCAACGCGATTACGTA
** **
2846585 AATCGCAACGCGAACATATA
1 AATCGCAACGCGATTACGTA
2846605 AATCGCAACGCGATT-C-TGA
1 AATCGCAACGCGATTACGT-A
* * *
2846624 CTATCGCAACGAG-TATCCGTAA
1 -AATCGCAACGCGAT-TACGT-A
2846646 AATCGCAACGCGTATT-CGTA
1 AATCGCAACGCG-ATTACGTA
*
2846666 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGATTACGT-A
*
2846687 AATCGCAACGCG-TATCCGTA
1 AATCGCAACGCGAT-TACGTA
* * *
2846707 AATCGTAACGTG-TATCCGTA
1 AATCGCAACGCGAT-TACGTA
*
2846727 AATCGCAATGCGATTACGTA
1 AATCGCAACGCGATTACGTA
*
2846747 AATCGCAACGCGAATACGT
1 AATCGCAACGCGATTACGT
2846766 TACGTAATCG
Statistics
Matches: 145, Mismatches: 23, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
18 1 0.01
19 4 0.03
20 105 0.72
21 31 0.21
22 3 0.02
23 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGATTACGTA
Found at i:2847687 original size:24 final size:24
Alignment explanation
Indices: 2847660--2847713 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2847650 GTATTCGAAA
2847660 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2847684 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2847708 TTTGAT
1 TTTGAT
2847714 GATTTTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2850188 original size:33 final size:33
Alignment explanation
Indices: 2850146--2850312 Score: 181
Period size: 33 Copynumber: 4.8 Consensus size: 33
2850136 CTTAATGTCT
2850146 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
* * * *
2850179 ATCGCAATGCGAAATAAAAATTGCAACGTGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
* * *
2850212 ATCGCAACGCGAATATGAATATCGCAACGCGGAAATGA
1 ATCGCAATGCGAA-ATGAAAATCGCAA--C-GAGAT-A
*
2850250 CTATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 --ATCGCAATGCGAAATGAAAATCGCAACGAGATA
**
2850285 ATCGCAAAACGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2850313 TGAATTTAGT
Statistics
Matches: 110, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
33 67 0.61
34 10 0.09
35 1 0.01
36 4 0.04
37 3 0.03
38 1 0.01
39 12 0.11
40 12 0.11
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGATA
Found at i:2850230 original size:20 final size:19
Alignment explanation
Indices: 2850146--2850312 Score: 103
Period size: 19 Copynumber: 9.5 Consensus size: 19
2850136 CTTAATGTCT
*
2850146 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
2850165 ATCGCAA--CG--A-GATA
1 ATCGCAACGCGAAATGAAA
* *
2850179 ATCGCAATGCGAAATAAAA
1 ATCGCAACGCGAAATGAAA
*
2850198 ATTGCAA--CG---TGAAA
1 ATCGCAACGCGAAATGAAA
*
2850212 ATCGCAACGCGAATATGAAT
1 ATCGCAACGCGAA-ATGAAA
**
2850232 ATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGAAA
*
2850252 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
2850271 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
**
2850285 ATCGCAAAACGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2850304 ATCGCAACG
1 ATCGCAACG
2850313 TGAATTTAGT
Statistics
Matches: 116, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
14 30 0.26
15 2 0.02
16 6 0.05
17 6 0.05
18 2 0.02
19 39 0.34
20 28 0.24
21 3 0.03
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:2850366 original size:33 final size:33
Alignment explanation
Indices: 2850322--2850401 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
2850312 GTGAATTTAG
* * * *
2850322 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCATTGCGATTTTCA
2850355 TTTCGCATTGCGATTCTCTCATTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCATTGCGATTTTCA
2850388 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
2850402 AATCATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCATTGCGATTTTCA
Found at i:2850367 original size:19 final size:19
Alignment explanation
Indices: 2850343--2850401 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
2850333 GATTTTGTCG
2850343 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2850362 TTGCGA--TTC---TCTCA
1 TTGCGATTTTCATTTCGCA
2850376 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2850395 TTGCGAT
1 TTGCGAT
2850402 AATCATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
16 3 0.09
17 3 0.09
19 17 0.52
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2850527 original size:14 final size:14
Alignment explanation
Indices: 2850508--2850544 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2850498 CATCAATTAA
2850508 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2850522 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2850536 ACAAATCAA
1 ACAAATCAA
2850545 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2851957 original size:21 final size:21
Alignment explanation
Indices: 2851891--2851957 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2851881 GTGAATCGGG
*
2851891 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2851911 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
2851933 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2851954 CTCT
1 CTCT
2851958 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2851976 original size:42 final size:41
Alignment explanation
Indices: 2851891--2852013 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2851881 GTGAATCGGG
* * * *
2851891 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
2851933 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
2851975 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
2852014 CGAGTCGGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:2852456 original size:19 final size:19
Alignment explanation
Indices: 2852434--2852516 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
2852424 AAAAATGGCT
2852434 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2852453 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
2852472 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
2852486 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2852505 ATCGCAACGCGA
1 ATCGCAACGCGA
2852517 TTATAGTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.71
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:2852535 original size:19 final size:19
Alignment explanation
Indices: 2852513--2852574 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
2852503 AAATCGCAAC
*
2852513 GCGATTATAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
2852532 GCGATTTTGGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
2852551 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
2852570 GCGAT
1 GCGAT
2852575 AGTCATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:2852808 original size:94 final size:94
Alignment explanation
Indices: 2852662--2853041 Score: 656
Period size: 94 Copynumber: 4.1 Consensus size: 94
2852652 ATGGATTGCA
* * *
2852662 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAATTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2852726 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
2852755 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2852820 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
2852849 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
2852914 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
2852943 TTAC-TTCAACCAAAAGATAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
2853007 TTTAGCAGTATTGACAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
2853037 TTACT
1 TTACT
2853042 AAGCAATCTA
Statistics
Matches: 276, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
93 22 0.08
94 254 0.92
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:2853882 original size:21 final size:22
Alignment explanation
Indices: 2853840--2853882 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2853830 AATAACAAAC
*
2853840 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
2853862 ATTA-TAATT-TTAAAAACATTA
1 ATTAGTAATTGTTAAAAA-ATTA
2853883 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:2854756 original size:20 final size:19
Alignment explanation
Indices: 2854731--2854804 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 19
2854721 TCTTTTGGTT
2854731 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
2854750 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2854768 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2854784 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2854803 GA
1 GA
2854805 TTTTGGTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
14 9 0.21
15 1 0.02
16 2 0.05
17 1 0.02
18 2 0.05
19 14 0.33
20 14 0.33
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2854835 original size:14 final size:14
Alignment explanation
Indices: 2854816--2854872 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2854806 TTTGGTTTCG
2854816 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
2854830 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
2854849 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
2854863 CGTTGCGATT
1 CGTTGCGATT
2854873 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:2854848 original size:33 final size:33
Alignment explanation
Indices: 2854800--2854880 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
2854790 AAAATCGCAA
**
2854800 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
2854833 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
2854866 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
2854881 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:2854883 original size:21 final size:20
Alignment explanation
Indices: 2854864--2854935 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
2854854 CGATTCTCTC
2854864 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
2854884 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
2854905 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
2854925 GTTGCGATTTT
1 GTTGCGATTTT
2854936 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:2855528 original size:20 final size:20
Alignment explanation
Indices: 2855490--2855706 Score: 164
Period size: 20 Copynumber: 10.7 Consensus size: 20
2855480 CACTTTAAAA
*
2855490 ATCG-CGTTGCGATTTTACGT
1 ATCGTCGTTGCGA-TTTACGG
*
2855510 ATTGTCGTTGCGATTTACGG
1 ATCGTCGTTGCGATTTACGG
* *
2855530 ATACG-CATTGCGATTTACGT
1 AT-CGTCGTTGCGATTTACGG
* *
2855550 ATTC-TCGTTGCGATTTGCAG
1 A-TCGTCGTTGCGATTTACGG
*
2855570 ATACG-CGTTGCGATTTACGT
1 AT-CGTCGTTGCGATTTACGG
*
2855590 ATTC-TCGTTGCAATTTACGG
1 A-TCGTCGTTGCGATTTACGG
**
2855610 ATACG-CGTTGCGATTTTACAT
1 AT-CGTCGTTGCGA-TTTACGG
*
2855631 ATTGTCGTTGCGATTTACGG
1 ATCGTCGTTGCGATTTACGG
2855651 ATACG-CGTTGCGATTTTACGG
1 AT-CGTCGTTGCGA-TTTACGG
2855672 ATAC-TCGTTGCGATTTTACGG
1 AT-CGTCGTTGCGA-TTTACGG
2855693 ATAC-TCGTTGCGAT
1 AT-CGTCGTTGCGAT
2855707 AGTCAGAATC
Statistics
Matches: 161, Mismatches: 21, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.01
20 92 0.57
21 67 0.42
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
ATCGTCGTTGCGATTTACGG
Found at i:2855552 original size:40 final size:41
Alignment explanation
Indices: 2855492--2855706 Score: 317
Period size: 40 Copynumber: 5.3 Consensus size: 41
2855482 CTTTAAAAAT
*
2855492 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* * *
2855533 CGCATTGCGA-TTTACGTATTCTCGTTGCGATTTGCAGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
*
2855573 CGCGTTGCGA-TTTACGTATTCTCGTTGCAATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* *
2855613 CGCGTTGCGATTTTACATATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* *
2855654 CGCGTTGCGATTTTACGGATACTCGTTGCGATTTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGA-TTTACGGATA
*
2855696 CTCGTTGCGAT
1 CGCGTTGCGAT
2855707 AGTCAGAATC
Statistics
Matches: 156, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 73 0.47
41 63 0.40
42 20 0.13
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:2855720 original size:62 final size:62
Alignment explanation
Indices: 2855492--2855768 Score: 212
Period size: 60 Copynumber: 4.5 Consensus size: 62
2855482 CTTTAAAAAT
** * * * * *
2855492 CGCGTTGCGATTTTAC-GTATTGTCGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATT
1 CGCGTTGCGATTTTACAG-ATACTCGTTGCGATTCACGAATACGCGTTGCGATTTTACGGATA
* * * * * * * *
2855553 CTCGTTGCGA-TTTGCAGATACGCGTTGCGATTTACGTATTCTCGTTGC-AATTTACGGATA
1 CGCGTTGCGATTTTACAGATACTCGTTGCGATTCACGAATACGCGTTGCGATTTTACGGATA
* ** * *
2855613 CGCGTTGCGATTTTACATATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATA
1 CGCGTTGCGATTTTACAGATACTCGTTGCGATTCACGAATACGCGTTGCGATTTTACGGATA
* * * *
2855675 CTCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCGTTGCGATTTATA-TG-TT
1 CGCGTTGCGATTTTACAGATACTCGTTGCGAT--TCACGAATACGCGTTGCGATTT-TACGGATA
* * *
2855736 CGCGTTGCGATTTT-CATATTCGCGTTGCGATTC
1 CGCGTTGCGATTTTACAGATACTCGTTGCGATTC
2855769 TGAAAAATCG
Statistics
Matches: 174, Mismatches: 35, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
58 2 0.01
59 1 0.01
60 58 0.33
61 54 0.31
62 52 0.30
63 5 0.03
64 2 0.01
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (62 bp):
CGCGTTGCGATTTTACAGATACTCGTTGCGATTCACGAATACGCGTTGCGATTTTACGGATA
Found at i:2855738 original size:20 final size:20
Alignment explanation
Indices: 2855715--2855767 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2855705 ATAGTCAGAA
*
2855715 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
2855735 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
2855755 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2855768 CTGAAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:2855759 original size:40 final size:40
Alignment explanation
Indices: 2855492--2855767 Score: 238
Period size: 40 Copynumber: 6.8 Consensus size: 40
2855482 CTTTAAAAAT
*
2855492 CGCGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTT-CGTATTCG-CGTTGCGATTTAAGGATA
* * * *
2855533 CGCATTGCGATTTACGTATTCTCGTTGCGATTTGCA-GATA
1 CGCGTTGCGATTTTCGTATTCGCGTTGCGATTT-AAGGATA
* * * *
2855573 CGCGTTGCGATTTACGTATTCTCGTTGCAATTTACGGATA
1 CGCGTTGCGATTTTCGTATTCGCGTTGCGATTTAAGGATA
* *
2855613 CGCGTTGCGATTTTACATATT-GTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTT-CGTATTCG-CGTTGCGATTTAAGGATA
* * * *
2855654 CGCGTTGCGATTTTACGGATACTCGTTGCGATTTTACGGATA
1 CGCGTTGCGATTTT-CGTATTCGCGTTGCGA-TTTAAGGATA
* ** * * *
2855696 CTCGTTGCGATAGTCAG-AATCGCGTTGCGATTTATATG-TT
1 CGCGTTGCGATTTTC-GTATTCGCGTTGCGATTTA-AGGATA
*
2855736 CGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGCGTTGCGATTTTCGTATTCGCGTTGCGATT
2855768 CTGAAAAATC
Statistics
Matches: 194, Mismatches: 31, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
40 100 0.52
41 72 0.37
42 22 0.11
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (40 bp):
CGCGTTGCGATTTTCGTATTCGCGTTGCGATTTAAGGATA
Found at i:2855866 original size:20 final size:19
Alignment explanation
Indices: 2855817--2855870 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2855807 ATTCTTCATA
2855817 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
2855836 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
2855857 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
2855871 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:2858757 original size:43 final size:42
Alignment explanation
Indices: 2858709--2858822 Score: 103
Period size: 41 Copynumber: 2.7 Consensus size: 42
2858699 TTATTTATTC
2858709 ATTTTT-TGTTTT-CATATTTATTTAATTTTTCCCCTTTTGATCT
1 ATTTTTAT-TTTTACATATTT-TTTAATTTTT-CCCTTTTGATCT
* **
2858752 ATTTTTATTTTTACTTATTTTTTTCTTTTTCCCTTTTGAT-T
1 ATTTTTATTTTTACATATTTTTTAATTTTTCCCTTTTGATCT
* *
2858793 GA-TTTTATTATTTA-TTATTTTTTTATTTTT
1 -ATTTTTATT-TTTACATATTTTTTAATTTTT
2858823 TCTTTGCCCT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
41 23 0.37
42 15 0.24
43 18 0.29
44 7 0.11
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.71
Consensus pattern (42 bp):
ATTTTTATTTTTACATATTTTTTAATTTTTCCCTTTTGATCT
Found at i:2858811 original size:41 final size:43
Alignment explanation
Indices: 2858723--2858822 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 43
2858713 TTTGTTTTCA
*
2858723 TATTTATTTAATTTTTCCCCTTTTGATCTATTTTTATTTTTACT
1 TATTT-TTTTATTTTTCCCCTTTTGATCTATTTTTATTTTTACT
*
2858767 TATTTTTTTCTTTTT-CCCTTTTGAT-TGA-TTTTATTATTTA-T
1 TATTTTTTTATTTTTCCCCTTTTGATCT-ATTTTTATT-TTTACT
2858808 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
2858823 TCTTTGCCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 23 0.45
42 15 0.29
43 8 0.16
44 5 0.10
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (43 bp):
TATTTTTTTATTTTTCCCCTTTTGATCTATTTTTATTTTTACT
Found at i:2858823 original size:42 final size:43
Alignment explanation
Indices: 2858723--2858824 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
2858713 TTTGTTTTCA
* *
2858723 TATTTATTTAATTTTTCCCCTTTTGATCTATTTTTATTTTTACT
1 TATTT-TTTTATTTTTTCCCTTTTGATCTATTTTTATTTTTACT
*
2858767 TATTTTTTT-CTTTTTCCCTTTTGAT-TGA-TTTTATTATTTA-T
1 TATTTTTTTATTTTTTCCCTTTTGATCT-ATTTTTATT-TTTACT
2858808 TATTTTTTTATTTTTTC
1 TATTTTTTTATTTTTTC
2858825 TTTGCCCTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 18 0.35
42 25 0.49
43 3 0.06
44 5 0.10
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (43 bp):
TATTTTTTTATTTTTTCCCTTTTGATCTATTTTTATTTTTACT
Found at i:2862964 original size:83 final size:82
Alignment explanation
Indices: 2862824--2863347 Score: 468
Period size: 83 Copynumber: 6.3 Consensus size: 82
2862814 TTTAAGATAA
* * *
2862824 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTATG
1 CATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCC-ACAAAGACCTTCGAGTTCGACTACG
2862889 CTCAGCTCCAAGGCACAT
65 CTCAGCTCCAAGGCACAT
* * * *
2862907 TATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCC-ACAAAGACCTTCGAGTTCGACTACG
*
2862972 CTCATCTCCAAGGCACAT
65 CTCAGCTCCAAGGCACAT
* * *** * * *
2862990 CATTTACAGCATAACTTAAGTTGAGAAGGGCTATCTG-C-CAAAGACCCTT-GAGTTTGATTACA
1 CATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCACAAAGA-CCTTCGAGTTCGACTACG
* * * *
2863052 CTCAACTTCGAGGGCGCAT
65 CTCAGC-TCCAAGGCACAT
* * *
2863071 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTATGACCA-AAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTCAAGGCAAGAAGGGCTA--TCTG-CCACAAAGACCTTCGAGTTCGACTA
* * *
2863135 CGCTTAGCTCTAAGGCATAT
63 CGCTCAGCTCCAAGGCACAT
* * * *
2863155 CATTTGAAGCATAACTTAAGTCGAA-AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTCAAGGC-AAGAAGGGCTATCTGCC-A-CAAAGACCTTCGAGTTCGACTA
* * *
2863219 CGCTCAGCTCTAAGTCAAAT
63 CGCTCAGCTCCAAGGCACAT
** * * * * * * * *
2863239 CATTTATAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCA-AAA-ACCCTCGAGTTCGATTACAC
1 CATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
* *
2863302 TCAGGTCCGATGGCACAT
66 TCAGCTCC-AAGGCACAT
* * *
2863320 CATTTACAGCATAACTTAAGGCTAGAAG
1 CATTTGCAGCATAACTCAAGGCAAGAAG
2863348 ATTTATCTGT
Statistics
Matches: 361, Mismatches: 66, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
80 44 0.12
81 75 0.21
82 5 0.01
83 108 0.30
84 108 0.30
85 21 0.06
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (82 bp):
CATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACAT
Found at i:2863166 original size:84 final size:82
Alignment explanation
Indices: 2862824--2863347 Score: 453
Period size: 84 Copynumber: 6.3 Consensus size: 82
2862814 TTTAAGATAA
* * * *
2862824 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTA-TCTGCCAACAAAGACCTTCGAGTTCGACTAT
1 CATTTGAAGCATAACTTAAGGCTAGAAGGGCTATTCTGCC-A-AAAGACCTTCGAGTTCGACTAC
2862888 GCTCAGCTCCAAGGCACAT
64 GCTCAGCTCCAAGGCACAT
* * * *
2862907 TATTTGCAA-CATAGCTCAAGGCAAGAAGGGCTATT-TGCCAACAAAGACCTTCGAGTTCGACTA
1 CATTTG-AAGCATAACTTAAGGCTAGAAGGGCTATTCTGCC-A-AAAGACCTTCGAGTTCGACTA
*
2862970 CGCTCATCTCCAAGGCACAT
63 CGCTCAGCTCCAAGGCACAT
* * *
2862990 CATTT-ACAGCATAACTTAA-GTTGAGAAGGGCTA-TCTGCC-AAAGACCCTT-GAGTTTGATTA
1 CATTTGA-AGCATAACTTAAGGCT-AGAAGGGCTATTCTGCCAAAAGA-CCTTCGAGTTCGACTA
* * * * *
2863050 CACTCAACTTCGAGGGCGCAT
63 CGCTCAGC-TCCAAGGCACAT
* * * *
2863071 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTATGACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGAAGCATAACTTAAGGCTAGAAGGGCTA-TTCTG-CCAAAAGACCTTCGAGTTCGACTAC
* * *
2863136 GCTTAGCTCTAAGGCATAT
64 GCTCAGCTCCAAGGCACAT
* * * *
2863155 CATTTGAAGCATAACTTAAGTCGAAAAGGGTTA-TCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 CATTTGAAGCATAACTTAAGGCTAGAAGGGCTATTCTGCC-A--AAAGACCTTCGAGTTCGACTA
* * *
2863219 CGCTCAGCTCTAAGTCAAAT
63 CGCTCAGCTCCAAGGCACAT
* * * * * *
2863239 CATTT-ATAGCATAGCTTAAGTCGAGAAGGGCTATT-TGCCAAAA-ACCCTCGAGTTCGATTACA
1 CATTTGA-AGCATAACTTAAGGCTAGAAGGGCTATTCTGCCAAAAGACCTTCGAGTTCGACTACG
* *
2863301 CTCAGGTCCGATGGCACAT
65 CTCAGCTCC-AAGGCACAT
2863320 CATTT-ACAGCATAACTTAAGGCTAGAAG
1 CATTTGA-AGCATAACTTAAGGCTAGAAG
2863348 ATTTATCTGT
Statistics
Matches: 363, Mismatches: 57, Indels: 44
0.78 0.12 0.09
Matches are distributed among these distances:
80 43 0.12
81 74 0.20
82 9 0.02
83 103 0.28
84 114 0.31
85 20 0.06
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (82 bp):
CATTTGAAGCATAACTTAAGGCTAGAAGGGCTATTCTGCCAAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACAT
Found at i:2863267 original size:249 final size:247
Alignment explanation
Indices: 2862824--2863347 Score: 705
Period size: 249 Copynumber: 2.1 Consensus size: 247
2862814 TTTAAGATAA
* *
2862824 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTATG
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAGACCTTCGAGTTCGACTACG
* * *
2862889 CTCAGCTCCAAGGCACATTATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAGA
66 CTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGA
* * *
2862954 CCTTCGAGTTCGACTACGCTCATCTCCAAGGCACATCATTTACAGCATAACTTAAGTTGAGAAGG
131 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATCATTTACAGCATAACTTAAGTCGAGAAGG
* * * * *
2863019 GCTATCTGCCAAAGACCCTTGAGTTTGATTACACTCAACTTCGAGGGCGCAT
196 GCTATCTGCCAAAAACCCTCGAGTTCGATTACACTCAACTCCGAGGGCACAT
2863071 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTATGACC-A-AAAGACCTTCGAGTTCGACT
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTA--TATG-CCAACAAAGACCTTCGAGTTCGACT
* * * * * *
2863134 ACGCTTAGCTCTAAGGCATATCATTTG-AAGCATAACTTAAGTCGAA-AAGGGTTATCTGCCAAC
63 ACGCTCAGCTCCAAGGCACATCATTTGCAA-CATAACTCAAGGC-AAGAAGGGCTATCTGCCAA-
* * * *
2863197 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGTCAAATCATTTATAGCATAGCTTAAGTCG
125 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATCATTTACAGCATAACTTAAGTCG
* ** *
2863262 AGAAGGGCTATTTGCCAAAAACCCTCGAGTTCGATTACACTCAGGTCCGATGGCACAT
190 AGAAGGGCTATCTGCCAAAAACCCTCGAGTTCGATTACACTCAACTCCGAGGGCACAT
* *
2863320 CATTTACAGCATAACTTAAGGCTAGAAG
1 CATTTGCAGCATAACTCAAGGCTAGAAG
2863348 ATTTATCTGT
Statistics
Matches: 242, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
247 35 0.14
248 66 0.27
249 139 0.57
250 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (247 bp):
CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAGA
CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATCATTTACAGCATAACTTAAGTCGAGAAGG
GCTATCTGCCAAAAACCCTCGAGTTCGATTACACTCAACTCCGAGGGCACAT
Found at i:2863356 original size:165 final size:165
Alignment explanation
Indices: 2862824--2863356 Score: 562
Period size: 165 Copynumber: 3.2 Consensus size: 165
2862814 TTTAAGATAA
* * *
2862824 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAT
1 CATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
2862888 GCTCAGCTCCAAGGCACATTATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAG
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATTTGCC-A-AAAG
*
2862953 ACCTTCGAGTTCGACTACGCTCATCTCCAAGGCACAT
129 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
2862990 CATTTACAGCATAACTTAA-GTTGAGAAGGGCTATCTG----CCAAAGACCCTT-GAGTTTGATT
1 CATTTACAGCATAACTTAAGGCT-AGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTCGACT
* * * * * * * *
2863049 ACACTCAACTTCGAGGGCGCATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTATGACCA
64 ACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTA-TT-TG-CCA
* * *
2863114 AAAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCATAT
125 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * *
2863155 CATTTGA-AGCATAACTTAAGTCGAAAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 CATTT-ACAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
* * * ** * * *
2863219 CGCTCAGCTCTAAGTCAAATCATTTATAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAA-A
65 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATTTGCCAAAAGA
* * * * *
2863283 CCCTCGAGTTCGATTACACTCAGGTCCGATGGCACAT
130 CCTTCGAGTTCGACTACGCTCAGCTCC-AAGGCACAT
**
2863320 CATTTACAGCATAACTTAAGGCTAGAAGATTTATCTG
1 CATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTG
2863357 TCAATAAAAA
Statistics
Matches: 296, Mismatches: 55, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
163 20 0.07
164 64 0.22
165 113 0.38
166 36 0.12
167 4 0.01
168 37 0.12
169 22 0.07
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (165 bp):
CATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATTTGCCAAAAGAC
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Done.